Candidatus Pantoea carbekii strain US plasmid pBMSBPS2, complete sequence.
type: Entry
definition: Candidatus Pantoea carbekii strain US plasmid pBMSBPS2, complete sequence.
sequence version: NZ_CP010909.1
sequence date: 2022-12-13
sequence: sequence
division: CON
label: NZ_CP010909.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN03371649
keyword: RefSeq
source: Candidatus Pantoea carbekii (primary bacterial symbiont of Brown Marmorated Stink Bug)
organism: Candidatus Pantoea carbekii
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Erwiniaceae; Pantoea.
reference: 1
references: 25587021
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP010909.1.\nSource DNA is available from Zakee L. Sabree, sabree.8@osu.edu,\nDepartment of Evolution, Ecology and Organismal Biology, The Ohio\nState University, 318 W. 12th. Avenue Room 300, Columbus, Ohio,\nUSA.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: BWA v. 0.6.1\nGenome Coverage :: 7,487X\nSequencing Technology :: Sanger dideoxy sequencing; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/12/2022 20:12:02\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 879\nCDSs (total) :: 829\nGenes (coding) :: 802\nCDSs (with protein) :: 802\nGenes (RNA) :: 50\nrRNAs :: 2, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 3, 3 (5S, 16S, 23S)\ntRNAs :: 39\nncRNAs :: 3\nPseudo Genes (total) :: 27\nCDSs (without protein) :: 27\nPseudo Genes (ambiguous residues) :: 0 of 27\nPseudo Genes (frameshifted) :: 9 of 27\nPseudo Genes (incomplete) :: 17 of 27\nPseudo Genes (internal stop) :: 11 of 27\nPseudo Genes (multiple problems) :: 9 of 27\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6287
topology: circular
so has quality: SO_0000988
location: 1..6287
location: region:1-6287:1
RO_0002162: 1235990

NZ_CP010909
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN03371649
type: BioSample
SIO_000068: biosample

1
title: Habitat visualization and genomic analysis of 'Candidatus Pantoea carbekii,' the primary symbiont of the brown marmorated stink bug
author: Kenyon, L.J.
author: Meulia, T.
author: Sabree, Z.L.
journal: Genome Biol Evol
volume: 7
issue: 2
pages: 620-635
year: 2015
pubmed: 25587021
comments: Publication Status: Online-Only

25587021
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Kenyon, L.J.
author: Meulia, T.
author: Sabree, Z.L.
journal: Submitted (02-FEB-2015) The Ohio State University, Evolution, Ecology, and Organismal Biology, 318 West 12th Avenue, Columbus, OH 43210, USA

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6287:1
position: 6287
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6287:1:source
so part of: sequence
organism: Candidatus Pantoea carbekii
mol type: genomic DNA
strain: US
isolation source: distal midgut region V4
host: Halyomorpha halys
plasmid: pBMSBPS2
country: USA: Ohio,Wooster
lat lon: 40.7793 N 81.9250 W
collection date: 2014-02
common: primary bacterial symbiont of Brown Marmorated Stink Bug

1235990
type: Taxonomy
SIO_000068: taxonomy

BMSBPS_RS04250
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
gene: repA
locus tag: BMSBPS_RS04250
old locus tag: BMSBPS_p0010
so part of: sequence
location: complement(1..864)
location: region:1-864:-1
so has part: feature:1-864:-1:exon
subclass of: SO_0000010

position:1:-1
position: 1
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:864:-1
position: 864
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-864:-1:exon

BMSBPS_RS04250
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
gene: repA
locus tag: BMSBPS_RS04250
old locus tag: BMSBPS_p0010
inference: COORDINATES: similar to AA sequence:RefSeq:NP_490498.3
GO process: GO:0006276 - plasmid maintenance [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: incFII family plasmid replication initiator RepA
translation: MTNTQTLLKYYRQVKNPNPKFNPAEGKKTLPFCRKLMSKAANFTSRFDFRMHVAFVRSLGKRRRMPPLLRRRAIDALLQAMCFHYDPLANRVQSSITNLALECGLATASKNGNLSTTRATRALLFLMELGLITYHTEYDPNIGCNIPTDITFTPALFSALDISEVAVAAARHSRAEWENCQRKKQNLPLLNKDDLIAKAWRFVRERFRVYQIERRASGFKRARARRDAKRTRRDIETIVKLQLTREIAQGRFEANQVAVFNEVKRRVRERMLMSRAYNYTQLRILTT
SIO_010081: BMSBPS_RS04250
subclass of: SO_0000673
so part of: BMSBPS_RS04250
location: complement(1..864)
location: region:1-864:-1
so has part: feature:1-864:-1:exon

WP_046201232.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-864:-1:exon

BMSBPS_RS04255
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04255
old locus tag: BMSBPS_p0011
so part of: sequence
location: 2396..3355
location: region:2396-3355:1
so has part: feature:2396-3355:1:exon
subclass of: SO_0000010

position:2396:1
position: 2396
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3355:1
position: 3355
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2396-3355:1:exon

