]> BFO OWL specification label Really of interest to developers only Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification. BFO CLIF specification label Person:Alan Ruttenberg Really of interest to developers only Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2 editor preferred term GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English) editor preferred term example of usage A phrase describing how a class name should be used. May also include other kinds of examples that facilitate immediate understanding of a class semantics, such as widely known prototypical subclasses or instances of the class. Although essential for high level terms, examples for low level terms (e.g., Affymetrix HU133 array) are not GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober example has curation status OBI_0000281 PERSON:Alan Ruttenberg PERSON:Bill Bug PERSON:Melanie Courtot has curation status definition definition GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. definition editor note An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology. GROUP:OBI:<http://purl.obfoundry.org/obo/obi> PERSON:Daniel Schober editor note term editor 20110707, MC: label update to term editor and definition modified accordingly. See http://code.google.com/p/information-artifact-ontology/issues/detail?id=115. GROUP:OBI:<http://purl.obolibrary.org/obo/obi> Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people PERSON:Daniel Schober term editor alternative term definition source Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober definition source formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007 curator note imported from elucidation has associated axiom(nl) has associated axiom(fol) NCBI GeneID Oliver He, Yue Liu A GeneID in the NCBI Gene database NCBI LocusTag the NCBI LocusTag name of a gene Oliver He, Yue Liu modification date Oliver He, Yue Liu a date of content modification organism NCBITaxon ID Oliver He, Yue Liu The NCBITaxon ontology ID of an organism. chromosome ID of gene Oliver He A chromosome ID where a gene is located. type of gene an annotation property that specifies the type of a gene Oliver He nomenclature status Oliver He an annotation property that specifies a nomenclature status has PubMed association Yongqun He An annotation property that represents a gene's association with PubMed publication(s). temporal interpretation https://code.google.com/p/obo-relations/wiki/ROAndTime An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context. has_rank A metadata relation between a class and its taxonomic rank (eg species, family) ncbi_taxonomy database_cross_reference has_exact_synonym has_obo_namespace has_related_synonym has part has part has_part inheres in at all times inheresInAt inheres-in_at (iff (inheresInAt a b t) (and (DependentContinuant a) (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [051-002] BFO2 Reference: independent continuant that is not a spatial region Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'inheres in at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'inheres in@en(x,y,t)'. BFO 2 Reference: Inherence is a subrelation of s-depends_on which holds between a dependent continuant and an independent continuant that is not a spatial region. Since dependent continuants cannot migrate from one independent continuant bearer to another, it follows that if b s-depends_on independent continuant c at some time, then b s-depends_on c at all times at which a exists. Inherence is in this sense redundantly time-indexed.For example, consider the particular instance of openness inhering in my mouth at t as I prepare to take a bite out of a donut, followed by a closedness at t+1 when I bite the donut and start chewing. The openness instance is then shortlived, and to say that it s-depends_on my mouth at all times at which this openness exists, means: at all times during this short life. Every time you make a fist, you make a new (instance of the universal) fist. (Every time your hand has the fist-shaped quality, there is created a new instance of the universal fist-shaped quality.) BFO2 Reference: specifically dependent continuant b inheres_in c at t =Def. b is a dependent continuant & c is an independent continuant that is not a spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference: [051-002]) concretized by at some time concretized-by_st [copied from inverse property 'concretizes at some time'] you may concretize a poem as a pattern of memory traces in your head [copied from inverse property 'concretizes at some time'] b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002]) [copied from inverse property 'concretizes at some time'] You may concretize a piece of software by installing it in your computer [copied from inverse property 'concretizes at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'concretizes at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'concretizes@en'(x,y,t) [copied from inverse property 'concretizes at some time'] You may concretize a recipe that you find in a cookbook by turning it into a plan which exists as a realizable dependent continuant in your head. specifically depends on at all times (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002] (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002] A pain s-depends_on the organism that is experiencing the pain If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002]) specificallyDependsOn (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002] BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28 s-depends-on_at BFO2 Reference: specifically dependent continuant\; process; process boundary (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'specifically depends on at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'specifically depends on@en(x,y,t)'. (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001] BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20 BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place. If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001]) If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001]) To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64 a gait s-depends_on the walking object. (All at some specific time.) a shape s-depends_on the shaped object an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002]) if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002]) one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs reciprocal s-dependence between occurrents: a process of buying and the associated process of selling reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball the one-sided dependence of an occurrent on an independent continuant: handwave on a hand the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45 the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45 the two-sided reciprocal s-dependence of the roles of husband and wife [20 occupies spatial region at some time occupiesSpatialRegionAt (forall (r t) (if (Region r) (occupiesSpatialRegionAt r r t))) // axiom label in BFO2 CLIF: [042-002] located-at-r_st BFO2 Reference: spatial region (forall (x r t) (if (occupiesSpatialRegionAt x r t) (and (SpatialRegion r) (IndependentContinuant x)))) // axiom label in BFO2 CLIF: [041-002] (forall (x y r_1 t) (if (and (occupiesSpatialRegionAt x r_1 t) (continuantPartOfAt y x t)) (exists (r_2) (and (continuantPartOfAt r_2 r_1 t) (occupiesSpatialRegionAt y r_2 t))))) // axiom label in BFO2 CLIF: [043-001] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t) BFO2 Reference: independent continuant b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002]) every region r is occupies_spatial_region r at all times. (axiom label in BFO2 Reference: [042-002]) if b occupies_spatial_region r at t & b continuant_part_of b at t, then there is some r which is continuant_part_of r at t such that b occupies_spatial_region r at t. (axiom label in BFO2 Reference: [043-001]) exists at exists-at existsAt BFO2 Reference: entity BFO2 Reference: temporal region b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002]) has continuant part at all times hasContinuantPartAt (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001] c-has-part_at [copied from inverse property 'part of continuant at all times that whole exists'] forall(t) exists_at(y,t) -> exists_at(x,t) and 'part of continuant'(x,y,t) [copied from inverse property 'part of continuant at all times that whole exists'] This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'has continuant part at all times' Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has continuant part at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has continuant part@en(x,y,t)'. b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) has occurrent part [copied from inverse property 'part of occurrent'] Mary’s 5th birthday occurrent_part_of Mary’s life [copied from inverse property 'part of occurrent'] the first set of the tennis match occurrent_part_of the tennis match. [copied from inverse property 'part of occurrent'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion. (iff (hasOccurrentPart a b) (occurrentPartOf b a)) // axiom label in BFO2 CLIF: [007-001] [copied from inverse property 'part of occurrent'] BFO2 Reference: occurrent o-has-part hasOccurrentPart [copied from inverse property 'part of occurrent'] b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002]) [copied from inverse property 'part of occurrent'] The process of a footballer’s heart beating once is an occurrent part but not a temporal_part of a game of football. b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001]) has proper occurrent part [copied from inverse property 'proper part of occurrent'] b proper_occurrent_part_of c =Def. b occurrent_part_of c & b and c are not identical. (axiom label in BFO2 Reference: [005-001]) hasProperOccurrentPart o-has-ppart b has_proper_occurrent_part c = Def. c proper_occurrent_part_of b. [XXX-001 has temporal part [copied from inverse property 'temporal part of'] the 4th year of your life is a temporal part of your life\. The first quarter of a game of football is a temporal part of the whole game\. The process of your heart beating from 4pm to 5pm today is a temporal part of the entire process of your heart beating.\ The 4th year of your life is a temporal part of your life [copied from inverse property 'temporal part of'] the process boundary which separates the 3rd and 4th years of your life. [copied from inverse property 'temporal part of'] your heart beating from 4pm to 5pm today is a temporal part of the process of your heart beating [copied from inverse property 'temporal part of'] b proper_temporal_part_of c =Def. b temporal_part_of c & not (b = c). (axiom label in BFO2 Reference: [116-001]) has-t-part [copied from inverse property 'temporal part of'] b temporal_part_of c =Def.b occurrent_part_of c & & for some temporal region t, b occupies_temporal_region t & for all occurrents d, t (if d occupies_temporal_region t & t? occurrent_part_of t then (d occurrent_part_of a iff d occurrent_part_of b)). (axiom label in BFO2 Reference: [078-003]) has spatial occupant at some time r-location-of_st [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: independent continuant [copied from inverse property 'occupies spatial region at some time'] b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002]) [copied from inverse property 'occupies spatial region at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t) [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: spatial region has specific dependent at some time [copied from inverse property 'specifically depends on at some time'] reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs [copied from inverse property 'specifically depends on at some time'] the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball has-s-dep_st [copied from inverse property 'specifically depends on at some time'] BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20 [copied from inverse property 'specifically depends on at some time'] a shape s-depends_on the shaped object [copied from inverse property 'specifically depends on at some time'] BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place. [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head [copied from inverse property 'specifically depends on at some time'] the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45 [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant [copied from inverse property 'specifically depends on at some time'] a gait s-depends_on the walking object. (All at some specific time.) [copied from inverse property 'specifically depends on at some time'] To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64 [copied from inverse property 'specifically depends on at some time'] reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces [copied from inverse property 'specifically depends on at some