Solidesulfovibrio carbinoliphilus subsp. oakridgensis strain FW-101-2B plasmid pFW10102, whole genome shotgun sequence.
Solidesulfovibrio carbinoliphilus subsp. oakridgensis
Bacteria; Thermodesulfobacteriota; Desulfovibrionia; Desulfovibrionales; Desulfovibrionaceae; Solidesulfovibrio.
High-Quality Draft Genome Sequence of Desulfovibrio carbinoliphilus FW-101-2B, an Organic Acid-Oxidizing Sulfate-Reducing Bacterium Isolated from Uranium(VI)-Contaminated Groundwater
Complete sequence of chromosome Desulfovibrio sp. FW1012B
Submitted (14-JUN-2011) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
Submitted (07-DEC-2009) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCM001370.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4086280\nSource DNA and organism available from Terry C. Hazen\n(TCHazen@lbl.gov)\nContacts: Terry C. Hazen (TCHazen@lbl.gov)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Desulfovibrio sp. FW1012B\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Fresh water, Animal intestinal microflora,\n Mud, Sea water, Soil\nnum_replicons :: 3\nref_biomaterial :: Missing\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Obligate anaerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi03938\nFunding Program :: DOE-GTL 2007\nGene Calling Method :: Prodigal 1.4, GenePRIMP\nIsolation Site :: ORFRC groundwater during biostimulation for\n uranium bioreduction.\nCell Shape :: Rod-shaped\nMotility :: Motile\nSporulation :: Sporulating\nTemperature Range :: Mesophile\nTemperature Optimum :: 37C\nGram Staining :: Gram-\nDiseases :: None\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Noncontiguous Finished\nCurrent Finishing Status :: Noncontiguous Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: 454; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/10/2023 13:40:39\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,815\nCDSs (total) :: 3,745\nGenes (coding) :: 3,729\nCDSs (with protein) :: 3,729\nGenes (RNA) :: 70\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 55\nncRNAs :: 6\nPseudo Genes (total) :: 16\nCDSs (without protein) :: 16\nPseudo Genes (ambiguous residues) :: 0 of 16\nPseudo Genes (frameshifted) :: 3 of 16\nPseudo Genes (incomplete) :: 14 of 16\nPseudo Genes (internal stop) :: 1 of 16\nPseudo Genes (multiple problems) :: 2 of 16\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
ORFRC groundwater during biostimulation for uranium bioreduction
reference strain of Desulfovibrio carbinoliphilus subsp. oakridgensis
COORDINATES: similar to AA sequence:RefSeq:WP_006918406.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006918407.1
COORDINATES: similar to AA sequence:RefSeq:WP_006918408.1
GO:0004672 - protein kinase activity [Evidence IEA]
GO:0006468 - protein phosphorylation [Evidence IEA]
bifunctional serine/threonine-protein kinase/formylglycine-generating enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009183051.1
protein phosphatase 2C domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006918410.1
COORDINATES: similar to AA sequence:RefSeq:WP_006918411.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_006918413.1
COORDINATES: similar to AA sequence:RefSeq:WP_006918414.1
COORDINATES: similar to AA sequence:RefSeq:WP_009183053.1
COORDINATES: similar to AA sequence:RefSeq:WP_006918417.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma 54-interacting transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006918420.1
PAS domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_006918422.1
COORDINATES: similar to AA sequence:RefSeq:WP_006918423.1
COORDINATES: similar to AA sequence:RefSeq:WP_009183055.1
COORDINATES: similar to AA sequence:RefSeq:WP_006917623.1
COORDINATES: similar to AA sequence:RefSeq:WP_009106194.1
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006918405.1