BMSBPS_RS04255
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04255
old locus tag: BMSBPS_p0011
inference: COORDINATES: protein motif:HMM:NF014893.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Gfo/Idh/MocA family oxidoreductase
translation: MKISIIGCGNIIIKEHIPAIISLGIKVCALCDLSIENINKAKNLLHYDVPSFLYYKELVYIIKPNIVLIALPHNIYCEVLSFCSQFPMRIIKEKPFALTLLESKIFSDFSRSRSFKIFTVCQKRYTLAYEILKHEVQRINEKISYLKIRYTIPSNNPNKDWRRQYATSGGGVWFDMGYHIVDIINYLFDGKEIKVNYARLINSSCHYYNVDDIAFVEFECDGAIILAYISCVAIEKYEDVTMYGQNTIFHANKNHITLKNKKQEILKYIKVENTSPFVKMYQEFLCNGGEAAFERNLSRSISLMRVLEEASKKSNFCKK
SIO_010081: BMSBPS_RS04255
subclass of: SO_0000673
so part of: BMSBPS_RS04255
location: 2396..3355
location: region:2396-3355:1
so has part: feature:2396-3355:1:exon

WP_046201233.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2396-3355:1:exon

BMSBPS_RS04260
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04260
old locus tag: BMSBPS_p0012
so part of: sequence
location: 3373..4572
location: region:3373-4572:1
so has part: feature:3373-4572:1:exon
subclass of: SO_0000010

position:3373:1
position: 3373
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4572:1
position: 4572
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3373-4572:1:exon

BMSBPS_RS04260
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04260
old locus tag: BMSBPS_p0012
inference: COORDINATES: protein motif:HMM:NF013227.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: aminotransferase class V-fold PLP-dependent enzyme
translation: MCSKFSRFSHPKITENIKKSVQNQLLEAISIYDNGGIYERLEGEFKKKFNVKNAIAVNSGTTALFSMFYGAGITQGDEVIVPSYTFFATCSPLHQLGAQLRFADCLDNGNVDPKAVEVLITSKTKAIVITHMWGIPCDMDELVDICNRYNLLLLEDSSHAHGATWNEQIIGSFSDGSAWSFQGKKILTSGEGGFFATKHSRIYERAVLVGHFNKRAQKEVTDEDLRNFVITGTGLNLRMHPLAAAIVLPQMFDFDQIMQEKRETALILKKEIETIDGLKIVRIPSQANPAWYALPILFDKNKFTVNMYDFVKKLNELGAYEADIPASTCPLHKYPLFHSPDKISQSYPQKLYVNKQNFTNAIKFHNSMFKLDVWYGKERFDFIDNYLSIIHYVAKLYKK
SIO_010081: BMSBPS_RS04260
subclass of: SO_0000673
so part of: BMSBPS_RS04260
location: 3373..4572
location: region:3373-4572:1
so has part: feature:3373-4572:1:exon

WP_052719893.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3373-4572:1:exon

BMSBPS_RS04265
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04265
old locus tag: BMSBPS_p0013
so part of: sequence
location: 4569..4997
location: region:4569-4997:1
so has part: feature:4569-4997:1:exon
subclass of: SO_0000010

position:4569:1
position: 4569
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4997:1
position: 4997
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4569-4997:1:exon

BMSBPS_RS04265
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04265
old locus tag: BMSBPS_p0013
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010618524.1
GO function: GO:0016787 - hydrolase activity [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: NUDIX domain-containing protein
translation: MIEKFIPYEVLKKINNYDRIVVGGIISLKNEMDVLFIKRSKHDFMPDKWEIPSGGIKQGESMFKALKREIKEETNLNIIKIVGYESAVAYIVNNKECLQITFRVFCYGNIKLSTEHSQYIFSDLNNIKDNLDIFMLKVFNIM
SIO_010081: BMSBPS_RS04265
subclass of: SO_0000673
so part of: BMSBPS_RS04265
location: 4569..4997
location: region:4569-4997:1
so has part: feature:4569-4997:1:exon

WP_046201234.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4569-4997:1:exon

BMSBPS_RS04270
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04270
old locus tag: BMSBPS_p0014
so part of: sequence
location: 5052..5843
location: region:5052-5843:1
so has part: feature:5052-5843:1:exon
subclass of: SO_0000010

position:5052:1
position: 5052
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5843:1
position: 5843
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5052-5843:1:exon

BMSBPS_RS04270
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04270
old locus tag: BMSBPS_p0014
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010618523.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: inositol monophosphatase
translation: MLSIAIQAVKNTRLYSINAFDNIKKFKLKFDQSFVTHADLYIESCIKKFLSIKTPNVPILGEEFGSTINHEFHTGWIIDPIDGTKAFLYGVPLFSTLLAYIENHEPVIGVIYFPILNKIIYANQGYGCWMQSGNSPAIKIIFKTNDKKRLRSSVISISGIHSTTFNSREGKKAYKLFNLIDFARDIIFINDCYQHIMVSTGRIDAAIDTLMKAWDIAALLPCMKESGVIYSNLQGSCEKLLWGKSFVTAASQTLLEEIVNALN
SIO_010081: BMSBPS_RS04270
subclass of: SO_0000673
so part of: BMSBPS_RS04270
location: 5052..5843
location: region:5052-5843:1
so has part: feature:5052-5843:1:exon

WP_046201235.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5052-5843:1:exon