time'] the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45 [copied from inverse property 'specifically depends on at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'specifically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'specifically depends on@en'(x,y,t) [copied from inverse property 'specifically depends on at some time'] reciprocal s-dependence between occurrents: a process of buying and the associated process of selling [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command [copied from inverse property 'specifically depends on at some time'] BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28 [copied from inverse property 'specifically depends on at some time'] the one-sided dependence of an occurrent on an independent continuant: handwave on a hand [copied from inverse property 'specifically depends on at some time'] A pain s-depends_on the organism that is experiencing the pain [copied from inverse property 'specifically depends on at some time'] the two-sided reciprocal s-dependence of the roles of husband and wife [20 [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell [copied from inverse property 'specifically depends on at some time'] BFO2 Reference: specifically dependent continuant\; process; process boundary [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism has spatiotemporal occupant occupied-by [copied from inverse property 'occupies spatiotemporal region'] BFO 2 Reference: The occupies_spatiotemporal_region and occupies_temporal_region relations are the counterpart, on the occurrent side, of the relation occupies_spatial_region. [copied from inverse property 'occupies spatiotemporal region'] p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003]) occupies spatiotemporal region occupies BFO 2 Reference: The occupies_spatiotemporal_region and occupies_temporal_region relations are the counterpart, on the occurrent side, of the relation occupies_spatial_region. occupiesSpatiotemporalRegion p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003]) part of occurrent [copied from inverse property 'has occurrent part'] b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001]) BFO2 Reference: occurrent (forall (x) (if (Occurrent x) (occurrentPartOf x x))) // axiom label in BFO2 CLIF: [113-002] (forall (x y t) (if (and (occurrentPartOf x y t) (occurrentPartOf y x t)) (= x y))) // axiom label in BFO2 CLIF: [123-001] occurrentPartOf (forall (x y z) (if (and (occurrentPartOf x y) (occurrentPartOf y z)) (occurrentPartOf x z))) // axiom label in BFO2 CLIF: [112-001] o-part-of (forall (x y t) (if (exists (v) (and (occurrentPartOf v x t) (occurrentPartOf v y t))) (exists (z) (forall (u w) (iff (iff (occurrentPartOf w u t) (and (occurrentPartOf w x t) (occurrentPartOf w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [125-001] (forall (x y t) (if (and (occurrentPartOf x y t) (not (= x y))) (exists (z) (and (occurrentPartOf z y t) (not (exists (w) (and (occurrentPartOf w x t) (occurrentPartOf w z t)))))))) // axiom label in BFO2 CLIF: [124-001] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion. Mary’s 5th birthday occurrent_part_of Mary’s life The process of a footballer’s heart beating once is an occurrent part but not a temporal_part of a game of football. b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002]) occurrent_part_of is antisymmetric. (axiom label in BFO2 Reference: [123-001]) occurrent_part_of is reflexive (every occurrent entity is an occurrent_part_of itself). (axiom label in BFO2 Reference: [113-002]) occurrent_part_of is transitive. (axiom label in BFO2 Reference: [112-001]) occurrent_part_of satisfies unique product. (axiom label in BFO2 Reference: [125-001]) occurrent_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [124-001]) the first set of the tennis match occurrent_part_of the tennis match. temporal part of t-part-of (iff (temporalPartOf a b) (and (occurrentPartOf a b) (exists (t) (and (TemporalRegion t) (occupiesSpatioTemporalRegion a t))) (forall (c t_1) (if (and (Occurrent c) (occupiesSpatioTemporalRegion c t_1) (occurrentPartOf t_1 r)) (iff (occurrentPartOf c a) (occurrentPartOf c b)))))) // axiom label in BFO2 CLIF: [078-003] (iff (properTemporalPartOf a b) (and (temporalPartOf a b) (not (= a b)))) // axiom label in BFO2 CLIF: [116-001] if b proper_temporal_part_of c, then there is some d which is a proper_temporal_part_of c and which shares no parts with b. (axiom label in BFO2 Reference: [117-002]) temporalPartOf (forall (x y) (if (properTemporalPartOf x y) (exists (z) (and (properTemporalPartOf z y) (not (exists (w) (and (temporalPartOf w x) (temporalPartOf w z)))))))) // axiom label in BFO2 CLIF: [117-002] b proper_temporal_part_of c =Def. b temporal_part_of c & not (b = c). (axiom label in BFO2 Reference: [116-001]) b temporal_part_of c =Def.b occurrent_part_of c & & for some temporal region t, b occupies_temporal_region t & for all occurrents d, t (if d occupies_temporal_region t & t? occurrent_part_of t then (d occurrent_part_of a iff d occurrent_part_of b)). (axiom label in BFO2 Reference: [078-003]) the 4th year of your life is a temporal part of your life\. The first quarter of a game of football is a temporal part of the whole game\. The process of your heart beating from 4pm to 5pm today is a temporal part of the entire process of your heart beating.\ The 4th year of your life is a temporal part of your life the process boundary which separates the 3rd and 4th years of your life. your heart beating from 4pm to 5pm today is a temporal part of the process of your heart beating projects onto spatial region at some time st-projects-onto-s_st spatial projection of spatiotemporal at some time s-projection-of-st_st projects onto temporal region st-projects-onto-t temporal projection of spatiotemporal t-projection-of-st occupies temporal region occupiesTemporalRegion spans p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001]) has temporal occupant [copied from inverse property 'occupies temporal region'] p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001]) spanOf span-of during which exists during-which-exists [copied from inverse property 'exists at'] b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002]) [copied from inverse property 'exists at'] BFO2 Reference: entity [copied from inverse property 'exists at'] BFO2 Reference: temporal region bearer of at all times Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'bearer of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'bearer of@en(x,y,t)'. BFO2 Reference: independent continuant that is not a spatial region BFO2 Reference: specifically dependent continuant (iff (bearerOfAt a b t) (and (specificallyDependsOnAt b a t) (IndependentContinuant a) (not (SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004] b bearer_of c at t =Def. c s-depends_on b at t & b is an independent continuant that is not a spatial region. (axiom label in BFO2 Reference: [053-004]) bearer-of_at bearerOfAt has disposition at all times Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has disposition at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has disposition@en(x,y,t)'. has-d_at hasDispositionAt (iff (hasDispositionAt a b t) (dispositionOf b a t)) // axiom label in BFO2 CLIF: [069-001] a has_disposition b at t =Def. b disposition_of a at t. (axiom label in BFO2 Reference: [069-001]) has specific dependent at all times has-s-dep_at specifically depends on at some time s-depends-on_st (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002] (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001] BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28 BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20 BFO2 Reference: specifically dependent continuant\; process; process boundary If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001]) To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64 a shape s-depends_on the shaped object one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question specificallyDependsOn (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002] (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'specifically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'specifically depends on@en'(x,y,t) (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002] A pain s-depends_on the organism that is experiencing the pain BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place. If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001]) If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002]) a gait s-depends_on the walking object. (All at some specific time.) an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002]) if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002]) one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs reciprocal s-dependence between occurrents: a process of buying and the associated process of selling reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball the one-sided dependence of an occurrent on an independent continuant: handwave on a hand the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45 the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45 the two-sided reciprocal s-dependence of the roles of husband and wife [20 part of continuant at some time (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001] (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001] continuantPartOfAt (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) BFO2 Reference: continuant (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001] [copied from inverse property 'has continuant part at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has continuant part@en'(x,y,t) (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002] (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001] [copied from inverse property 'has continuant part at some time'] b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) c-part-of_st Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'part of continuant@en'(x,y,t) BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion. Mary’s arm continuant_part_of Mary in the time of her life prior to her operation b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001]) continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002]) continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001]) continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001]) continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001]) if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002]) the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. part of continuant at all times (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002] (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001] BFO2 Reference: continuant continuantPartOfAt c-part-of_at [copied from inverse property 'has continuant part at all times that part exists'] This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'part of continuant at all times' (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001] (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) [copied from inverse property 'has continuant part at all times that part exists'] forall(t) exists_at(y,t) -> exists_at(x,t) and 'has continuant part'(x,y,t) BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'part of continuant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'part of continuant@en(x,y,t)'. (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001] (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002] (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion. Mary’s arm continuant_part_of Mary in the time of her life prior to her operation b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001]) continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002]) continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001]) continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001]) continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001]) if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002]) the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. has continuant part at some time c-has-part_st [copied from inverse property 'part of continuant at some time'] BFO2 Reference: continuant [copied from inverse property 'part of continuant at some time'] the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. [copied from inverse property 'part of continuant at some time'] b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) hasContinuantPartAt [copied from inverse property 'part of continuant at some time'] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation [copied from inverse property 'part of continuant at some time'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion. Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has continuant part@en'(x,y,t) [copied from inverse property 'part of continuant at some time'] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) [copied from inverse property 'part of continuant at some time'] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001] [copied from inverse property 'part of continuant at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'part of continuant@en'(x,y,t) b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) part of continuant at all times that whole exists This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'has continuant part at all times' [copied from inverse property 'has continuant part at all times'] b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) forall(t) exists_at(y,t) -> exists_at(x,t) and 'part of continuant'(x,y,t) [copied from inverse property 'has continuant part at all times'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has continuant part at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has continuant part@en(x,y,t)'. c-part-of-object_at has continuant part at all times that part exists [copied from inverse property 'part of continuant at all times'] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. [copied from inverse property 'part of continuant at all times'] BFO2 Reference: continuant [copied from inverse property 'part of continuant at all times'] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) [copied from inverse property 'part of continuant at all times'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion. [copied from inverse property 'part of continuant at all times'] b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) [copied from inverse property 'part of continuant at all times'] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'part of continuant at all times' c-has-part-object_at [copied from inverse property 'part of continuant at all times'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'part of continuant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'part of continuant@en(x,y,t)'. [copied from inverse property 'part of continuant at all times'] the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. forall(t) exists_at(y,t) -> exists_at(x,t) and 'has continuant part'(x,y,t) is genome of organism a 'part of continuant at some time' relation that incides a genome belongs to a organism. Yongqun He, Bin Zhao is gene of organism Oliver He, Yue Liu a relation between a gene and the organism where this gene belongs to the organism in nature. It does not include a foreign gene that is transferred to an organism by a genetic engineering method. entity An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001]) entity Entity BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81 Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf Julius Caesar Verdi’s Requiem the Second World War your body mass index continuant (forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] (forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] (forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002]) Continuant continuant (forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240 Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001]) if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002]) if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002]) occurrent Occurrent (forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] occurrent (forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002]) BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players. Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001]) Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process. Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame. b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001]) independent continuant (forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] (forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] (iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001]) For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002]) a chair a heart a leg ic IndependentContinuant a molecule a spatial region an atom an orchestra. an organism b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) the bottom right portion of a human torso the interior of your mouth spatial region true true (forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] SpatialRegion (forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001]) BFO 2 Reference: Spatial regions do not participate in processes. Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional. s-region A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001]) temporal region true true (forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] t-region (forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] (forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001]) All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001]) Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional TemporalRegion Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002]) spatiotemporal region true true (forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] (forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] (forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] (forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001]) Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001]) Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002]) SpatiotemporalRegion st-region (forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001]) All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001]) Every spatiotemporal region occupies_spatiotemporal_region itself. the spatiotemporal region occupied by a human life the spatiotemporal region occupied by a process of cellular meiosis. the spatiotemporal region occupied by the development of a cancer tumor process BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war) process Process (iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] a process of cell-division, \ a beating of the heart a process of meiosis a process of sleeping p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) the course of a disease the flight of a bird the life of an organism your process of aging. disposition disposition (forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] Disposition (forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type [89 If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002]) an atom of element X has the disposition to decay to an atom of element Y b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002]) certain people have a predisposition to colon cancer children are innately disposed to categorize objects in certain ways. the cell wall is disposed to filter chemicals in endocitosis and exocitosis realizable entity (forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] (forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] RealizableEntity All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002]) To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002]) realizable the disposition of this piece of metal to conduct electricity. the disposition of your blood to coagulate the function of your reproductive organs the role of being a doctor the role of this boundary to delineate where Utah and Colorado meet quality (forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] Quality (forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001]) quality If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001]) the ambient temperature of this portion of air the color of a tomato the length of the circumference of your waist the mass of this piece of gold. the shape of your nose the shape of your nostril specifically dependent continuant (iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] sdc (iff (RelationalSpecificallyDependentContinuant a) (and (SpecificallyDependentContinuant a) (forall (t) (exists (b c) (and (not (SpatialRegion b)) (not (SpatialRegion c)) (not (= b c)) (not (exists (d) (and (continuantPartOfAt d b t) (continuantPartOfAt d c t)))) (specificallyDependsOnAt a b t) (specificallyDependsOnAt a c t)))))) // axiom label in BFO2 CLIF: [131-004] Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc. SpecificallyDependentContinuant b is a relational specifically dependent continuant = Def. b is a specifically dependent continuant and there are n &gt; 1 independent continuants c1, … cn which are not spatial regions are such that for all 1 i &lt; j n, ci and cj share no common parts, are such that for each 1 i n, b s-depends_on ci at every time t during the course of b’s existence (axiom label in BFO2 Reference: [131-004]) b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) of one-sided specifically dependent continuants: the mass of this tomato of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates. the disposition of this fish to decay the function of this heart: to pump blood the mutual dependence of proton donors and acceptors in chemical reactions [79 the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction the pink color of a medium rare piece of grilled filet mignon at its center the role of being a doctor the shape of this hole. the smell of this portion of mozzarella role BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives. role Role (forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married. b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001]) the priest role the role of a boundary to demarcate two neighboring administrative territories the role of a building in serving as a military target the role of a stone in marking a property boundary the role of subject in a clinical trial the student role three-dimensional spatial region (forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] 3d-s-region ThreeDimensionalSpatialRegion A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001]) a cube-shaped region of space a sphere-shaped region of space, generically dependent continuant gdc GenericallyDependentContinuant (iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001] The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity. b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001]) the pdf file on your laptop, the pdf file that is a copy thereof on my laptop the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule. process boundary (iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001] (forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002] Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002]) ProcessBoundary p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001]) p-boundary the boundary between the 2nd and 3rd year of your life. material entity (forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002] material MaterialEntity (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002] (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002] A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002]) BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60 BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity. BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here. Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002]) a flame a forest fire a human being a hurricane a photon a puff of smoke a sea wave a tornado an aggregate of human beings. an energy wave an epidemic every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002]) the undetached arm of a human being immaterial entity immaterial ImmaterialEntity BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10 zero-dimensional temporal region 0d-t-region (forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001] A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001]) ZeroDimensionalTemporalRegion a temporal region that is occupied by a process boundary right now temporal instant. the moment at which a child is born the moment at which a finger is detached in an industrial accident the moment of death. Bacteria GC_ID:11 Monera PMID:10425795 PMID:10425796 PMID:10425797 PMID:10490293 PMID:10843050 PMID:10939651 PMID:10939673 PMID:10939677 PMID:11211268 PMID:11321083 PMID:11321113 PMID:11411719 PMID:11540071 PMID:11542017 PMID:11542087 PMID:11760965 PMID:12054223 PMID:2112744 PMID:270744 PMID:8123559 PMID:8590690 PMID:9103655 PMID:9336922 Procaryotae Prokaryota Prokaryotae bacteria eubacteria ncbi_taxonomy not Bacteria Haeckel 1894 prokaryote prokaryotes Brucella suis 1330 Brucella melitensis biovar Suis str. 1330 Brucella suis ATCC 23444 Brucella suis NCTC 10316 Brucella suis str. 1330 GC_ID:11 PMID:12271122 ncbi_taxonomy Brucella melitensis bv. 1 str. 16M Brucella melitensis 16M Brucella melitensis ATCC 23456 Brucella melitensis str. 16M Brucella melitensis str. ATCC 23456 GC_ID:11 PMID:11756688 ncbi_taxonomy Brucella Brucella Meyer and Shaw 1920 GC_ID:11 PMID:8573514 ncbi_taxonomy Brucella melitensis biovar Abortus 2308 Brucella melitensis biovar Abortus str. 2308 Brucella melitensis biovar Abortus strain 2308 GC_ID:11 PMID:16299333 PMID:20462421 ncbi_taxonomy organism 10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms') GROUP: OBI