Bradyrhizobium barranii subsp. barranii strain 323S2 plasmid pBb323S2c, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Nitrobacteraceae; Bradyrhizobium; Bradyrhizobium barranii.
Strains of Bradyrhizobium barranii sp. nov. associated with legumes native to Canada are symbionts of soybeans and belong to different subspecies (subsp. barranii subsp. nov. and subsp. apii subsp. nov.) and symbiovars (sv. glycinearum and sv. septentrionale)
Int J Syst Evol Microbiol 72 (10) (2022)
Soybeans inoculated with root zone soils of Canadian native legumes harbour diverse and novel Bradyrhizobium spp. that possess agricultural potential
Erratum:[Syst Appl Microbiol. 2017 Dec;40(8):517. PMID: 29113688]
Submitted (18-NOV-2021) ORDC, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario K1A 0C6, Canada
Submitted (19-JUN-2020) ORDC, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario K1A 0C6, Canada
REFSEQ INFORMATION: The reference sequence is identical to\nCP088279.1.\nBacteria and source DNA available from Eden S.P. Bromfield,\nAgriculture and Agri-Food Canada, 960 Carling Ave., Ottawa ON K1A\n0C6.\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 Date :: NOV-2021\nAssembly Method :: Flye v. v2.9\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 687.0x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/13/2022 12:54:39\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;\n repeat_region\nGenes (total) :: 11,061\nCDSs (total) :: 10,995\nGenes (coding) :: 10,354\nCDSs (with protein) :: 10,354\nGenes (RNA) :: 66\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 56\nncRNAs :: 4\nPseudo Genes (total) :: 641\nCDSs (without protein) :: 641\nPseudo Genes (ambiguous residues) :: 0 of 641\nPseudo Genes (frameshifted) :: 332 of 641\nPseudo Genes (incomplete) :: 411 of 641\nPseudo Genes (internal stop) :: 43 of 641\nPseudo Genes (multiple problems) :: 133 of 641\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:TIGR01613.1
GO:0003896 - DNA primase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015802.2
COORDINATES: similar to AA sequence:RefSeq:WP_012333744.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011505213.1
autoinducer binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011505212.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505204.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011505203.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007010023.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: similar to AA sequence:RefSeq:WP_020048127.1
Ti-type conjugative transfer relaxase TraA
COORDINATES: similar to AA sequence:RefSeq:WP_018458955.1
COORDINATES: similar to AA sequence:RefSeq:WP_018458954.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_010974894.1
Ti-type conjugative transfer system protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_011511482.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011084757.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF021471.2
COORDINATES: protein motif:HMM:NF025080.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS1380-like element ISBdi2 family transposase
COORDINATES: protein motif:HMM:NF024565.2
COORDINATES: protein motif:HMM:NF012711.2
COORDINATES: protein motif:HMM:NF014273.2
ParB/Srx family N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076612082.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS3-like element ISRj2 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_039183842.1
COORDINATES: protein motif:HMM:NF014825.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611663.1
IS5-like element ISBj2 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_086558236.1
IS21-like element IS1631 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_014497719.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018641867.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_028714619.1
COORDINATES: similar to AA sequence:RefSeq:WP_011084462.1
IS701-like element ISBj6 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_011086231.1
ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF014901.2
COORDINATES: similar to AA sequence:RefSeq:WP_006491127.1
COORDINATES: similar to AA sequence:RefSeq:WP_007597078.1
COORDINATES: similar to AA sequence:RefSeq:WP_018273926.1
COORDINATES: protein motif:HMM:NF016330.2
GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011511274.1
COORDINATES: similar to AA sequence:RefSeq:WP_011511275.1
COORDINATES: similar to AA sequence:RefSeq:WP_011511276.1
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011084703.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011992921.1
COORDINATES: similar to AA sequence:RefSeq:WP_013913704.1
COORDINATES: similar to AA sequence:RefSeq:WP_020047573.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_017263801.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_018097622.1
COORDINATES: similar to AA sequence:RefSeq:WP_018444840.1
COORDINATES: similar to AA sequence:RefSeq:WP_010023905.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_011505228.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505227.1
COORDINATES: similar to AA sequence:RefSeq:WP_019998619.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505225.1
COORDINATES: similar to AA sequence:RefSeq:WP_012649102.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505223.1
COORDINATES: similar to AA sequence:RefSeq:WP_012650639.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505221.1
COORDINATES: similar to AA sequence:RefSeq:WP_003523577.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_011505219.1
GO:0009292 - horizontal gene transfer [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011505218.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_018482029.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505216.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_018325663.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505214.1
IncP-type conjugal transfer protein TrbI
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: protein motif:HMM:NF018755.2
COORDINATES: protein motif:HMM:NF012862.2
COORDINATES: similar to AA sequence:RefSeq:WP_011090902.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076612067.1
programmed frameshift; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076612008.1
COORDINATES: similar to AA sequence:RefSeq:WP_016241516.1
reverse transcriptase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012319572.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982903.1
COORDINATES: similar to AA sequence:RefSeq:WP_018310241.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: similar to AA sequence:RefSeq:WP_076611730.1
GO:0015074 - DNA integration [Evidence IEA]
DDE-type integrase/transposase/recombinase
COORDINATES: protein motif:HMM:NF014336.2
COORDINATES: similar to AA sequence:RefSeq:WP_008961509.1
COORDINATES: protein motif:HMM:NF013003.2
COORDINATES: protein motif:HMM:NF012376.2
COORDINATES: similar to AA sequence:RefSeq:WP_014342026.1
COORDINATES: similar to AA sequence:RefSeq:WP_008758283.1
COORDINATES: protein motif:HMM:NF016693.2
COORDINATES: similar to AA sequence:RefSeq:WP_018453724.1
COORDINATES: protein motif:HMM:NF012955.2
COORDINATES: similar to AA sequence:RefSeq:WP_018453721.1
COORDINATES: protein motif:HMM:NF013646.2
COORDINATES: similar to AA sequence:RefSeq:WP_014495315.1
COORDINATES: similar to AA sequence:RefSeq:WP_014495316.1
COORDINATES: protein motif:HMM:NF024180.2
COORDINATES: similar to AA sequence:RefSeq:WP_011579036.1
COORDINATES: similar to AA sequence:RefSeq:WP_012112705.1
COORDINATES: similar to AA sequence:RefSeq:WP_013300243.1
COORDINATES: similar to AA sequence:RefSeq:WP_012114971.1
COORDINATES: similar to AA sequence:RefSeq:WP_012114970.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818581.1
COORDINATES: similar to AA sequence:RefSeq:WP_011951046.1
COORDINATES: similar to AA sequence:RefSeq:WP_019995386.1
COORDINATES: protein motif:HMM:NF025819.2
COORDINATES: protein motif:HMM:NF013862.2
GO:0006629 - lipid metabolic process [Evidence IEA]
patatin-like phospholipase family protein
COORDINATES: protein motif:HMM:NF025539.2