Biomaterial Branch A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs. WEB: http://en.wikipedia.org/wiki/Organism animal fungus organism plant virus genome WEB: http://en.wikipedia.org/wiki/Genome Book: Eugene Nester, Denise Anderson, C. Evans Roberts, Jr., Microbiology (Companion Site): A Human Perspective, 7th Edition. Mcgraw Hill, October 18, 2011. ISBN-13: 978-0073375311 A genome is a material entity that represents the entirety of an organism's hereditary information. The genome includes both the genes and the non-coding sequences of the DNA and RNA. Oliver He gene In addition to the coding regions (exons), a gene includes transcription-control regions and sometimes introns. Although the majority of genes encode proteins, some encode tRNAs, rRNAs, and other types of RNA. Oliver He WEB: http://www.ncbi.nlm.nih.gov/books/NBK21640/ A gene is a material entity that represents the entire DNA sequence required for synthesis of a functional protein or RNA molecule. gene disposition a disposition that a gene can be used as a blueprint for generating a new form of product such as protein. YH: According to NCBI Gene project, there are two gene types: unknown (0) , tRNA (1) , rRNA (2) , snRNA (3) , scRNA (4) , snoRNA (5) , protein-coding (6) , pseudo (7) , transposon (8) , miscRNA (9) , ncRNA (10) , other (255). Therefore, we have generated corresponding gene dispositions. Note that we don't use the term "gene type" here to differentiate the meanings of "type" and "disposition". Yongqun He WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn protein-coding gene disposition Yongqun He WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn a gene disposition that a gene can be used as a blueprint for generating a protein (i.e., a gene encodes for a protein). pseudo gene disposition WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn a gene disposition that represents the disposition of gene being "pseudo", i.e., the gene is a pseudogene. Yongqun He other gene disposition Yongqun He Note: The other gene disposition originates from automated generation using terms imported from the NCBI Gene resource (http://www.ncbi.nlm.nih.gov/books/NBK3841/ ). However the use of such an information-related term is not fully compliant with the Foundry Principles. Before we can find a better solution, we will for now keep them in the OGG. a gene disposition that is "other", i.e., the gene is for a gene product that is not listed for another other gene type. WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn genome of Bacteria 2 The genome of an organism of Bacteria Yue Liu, Bin Zhao, Oliver He genome of Brucella 234 The genome of an organism of Brucella Yue Liu, Bin Zhao, Oliver He genome of Brucella suis 1330 204722 The genome of an organism of Brucella suis 1330 Yue Liu, Bin Zhao, Oliver He genome of Brucella melitensis bv. 1 str. 16M 224914 The genome of an organism of Brucella melitensis bv. 1 str. 16M Yue Liu, Bin Zhao, Oliver He genome of Brucella melitensis biovar Abortus 2308 359391 The genome of an organism of Brucella melitensis biovar Abortus 2308 Yue Liu, Bin Zhao, Oliver He gene of Bacteria 2 A gene of an organism of Bacteria Yue Liu, Bin Zhao, Oliver He gene of Brucella 234 A gene of an organism of Brucella Yue Liu, Bin Zhao, Oliver He gene of Brucella suis 1330 204722 A gene of an organism of Brucella suis 1330 Yue Liu, Bin Zhao, Oliver He gene of Brucella melitensis bv. 1 str. 16M 224914 A gene of an organism of Brucella melitensis bv. 1 str. 16M Yue Liu, Bin Zhao, Oliver He gene of Brucella melitensis biovar Abortus 2308 359391 A gene of an organism of Brucella melitensis biovar Abortus 2308 Yue Liu, Bin Zhao, Oliver He protein-coding gene of Brucella suis 1330 204722 A gene of Brucella suis 1330 that has a protein-coding gene disposition Bin Zhao, Oliver He protein-coding gene of Brucella melitensis bv. 1 str. 16M 224914 A gene of Brucella melitensis bv. 1 str. 16M that has a protein-coding gene disposition Bin Zhao, Oliver He protein-coding gene of Brucella melitensis biovar Abortus 2308 359391 A gene of Brucella melitensis biovar Abortus 2308 that has a protein-coding gene disposition Bin Zhao, Oliver He pseudo gene of Brucella suis 1330 204722 A gene of Brucella suis 1330 that has a pseudo gene disposition Bin Zhao, Oliver He pseudo gene of Brucella melitensis biovar Abortus 2308 359391 A gene of Brucella melitensis biovar Abortus 2308 that has a pseudo gene disposition Bin Zhao, Oliver He gene of Brucella suis 1330 with other gene disposition 204722 A gene of Brucella suis 1330 that has a other gene disposition Bin Zhao, Oliver He BRA0005 1164441 20140222 204722 BRA0005 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribokinase BRA0037 1164473 20140222 204722 BRA0037 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene magnesium ion-transporting ATPase E1-E2 family protein protein-coding BRA0041 1164477 20140215 204722 BRA0041 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensor histidine kinase gltD 1164492 20140405 204722 BRA0055 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutamate synthase subunit beta protein-coding BRA0059 1164496 20140405 204722 BRA0059 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122; 16730027 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB11 BRA0060 1164497 20140222 204722 BRA0060 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122; 16648257; 21763312 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB10 BRA0061 1164498 20140222 204722 BRA0061 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB9 BRA0062 1164499 20140222 204722 BRA0062 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122; 15764702; 16648257; 21763312 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB8 BRA0064 1164501 20130611 204722 BRA0064 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB6 BRA0065 1164502 20140406 204722 BRA0065 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB5 BRA0066 1164503 20140222 204722 BRA0066 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122; 16648257 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB4 BRA0067 1164504 20130611 204722 BRA0067 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB3 BRA0068 1164505 20140406 204722 BRA0068 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB2 BRA0069 1164506 20140222 204722 BRA0069 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB1 hemH 1164513 20140405 204722 BRA0076 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene ferrochelatase protein-coding omp10 1164514 20130611 204722 BRA0077 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene lipoprotein Omp10 protein-coding gnd 1164548 20140405 204722 6-phosphogluconate dehydrogenase BRA0111 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BRA0119 1164556 20130611 204722 BRA0119 Bin Zhao, Yue Liu, Oliver He II LuxR family transcriptional regulator NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BRA0135 1164572 20140217 204722 BRA0135 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycosyl transferase group 2 family protein protein-coding BRA0146 1164583 20130611 204722 BRA0146 Bin Zhao, Yue Liu, Oliver He DeoR family transcriptional regulator II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding flgI 1164593 20140215 204722 BRA0156 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar basal body P-ring biosynthesis protein FlgA protein-coding BRA0177 1164614 20130611 204722 BRA0177 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding gluP 1164627 20111207 204722 BRA0190 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied WEB: http://www.ncbi.nlm.nih.gov/gene other BRA0224 1164661 20140222 204722 BRA0224 Bin Zhao, Yue Liu, Oliver He CAIB/BAIF family protein II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BRA0246 1164683 20140215 204722 BRA0246 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cytochrome c oxidase subunit III protein-coding norD 1164688 20140217 204722 BRA0251 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene norD protein protein-coding narG 1164736 20140406 204722 BRA0299 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding respiratory nitrate reductase subunit alpha nrdH 1164751 20140222 204722 BRA0314 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutaredoxin-like protein nrdH protein-coding BRA0347 1164785 20140405 204722 BRA0347 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene mannose-1-phosphate guanylyltransferase protein-coding BRA0348 1164786 20140405 204722 BRA0348 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoglucomutase protein-coding oxyR 1164792 20140405 204722 BRA0354 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transcriptional regulator OxyR xfp 1164823 20140222 204722 BRA0385 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoketolase protein-coding glpK 1164881 20140322 204722 BRA0443 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol kinase protein-coding BRA0467 1164905 20140217 204722 BRA0467 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding taurine ABC transporter permease cydD 1164946 20140222 204722 ABC transporter ATP-binding protein CydD BRA0508 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BRA0509 1164947 20140217 204722 ABC transporter ATP-binding/permease BRA0509 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding cydB 1164949 20140329 204722 BRA0511 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cytochrome d ubiquinol oxidase subunit II protein-coding BRA0568 1165007 20140215 204722 ABC transporter permease BRA0568 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pcs 1165011 20140215 204722 BRA0572 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphatidylcholine synthase protein-coding BRA0598 1165038 20140405 204722 BRA0598 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene acyl-CoA dehydrogenase protein-coding pyrB 1165039 20140329 204722 BRA0599 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene aspartate carbamoyltransferase protein-coding divK 1165052 20130611 204722 BRA0612 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene polar differentiation response regulator protein-coding ugpB 1165097 20140215 204722 BRA0655 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol-3-phosphate ABC transporter periplasmic glycerol-3-phosphate-binding protein protein-coding ugpA 1165098 20140222 204722 BRA0656 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol-3-phosphate ABC transporter permease protein-coding BRA0692 1165134 20130831 204722 BRA0692 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sugar ABC transporter permease BRA0700 1165142 20130611 204722 BRA0700 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene iron ABC transporter substrate-binding protein protein-coding sodC 1165145 20140215 204722 BRA0703 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding superoxide dismutase, Cu-Zn BRA0712 1165154 20140222 204722 BRA0712 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 SIS domain-containing protein WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding gcvP 1165167 20140405 204722 BRA0725 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycine dehydrogenase protein-coding gcvT 1165169 20140405 204722 BRA0727 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycine cleavage system aminomethyltransferase T protein-coding xseA 1165206 20130611 204722 BRA0764 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene exodeoxyribonuclease VII large subunit protein-coding zwf 1165220 20140406 204722 BRA0778 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glucose-6-phosphate 1-dehydrogenase protein-coding BRA0804 1165246 20140222 204722 BRA0804 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nickel ABC transporter nickel-binding protein protein-coding BRA0806 1165248 20130611 204722 BRA0806 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 UxaA family hydrolase WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding eryB 1165308 20140406 204722 BRA0865 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol-3-phosphate dehydrogenase protein-coding eryC 1165309 20140406 204722 BRA0866 Bin Zhao, Yue Liu, Oliver He D-erythrulose-1-phosphate dehydrogenase II NCBI-supplied PMID: 12271122; 16177356 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BRA0919 1165363 20140217 204722 BRA0919 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene molybdopterin-binding oxidoreductase protein-coding BRA0936 1165380 20140222 204722 BRA0936 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sugar ABC transporter ATP-binding protein BRA0947 1165391 20130611 204722 BRA0947 Bin Zhao, Yue Liu, Oliver He D-aminopeptidase II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BRA0987 1165431 20140215 204722 BRA0987 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cobalamin synthesis protein/P47K family protein protein-coding BRA1012 1165456 20140222 204722 ABC transporter periplasmic substrate-binding protein BRA1012 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding znuA 1165575 20140222 204722 BRA1122 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding zinc ABC transporter periplasmic zinc-binding protein znuC 1165576 20140406 204722 BRA1123 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding zinc ABC transporter ATP-binding protein flgE 1165592 20140406 204722 BRA1139 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar hook protein FlgE protein-coding motB 1165597 20140405 204722 BRA1144 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar motor protein MotB protein-coding fliF 1165599 20140215 204722 BRA1146 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar MS-ring protein protein-coding rpsA 1165684 20140222 204722 30S ribosomal protein S1 BR0027 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pheA 1165694 20140405 204722 BR0037 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene prephenate dehydratase protein-coding pgm 1165715 20140405 204722 BR0058 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoglucomutase protein-coding ilvD 1165756 20140405 204722 BR0099 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroxy-acid dehydratase protein-coding BR0111 1165768 20140222 204722 BR0111 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cyclic beta 1-2 glucan synthetase protein-coding BR0144 1165801 20140222 204722 BR0144 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PII uridylyl-transferase PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding cysI 1165838 20140405 204722 BR0181 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sulfite reductase (NADPH) hemoprotein subunit beta metH 1165845 20140406 204722 B12-dependent methionine synthase BR0188 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR0238 1165896 20140222 204722 BR0238 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sugar ABC transporter ATP-binding protein hisD 1165911 20140406 204722 BR0252 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122; 22196018 WEB: http://www.ncbi.nlm.nih.gov/gene histidinol dehydrogenase protein-coding pgi 1165946 20140406 204722 BR0285 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glucose-6-phosphate isomerase protein-coding pyrD 1165972 20140406 204722 BR0311 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroorotate dehydrogenase 2 protein-coding BR0316 1165977 20140406 204722 BR0316 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensor histidine kinase/response regulator bacA 1166033 20130611 204722 BR0372 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transport protein purD 1166075 20140405 204722 BR0414 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylamine--glycine ligase protein-coding aroC 1166089 20140405 204722 BR0428 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene chorismate synthase protein-coding BR0442 1166103 20140215 204722 ABC transporter ATP-binding/permease BR0442 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding purF 1166107 20140405 204722 BR0446 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene amidophosphoribosyltransferase protein-coding BR0465 1166126 20140217 204722 BR0465 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding tldD protein thrC 1166145 20140405 204722 BR0484 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding threonine synthase BR0496 1166157 20140215 204722 BR0496 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding twin-arginine translocation pathway signal sequence domain-containing protein BR0511 1166172 20140222 204722 BR0511 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycosyl transferase group 4 family protein protein-coding wbkB 1166180 20130611 204722 BR0518 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding wbkB protein rfbD 1166182 20140215 204722 BR0520 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied O-antigen export system permease RfbD PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR0521 1166183 20140215 204722 BR0521 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene perosamine synthase protein-coding gmd 1166184 20140406 204722 BR0522 Bin Zhao, Yue Liu, Oliver He GDP-mannose 4,6-dehydratase I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR0529 1166191 20140215 204722 BR0529 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene mannosyltransferase protein-coding BR0537 1166199 20140405 204722 BR0537 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphomannomutase protein-coding BR0540 1166202 20140222 204722 BR0540 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene group 1 glycosyl transferase protein-coding BR0604 1166266 20140222 204722 BR0604 Bin Zhao, Yue Liu, Oliver He DNA-binding response regulator I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR0605 1166267 20130611 204722 BR0605 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensor histidine kinase BR0611 1166273 20130611 204722 BR0611 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding serine protease BR0615 1166277 20140222 204722 BR0615 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding pepN 1166279 20140215 204722 BR0617 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene aminopeptidase protein-coding BR0652 1166315 20140222 204722 BR0652 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 RelA/SpoT family protein WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding omp25 1166364 20140215 204722 BR0701 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122; 17635859 WEB: http://www.ncbi.nlm.nih.gov/gene outer-membrane protein Omp25 protein-coding purN 1166372 20140405 204722 BR0709 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylglycinamide formyltransferase protein-coding purM 1166373 20140405 204722 BR0710 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylaminoimidazole synthetase protein-coding BR0715 1166378 20140406 204722 BR0715 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene epimerase protein-coding glyA 1166430 20140405 204722 BR0765 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding serine hydroxymethyltransferase purL 1166505 20140405 204722 BR0837 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylformylglycinamidine synthase II protein-coding tig 1166567 20140406 204722 BR0898 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding trigger factor BR0909 1166578 20140406 204722 BR0909 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BR0915 1166584 20140406 204722 BR0915 Bin Zhao, Yue Liu, Oliver He I N-acetylmuramoyl-L-alanine amidase NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR0930 1166599 20140329 204722 BR0930 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cysteine desulfurase protein-coding BR0933 1166602 20130611 204722 BR0933 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BR0955 1166625 20140222 204722 BR0955 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene amino acid ABC transporter substrate-binding protein protein-coding BR0982 1166655 20140222 204722 BR0982 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene group 1 glycosyl transferase protein-coding glnA 1166677 20140405 204722 BR1004 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutamine synthetase protein-coding BR1053 1166727 20140406 204722 BR1053 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cysteine synthase A protein-coding BR1084 1166760 20140215 204722 BR1084 Bin Zhao, Yue Liu, Oliver He CAIB/BAIF family protein I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding uvrA 1166780 20140222 204722 BR1104 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene excinuclease ABC subunit A protein-coding lon 1166782 20140222 204722 ATP-dependent protease La BR1106 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding hfq 1166787 20130611 204722 BR1111 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 RNA-binding protein Hfq WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ntrY 1166792 20130611 204722 BR1116 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nitrogen regulation protein NtrY protein-coding ntrC 1166793 20140222 204722 BR1117 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nitrogen regulation protein NtrC protein-coding BR1139 1166815 20140222 204722 BR1139 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding rotamase uppS 1166834 20140315 204722 BR1158 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding undecaprenyl pyrophosphate synthase recA 1166878 20140406 204722 BR1202 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding recombinase A rpoA 1166885 20140329 204722 BR1209 Bin Zhao, Yue Liu, Oliver He DNA-directed RNA polymerase subunit alpha I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding gloA 1166947 20140215 204722 BR1268 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene lactoylglutathione lyase protein-coding cobB 1166977 20140301 204722 BR1296 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cobyrinic acid a,c-diamide synthase protein-coding BR1378 1167060 20130611 204722 BR1378 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene class I aminotransferase protein-coding ilvC 1167062 20140405 204722 BR1380 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene ketol-acid reductoisomerase protein-coding miaA 1167072 20140329 204722 BR1390 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding tRNA delta(2)-isopentenylpyrophosphate transferase serB 1167073 20140406 204722 BR1391 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoserine phosphatase protein-coding pncA 1167146 20140405 204722 BR1464 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pyrazinamidase/nicotinamidase BR1465 1167147 20130611 204722 BR1465 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding aspC 1167178 20140406 204722 BR1495 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene aspartate aminotransferase protein-coding BR1498 1167181 20140222 204722 BR1498 Bin Zhao, Yue Liu, Oliver He I LysR family transcriptional regulator NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pth 1167219 20140406 204722 BR1536 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene peptidyl-tRNA hydrolase protein-coding leuA 1167249 2-isopropylmalate synthase 20140405 204722 BR1566 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR1642 1167334 20140217 204722 BR1642 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene disulfide bond formation protein B protein-coding BR1646 1167338 20140222 204722 BR1646 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene base-excision DNA repair protein protein-coding BR1671 1167364 20140222 204722 BR1671 Bin Zhao, Yue Liu, Oliver He HlyD family secretion protein I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding dut 1167368 20140405 204722 BR1675 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene deoxyuridine 5'-triphosphate nucleotidohydrolase protein-coding BR1676 1167369 20140222 204722 AsnC family transcriptional regulator BR1676 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding purE 1167437 20140405 204722 BR1744 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylaminoimidazole carboxylase, catalytic subunit protein-coding pyc 1167474 20140405 204722 BR1781 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pyruvate carboxylase BR1791 1167484 20140215 204722 BR1791 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene branched-chain amino acid ABC transporter permease protein-coding purH 1167509 20140405 204722 BR1816 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase protein-coding leuC 1167606 20140405 204722 BR1906 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene isopropylmalate isomerase large subunit protein-coding rplS 1167607 20130611 204722 50S ribosomal protein L19 BR1907 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding omp19 1167630 20140406 204722 BR1930 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene lipoprotein Omp19 protein-coding cysK 1167668 20111205 204722 BR1967 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied WEB: http://www.ncbi.nlm.nih.gov/gene pseudo pseudo lysA 1167684 20140405 204722 BR1983 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene diaminopimelate decarboxylase protein-coding hpt 1167686 20140405 204722 BR1985 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypoxanthine-guanine phosphoribosyltransferase protein-coding hisC 1167688 20140405 204722 BR1987 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene histidinol-phosphate aminotransferase protein-coding hisF 1167788 20140405 204722 BR2085 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene imidazole glycerol phosphate synthase subunit HisF protein-coding BR2090 1167793 20140222 204722 BR2090 Bin Zhao, Yue Liu, Oliver He DNA-binding response regulator BvrR I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BR2091 1167794 20140215 204722 BR2091 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensor histidine kinase BvrS dnaK 1167828 20140215 204722 BR2125 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene molecular chaperone DnaK protein-coding pmtA 1167830 20140406 204722 BR2127 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phospholipid N-methyltransferase protein-coding mutM 1167886 20140222 204722 BR2183 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene formamidopyrimidine-DNA glycosylase protein-coding BMEI0066 1195778 20140217 224914 BMEI0066 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122; 19742243 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding two component response regulator BMEI0082 1195794 20140329 224914 BMEI0082 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypoxanthine-guanine phosphoribosyltransferase protein-coding BMEI0084 1195796 20140405 224914 BMEI0084 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene diaminopimelate decarboxylase protein-coding BMEI0085 1195797 20140222 224914 BMEI0085 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI0135 1195847 20140406 224914 BMEI0135 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene outer membrane lipoprotein protein-coding rplS 1195868 20130611 224914 50S ribosomal protein L19 BMEI0156 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0157 1195869 20140405 224914 BMEI0157 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene isopropylmalate isomerase large subunit protein-coding BMEI0169 1195881 20140222 224914 BMEI0169 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0190 1195902 20140217 224914 BMEI0190 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoenolpyruvate-protein phosphotransferase PTSP protein-coding purH 1195945 20140405 224914 BMEI0233 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase protein-coding BMEI0258 1195970 20140406 224914 BMEI0258 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene high-affinity branched-chain amino acid transport system permease livH protein-coding BMEI0266 1195978 20140405 224914 BMEI0266 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pyruvate carboxylase BMEI0267 1195979 20140217 224914 BMEI0267 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI0275 1195987 20130518 224914 ATP-dependent DNA helicase BMEI0275 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0296 1196007 20140405 224914 BMEI0296 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylaminoimidazole carboxylase catalytic subunit protein-coding BMEI0305 1196016 20140215 224914 BMEI0305 Bin Zhao, Yue Liu, Oliver He DeoR family transcriptional regulator I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0320 1196031 20140217 224914 BMEI0320 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0357 1196068 20140217 224914 AsnC family transcriptional regulator BMEI0357 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding dut 1196069 20140329 224914 BMEI0358 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene deoxyuridine 5'-triphosphate nucleotidohydrolase protein-coding BMEI0359 1196070 20140217 224914 BMEI0359 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene periplasmic protein of efflux system protein-coding BMEI0382 1196093 20140222 224914 BMEI0382 Bin Zhao, Yue Liu, Oliver He DNA-3-methyladenine glycosidase I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0384 1196095 20140215 224914 BMEI0384 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene disulfide bond formation protein B protein-coding BMEI0430 1196141 20140406 224914 BMEI0430 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nodulation protein NOLR protein-coding BMEI0433 1196144 20140329 224914 BMEI0433 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene periplasmic dipeptide transport protein protein-coding BMEI0451 1196162 2-isopropylmalate synthase 20140405 224914 BMEI0451 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0455 1196166 20140215 224914 BMEI0455 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutathione S-transferase protein-coding BMEI0480 1196191 20140406 224914 BMEI0480 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene peptidyl-tRNA hydrolase protein-coding BMEI0509 1196220 20130526 224914 BMEI0509 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene lipopolysaccharide core biosynthesis mannosyltransferase LPCC protein-coding BMEI0512 1196223 20140405 224914 BMEI0512 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding thioredoxin reductase BMEI0513 1196224 20140222 224914 BMEI0513 Bin Zhao, Yue Liu, Oliver He I LysR family transcriptional regulator NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0516 1196227 20140405 224914 BMEI0516 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene aspartate aminotransferase protein-coding BMEI0526 1196237 20140406 224914 BMEI0526 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene carbamoyl phosphate synthase small subunit protein-coding BMEI0536 1196247 20130611 224914 BMEI0536 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene immunogenic protein protein-coding BMEI0545 1196256 20130518 224914 BMEI0545 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI0605 1196316 20140217 224914 BMEI0605 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene bicyclomycin resistance protein protein-coding BMEI0615 1196326 20140405 224914 BMEI0615 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoserine phosphatase protein-coding miaA 1196327 20140405 224914 BMEI0616 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding tRNA delta(2)-isopentenylpyrophosphate transferase BMEI0617 1196328 20140405 224914 BMEI0617 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene acetolactate synthase 3 catalytic subunit protein-coding BMEI0624 1196335 20140405 224914 BMEI0624 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene ketol-acid reductoisomerase protein-coding BMEI0626 1196337 20130518 224914 BMEI0626 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0671 1196382 20130526 224914 BMEI0671 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene integral membrane protein / hemolysin protein-coding BMEI0705 1196416 20140405 224914 BMEI0705 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cobyrinic acid a,c-diamide synthase protein-coding BMEI0725 1196436 20140405 224914 BMEI0725 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene homoserine dehydrogenase protein-coding BMEI0730 1196441 20140222 224914 BMEI0730 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene lactoylglutathione lyase protein-coding BMEI0781 1196492 20140405 224914 BMEI0781 Bin Zhao, Yue Liu, Oliver He DNA-directed RNA polymerase subunit alpha I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding recA 1196498 20140405 224914 BMEI0787 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding recombinase A BMEI0827 1196538 20140329 224914 BMEI0827 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding undecaprenyl pyrophosphate synthase BMEI0845 1196556 20140215 224914 BMEI0845 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene peptidyl-prolyl cis-trans isomerase D protein-coding BMEI0867 1196578 20140406 224914 BMEI0867 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nitrogen regulation protein NTRY protein-coding hfq 1196583 20130611 224914 BMEI0872 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 RNA-binding protein Hfq WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0876 1196587 20130518 224914 ATP-dependent protease LA BMEI0876 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding uvrA 1196589 20140215 224914 BMEI0878 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene excinuclease ABC subunit A protein-coding BMEI0881 1196592 20140222 224914 BMEI0881 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI0898 1196609 20140222 224914 BMEI0898 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene acyl-CoA transferase protein-coding BMEI0933 1196644 20140405 224914 BMEI0933 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cysteine synthase A protein-coding BMEI0979 1196690 20140405 224914 BMEI0979 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutamine synthetase protein-coding BMEI0997 1196708 20140222 224914 BMEI0997 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene mannosyltransferase protein-coding moaA 1196730 20140322 224914 BMEI1019 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene molybdenum cofactor biosynthesis protein A protein-coding BMEI1040 1196751 20140222 224914 ABC transporter ATP-binding protein BMEI1040 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1043 1196754 20140322 224914 BMEI1043 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied NifS protein PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1056 1196767 20140215 224914 BMEI1056 Bin Zhao, Yue Liu, Oliver He I N-acetylmuramoyl-L-alanine amidase NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1060 1196771 20140215 224914 BMEI1060 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding tig 1196780 20140222 224914 BMEI1069 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding trigger factor BMEI1104 1196815 20140215 224914 BMEI1104 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene arginine/ornithine-binding periplasmic protein precursor protein-coding BMEI1116 1196827 20140405 224914 BMEI1116 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribulose-phosphate 3-epimerase BMEI1127 1196838 20140329 224914 BMEI1127 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylformylglycinamidine synthase II protein-coding BMEI1192 1196903 20140406 224914 BMEI1192 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding serine hydroxymethyltransferase BMEI1229 1196940 20130611 224914 BMEI1229 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene exonuclease protein-coding BMEI1237 1196948 20140405 224914 BMEI1237 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 UDP-glucose 4-epimerase WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1240 1196951 20140329 224914 BMEI1240 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylaminoimidazole synthetase protein-coding purN 1196952 20140405 224914 BMEI1241 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylglycinamide formyltransferase protein-coding BMEI1249 1196960 20140405 224914 BMEI1249 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1258 1196969 20140215 224914 ABC transporter ATP-binding protein BMEI1258 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1281 1196992 20140322 224914 BMEI1281 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroorotase protein-coding BMEI1296 1197007 20140215 224914 BMEI1296 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase protein-coding BMEI1326 1197037 20140406 224914 BMEI1326 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1330 1197041 20140222 224914 BMEI1330 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protease Do protein-coding BMEI1336 1197047 20140222 224914 BMEI1336 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensor protein PHOQ BMEI1337 1197048 20140405 224914 BMEI1337 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transcriptional regulatory protein PhoP BMEI1339 1197050 20120912 224914 BMEI1339 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1361 1197072 20120912 224914 BMEI1361 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1393 1197104 20140222 224914 BMEI1393 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene mannosyltransferase protein-coding BMEI1396 1197107 20140405 224914 BMEI1396 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphomannomutase protein-coding BMEI1404 1197115 20140217 224914 BMEI1404 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene mannosyltransferase protein-coding BMEI1413 1197124 20140406 224914 BMEI1413 Bin Zhao, Yue Liu, Oliver He GDP-mannose 4,6-dehydratase I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1414 1197125 20140406 224914 BMEI1414 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene perosamine synthetase protein-coding BMEI1426 1197137 20140222 224914 BMEI1426 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding undecaprenyl-phosphate alpha-N-acetylglucosaminyltransferase BMEI1440 1197151 20140215 224914 BMEI1440 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding thiol:disulfide interchange protein DsbA BMEI1443 1197154 2-haloalkanoic acid dehalogenase 20140405 224914 BMEI1443 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1448 1197159 20140222 224914 BMEI1448 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene c-di-GMP phosphodiesterase A-related protein protein-coding BMEI1450 1197161 20140405 224914 BMEI1450 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding threonine synthase BMEI1468 1197179 20130526 224914 BMEI1468 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 TLDD protein WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1488 1197199 20140405 224914 BMEI1488 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene amidophosphoribosyltransferase protein-coding BMEI1498 1-deoxy-D-xylulose-5-phosphate synthase 1197209 20140405 224914 BMEI1498 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1506 1197217 20140405 224914 BMEI1506 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene chorismate synthase protein-coding BMEI1519 1197230 20140405 224914 BMEI1519 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylamine--glycine ligase protein-coding BMEI1531 1197242 20140222 224914 BMEI1531 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1553 1197264 20140222 224914 BMEI1553 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transporter BMEI1573 1197284 20140222 224914 BMEI1573 Bin Zhao, Yue Liu, Oliver He I LysR family transcriptional regulator NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1606 1197317 20140215 224914 BMEI1606 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensory transduction histidine kinase BMEI1611 1197322 20140329 224914 BMEI1611 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroorotate dehydrogenase 2 protein-coding pgi 1197347 20140405 224914 BMEI1636 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glucose-6-phosphate isomerase protein-coding BMEI1658 1197369 20130611 224914 BMEI1658 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding hisD 1197379 20140405 224914 BMEI1668 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene histidinol dehydrogenase protein-coding BMEI1713 1197424 20140215 224914 BMEI1713 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene maltose ABC transporter ATP-binding protein protein-coding BMEI1742 1197453 20130508 224914 ABC transporter ATP-binding protein BMEI1742 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding metH 1197470 20140405 224914 B12-dependent methionine synthase BMEI1759 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1766 1197477 20140405 224914 BMEI1766 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sulfite reductase (ferredoxin) BMEI1786 1197497 20140406 224914 BMEI1786 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nitrogen regulatory IIA protein protein-coding BMEI1804 1197515 20140215 224914 BMEI1804 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PII uridylyl-transferase PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1809 1197520 20140215 224914 BMEI1809 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1837 1197548 20130518 224914 BMEI1837 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cellobiose-phosphorylase protein-coding BMEI1844 1197555 20140406 224914 BMEI1844 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1848 1197559 20140405 224914 BMEI1848 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroxy-acid dehydratase protein-coding BMEI1849 1197560 20140222 224914 BMEI1849 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding thiol:disulfide interchange protein CYCY precursor BMEI1859 1197570 20130526 224914 BMEI1859 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1879 1197590 20130526 224914 BMEI1879 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEI1886 1197597 20140405 224914 BMEI1886 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoglucomutase protein-coding BMEI1902 1197613 20140215 224914 BMEI1902 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene molybdopterin biosynthesis protein protein-coding BMEI1913 1197624 20140222 224914 BMEI1913 Bin Zhao, Yue Liu, Oliver He I LysR family transcriptional regulator NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding rpsA 1197626 20140222 224914 30S ribosomal protein S1 BMEI1915 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEI1946 1197657 20140406 224914 BMEI1946 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene formamidopyrimidine-DNA glycosylase protein-coding dnaK 1197713 20140217 224914 BMEI2002 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene molecular chaperone DnaK protein-coding BMEI2035 1197746 20140217 224914 BMEI2035 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensor protein CHVG BMEI2036 1197747 20140222 224914 BMEI2036 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transcriptional regulatory protein chvI BMEI2041 1197752 20140405 224914 BMEI2041 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene imidazole glycerol phosphate synthase subunit HisF protein-coding BMEII0017 1197788 20130611 224914 BMEII0017 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene outer membrane lipoprotein protein-coding hemH 1197789 20140405 224914 BMEII0018 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene ferrochelatase protein-coding BMEII0025 1197796 20140217 224914 BMEII0025 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene attachment mediating protein VIRB1-like protein protein-coding BMEII0026 1197797 20140406 224914 BMEII0026 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 VirB2 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0027 1197798 20130611 224914 BMEII0027 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 VirB3 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0028 1197799 20140215 224914 ATPase VIRB4-like protein BMEII0028 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0029 1197800 20130611 224914 BMEII0029 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 VirB5 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0030 1197801 20140222 224914 BMEII0030 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene channel protein VIRB6-like protein protein-coding BMEII0032 1197803 20140222 224914 BMEII0032 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 VirB8 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0033 1197804 20140222 224914 BMEII0033 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene channel protein VIRB9-like protein protein-coding BMEII0034 1197805 20140222 224914 BMEII0034 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene channel protein VIRB10-like protein protein-coding BMEII0035 1197806 20130508 224914 ATPase VIRB11-like protein BMEII0035 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding gltD 1197810 20140405 224914 BMEII0039 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutamate synthase subunit beta protein-coding BMEII0040 1197811 20140405 224914 BMEII0040 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutamate synthase [NADPH] large chain protein-coding BMEII0052 1197823 20140222 224914 BMEII0052 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sensory transduction histidine kinase BMEII0056 1197827 20130526 224914 BMEII0056 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene magnesium ABC transporter ATPase protein-coding BMEII0077 1197848 20140405 224914 BMEII0077 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene isochorismate synthase protein-coding BMEII0089 1197860 20140215 224914 BMEII0089 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribokinase BMEII0116 1197887 20140215 224914 BMEII0116 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0128 1197899 20140215 224914 BMEII0128 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene hypothetical protein protein-coding BMEII0136 1197907 20130518 224914 BMEII0136 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene homoprotocatechuate 2,3-dioxygenase protein-coding BMEII0150 1197921 20140405 224914 BMEII0150 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellin protein-coding BMEII0151 1197922 20140222 224914 BMEII0151 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar M-ring protein FLIF protein-coding motB 1197925 20140329 224914 BMEII0154 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar motor protein MotB protein-coding BMEII0158 1197929 20140222 224914 BMEII0158 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding two component response regulator flgE 1197930 20140329 224914 BMEII0159 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar hook protein FlgE protein-coding BMEII0166 1197937 20140215 224914 BMEII0166 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar biosynthetic protein FlhA protein-coding BMEII0177 1197948 20140215 224914 BMEII0177 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene high-affinity zinc uptake system ATP-binding protein ZNUC protein-coding BMEII0178 1197949 20140215 224914 BMEII0178 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene high-affinity zinc uptake system protein ZNUA protein-coding engB - 1198045 20140406 224914 BMEII0274 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribosome biogenesis GTP-binding protein YsxC yihA ysxC BMEII0300 1198072 20140406 224914 BMEII0300 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribose ABC transporter ATP-binding protein BMEII0308 1198080 20140222 224914 BMEII0308 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding zinc transporter BMEII0318 1198090 20140217 224914 6-aminohexanoate-dimer hydrolase BMEII0318 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0336 1198108 20140222 224914 ABC transporter permease BMEII0336 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0350 1198122 20140406 224914 BMEII0350 Bin Zhao, Yue Liu, Oliver He D-aminopeptidase II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0361 1198133 20140222 224914 BMEII0361 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sugar transport ATP-binding protein BMEII0378 1198150 20140222 224914 BMEII0378 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene formate dehydrogenase alpha chain protein-coding BMEII0390 1198162 20130508 224914 BMEII0390 Bin Zhao, Yue Liu, Oliver He II LysR family transcriptional regulator NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0428 1198200 20140405 224914 BMEII0428 Bin Zhao, Yue Liu, Oliver He D-erythrulose 4-phosphate dehydrogenase II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0429 1198201 20140215 224914 BMEII0429 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol-3-phosphate dehydrogenase protein-coding BMEII0475 1198247 20140406 224914 BMEII0475 Bin Zhao, Yue Liu, Oliver He GntR family transcriptional regulator II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0485 1198257 20140222 224914 BMEII0485 Bin Zhao, Yue Liu, Oliver He D-galactarate dehydratase II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0487 1198259 20130611 224914 BMEII0487 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nickel-binding periplasmic protein precursor protein-coding BMEII0513 1198285 20140405 224914 BMEII0513 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glucose-6-phosphate 1-dehydrogenase protein-coding xseA 1198299 20140222 224914 BMEII0527 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene exodeoxyribonuclease VII large subunit protein-coding BMEII0570 1198342 20140329 224914 BMEII0570 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sugar phosphate isomerase/epimerase IolE BMEII0573 1198345 20140405 224914 BMEII0573 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 RPIR family transcriptional regulator WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0581 1198353 20140222 224914 BMEII0581 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding superoxide dismutase (Cu-Zn) BMEII0584 1198356 20140222 224914 BMEII0584 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene iron(III)-binding periplasmic protein precursor protein-coding BMEII0591 1198363 20140406 224914 BMEII0591 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding sugar transport system permease BMEII0624 1198396 20130611 224914 BMEII0624 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 SN-glycerol-3-phosphate transport system permease UGPA WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII0626 1198398 20130611 224914 BMEII0626 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene membrane dipeptidase protein-coding BMEII0659 1198431 20130611 224914 BMEII0659 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding two component response regulator BMEII0669 1198441 20140405 224914 BMEII0669 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroorotase protein-coding pyrB 1198442 20140405 224914 BMEII0670 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene aspartate carbamoyltransferase protein-coding BMEII0671 1198443 20140222 224914 BMEII0671 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene acyl-CoA dehydrogenase protein-coding BMEII0701 1198473 20130518 224914 BMEII0701 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribose ABC transporter permease BMEII0759 1198531 20140405 224914 BMEII0759 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene cytochrome D ubiquinol oxidase subunit II protein-coding BMEII0761 1198533 20130518 224914 BMEII0761 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transport ATP-binding protein CYDC BMEII0762 1198534 20130611 224914 BMEII0762 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transport ATP-binding protein CYDD BMEII0799 1198571 20140222 224914 BMEII0799 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nitrate transport permease NRTB protein-coding BMEII0823 1198595 20140405 224914 BMEII0823 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol kinase protein-coding BMEII0881 1198653 20140406 224914 BMEII0881 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoketolase protein-coding BMEII0899 1198671 20140405 224914 BMEII0899 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene phosphomannomutase protein-coding BMEII0900 1198672 20140405 224914 BMEII0900 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene mannose-6-phosphate isomerase protein-coding BMEII0923 1198695 20130526 224914 BMEII0923 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding spermidine/putrescine-binding periplasmic protein nrdI 1198703 20140215 224914 BMEII0931 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding ribonucleotide reductase stimulatory protein BMEII0932 1198704 20140222 224914 BMEII0932 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glutaredoxin protein-coding BMEII0935 1198707 20140215 224914 BMEII0935 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nickel resistance protein protein-coding BMEII0950 1198722 20140405 224914 BMEII0950 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene nitrate reductase alpha chain protein-coding BMEII1001 1198773 20140215 224914 BMEII1001 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene heme-copper oxidase subunit III protein-coding BMEII1037 1198809 20140222 224914 BMEII1037 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding zinc protease BMEII1045 1198817 20130511 224914 BMEII1045 Bin Zhao, Yue Liu, Oliver He HAD superfamily protein involved in N-acetyl-glucosamine catabolism II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII1053 1198825 20140215 224914 BMEII1053 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glucose/galactose transporter protein-coding BMEII1066 1198838 20140406 224914 BMEII1066 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pyruvate dehydrogenase complex repressor flgI 1198856 20140215 224914 BMEII1084 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar basal body P-ring biosynthesis protein FlgA protein-coding BMEII1093 1198865 20130611 224914 BMEII1093 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene glycerol-3-phosphate regulon repressor protein-coding BMEII1101 1198873 20140215 224914 BMEII1101 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene bactoprenol glucosyl transferase / bactoprenol apolipoprotein N-acyltransferase protein-coding BMEII1116 1198888 20130508 224914 BMEII1116 Bin Zhao, Yue Liu, Oliver He II LuxR family transcriptional regulator NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding BMEII1124 1198896 20140405 224914 6-phosphogluconate dehydrogenase BMEII1124 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 11756688; 12271122 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding metH 20140405 359391 3786978 B12-dependent methionine synthase BAB1_0188 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pgi 20140405 359391 3787092 BAB1_0316 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glucose-6-phosphate isomerase protein-coding tig 20130511 359391 3787589 BAB1_0917 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding trigger factor uvrA 20130702 359391 3787776 BAB1_1128 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene excinuclease ABC subunit A protein-coding BAB1_1355 20130511 359391 3787926 BAB1_1355 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene calcium-binding EF-hand protein-coding miaA 20140405 359391 3787973 BAB1_1409 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding tRNA delta(2)-isopentenylpyrophosphate transferase pgk 20140405 359391 3788256 BAB1_1742 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoglycerate kinase protein-coding aroC 20140405 359391 3788622 BAB1_0454 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene chorismate synthase protein-coding aspC 20140405 359391 3788626 BAB1_1514 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene aspartate aminotransferase protein-coding bacA 20121017 359391 3788635 BAB1_0402 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding transporter cysI 20140406 359391 3788677 BAB1_0181 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene nitrite/sulfite reductase ferredoxin subunit protein-coding dut 20140405 359391 3788687 BAB1_1687 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene deoxyuridine 5'-triphosphate nucleotidohydrolase protein-coding glnA 20140405 359391 3788725 BAB1_1023 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glutamine synthetase protein-coding gloA 20140217 359391 3788728 BAB1_1286 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glyoxalase/bleomycin resistance protein/dioxygenase protein-coding glyA 20140405 359391 3788734 BAB1_0787 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding serine hydroxymethyltransferase gmd 20140406 359391 3788735 BAB1_0545 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding short-chain dehydrogenase hfq 20130702 359391 3788748 BAB1_1134 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 RNA-binding protein Hfq WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding hisC 20140405 359391 3788751 BAB1_1988 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene histidinol-phosphate aminotransferase protein-coding hisD 20140405 359391 3788752 BAB1_0285 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene histidinol dehydrogenase protein-coding hisF 20140405 359391 3788754 BAB1_2086 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene imidazole glycerol phosphate synthase subunit HisF protein-coding hpt 20140405 359391 3788755 BAB1_1986 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosyltransferase protein-coding ilvD 20140405 359391 3788763 BAB1_0096 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroxy-acid dehydratase protein-coding leuA 2-isopropylmalate synthase 20140406 359391 3788771 BAB1_1583 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding leuC 20140405 359391 3788772 BAB1_1905 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene isopropylmalate isomerase large subunit protein-coding lysA 20140405 359391 3788788 BAB1_1984 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene diaminopimelate decarboxylase protein-coding manA 20111201 359391 3788792 BAB1_0562 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied WEB: http://www.ncbi.nlm.nih.gov/gene pseudo pseudo ntrC 20140222 359391 3788817 BAB1_1140 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding response regulator receiver ntrY 20130508 359391 3788818 BAB1_1139 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PAS/histidine kinase/ATPase domain-containing protein PMID: 16299333; 22582926 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding omp19 20140406 359391 3788831 BAB1_1930 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333; 18761420 WEB: http://www.ncbi.nlm.nih.gov/gene lipoprotein Omp19 protein-coding pepN 20140405 359391 3788843 BAB1_0641 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene aminopeptidase N protein-coding pgm 20140405 359391 3788847 BAB1_0055 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoglucomutase protein-coding pheA 20140329 359391 3788850 BAB1_0034 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene prephenate dehydratase protein-coding pth 20140406 359391 3788869 BAB1_1552 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene peptidyl-tRNA hydrolase protein-coding purD 20140322 359391 3788874 BAB1_0442 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylamine--glycine ligase protein-coding purF 20140405 359391 3788875 BAB1_0472 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene amidophosphoribosyltransferase protein-coding purH 20140405 359391 3788876 BAB1_1824 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase protein-coding purM 20140405 359391 3788878 BAB1_0731 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylaminoimidazole synthetase protein-coding purN 20140405 359391 3788879 BAB1_0730 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene phosphoribosylglycinamide formyltransferase protein-coding pyc 20140405 359391 3788880 BAB1_1791 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding pyruvate carboxylase pyrD 20140405 359391 3788883 BAB1_0341 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene dihydroorotate dehydrogenase 2 protein-coding recA 20140406 359391 3788897 BAB1_1224 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding recombinase A rfbD 20130508 359391 3788901 BAB1_0543 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene acriflavin ABC transporter protein-coding rplS 20130702 359391 3788922 50S ribosomal protein L19 BAB1_1906 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding rpoA 20140405 359391 3788935 BAB1_1231 Bin Zhao, Yue Liu, Oliver He DNA-directed RNA polymerase subunit alpha I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding rpsA 20130508 30S ribosomal protein S1 359391 3788939 BAB1_0025 Bin Zhao, Yue Liu, Oliver He I NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding flgE 20140406 359391 3827409 BAB2_1098 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar hook protein FlgE protein-coding motB 20140405 359391 3827414 BAB2_1103 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar motor protein MotB protein-coding ugpA 20130529 359391 3827693 BAB2_0584 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene binding-protein dependent transport system inner membrane protein protein-coding ugpB 20130529 359391 3827694 BAB2_0585 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding solute-binding family 1 protein znuA 20130702 359391 3827700 BAB2_1079 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene periplasmic solute binding protein protein-coding znuC 20130702 359391 3827702 ABC transporter ATPase BAB2_1080 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding nrdH 20140222 359391 3827703 BAB2_0891 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glutaredoxin protein-coding pyrB 20140405 359391 3827823 BAB2_0641 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene aspartate carbamoyltransferase catalytic subunit protein-coding sodC 20140215 359391 3827840 BAB2_0535 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene copper/Zinc superoxide dismutase protein-coding BAB2_0061 20140222 359391 3827898 BAB2_0061 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333; 18469100 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding virulence protein xseA 20130529 359391 3827916 BAB2_0475 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene exodeoxyribonuclease VII large subunit protein-coding narG 20140405 359391 3827924 BAB2_0904 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene nitrate reductase subunit alpha protein-coding BAB2_0064 20130529 359391 3827978 BAB2_0064 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333; 18469100 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB5 BAB2_0066 20130508 359391 3827980 BAB2_0066 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB3-like protein BAB2_0067 20140406 359391 3827981 BAB2_0067 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding type IV secretion system protein VirB2 omp10 20121228 359391 3828036 BAB2_0076 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene lipoprotein Omp10 protein-coding cydB 20140405 359391 3828142 BAB2_0727 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333; 22919638 WEB: http://www.ncbi.nlm.nih.gov/gene cytochrome bd ubiquinol oxidase subunit II protein-coding divK 20130702 359391 3828149 BAB2_0628 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding response regulator receiver flgI 20120329 359391 3828215 BAB2_0153 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied WEB: http://www.ncbi.nlm.nih.gov/gene pseudo pseudo flgI 20120329 359391 3828216 BAB2_0154 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied WEB: http://www.ncbi.nlm.nih.gov/gene pseudo pseudo fliF 20140215 359391 3828220 BAB2_1105 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene flagellar MS-ring protein protein-coding gcvP 20140405 359391 3828233 BAB2_0515 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glycine dehydrogenase protein-coding gcvT 20140405 359391 3828234 BAB2_0513 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glycine cleavage system aminomethyltransferase T protein-coding glpK 20120329 359391 3828238 BAB2_0796 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied WEB: http://www.ncbi.nlm.nih.gov/gene pseudo pseudo gltD 20140405 359391 3828240 BAB2_0054 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene glutamate synthase subunit beta protein-coding gnd 20140405 359391 3828241 6-phosphogluconate dehydrogenase BAB2_0109 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene protein-coding hemH 20140322 359391 3828247 BAB2_0075 Bin Zhao, Yue Liu, Oliver He II NCBI-supplied PMID: 16299333 WEB: http://www.ncbi.nlm.nih.gov/gene ferrochelatase protein-coding