Desulfovibrio oxyclinae (DSM 11498, P1B)

Name: Desulfovibrio oxyclinae (DSM 11498, P1B)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4133

Type strain

Strain Designation P1B

Culture col. no. DSM 11498 P1B

NCBI tax ID(s) 1121459 63560

Special Collections DSMZ

Links

Desulfovibrio oxyclinae P1B is an anaerobe, mesophilic prokaryote that was isolated from hypersaline cyanobacterial mat.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 49122

DSM 11498

@ref 20215

Last LPSN update 2025-12-16 09:47:44

Domain Pseudomonadati

Phylum Thermodesulfobacteriota

Class Desulfovibrionia

Order Desulfovibrionales

Family Desulfovibrionaceae

Genus Desulfovibrio

Species Desulfovibrio oxyclinae

Full scientific name Desulfovibrio oxyclinae Krekeler et al. 2000

Synonyms (1)

"Pseudodesulfovibrio oxyclinae"

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	95.949
125439	negative	96.6

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
4389	PSEUDODESULFOVIBRIO MEDIUM (DSMZ Medium 496)		Medium recipe at MediaDive	Name: PSEUDODESULFOVIBRIO MEDIUM (DSMZ Medium 496) Composition: NaCl 69.7907 g/l Na2SO4 2.99102 g/l MgCl2 x 6 H2O 2.99102 g/l Na-L-lactate 2.49252 g/l Na2CO3 0.997009 g/l KCl 0.498505 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299102 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498505 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
4389	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

4389

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Microbial community	#Microbial mat
#Host	#Microbial	#Bacteria
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
4389	hypersaline cyanobacterial mat	Sinai, Solar Lake	Egypt	EGY	Africa

Taxonmaps

69479

Global distribution of 16S sequence U33316 (>99% sequence identity) for Desulfovibrio oxyclinae from Microbeatlas

Aquatic Samples	8
Soil Samples	6
Animal Samples	1
Plant Samples
Total Samples	15

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4389	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM37548v1 assembly for Desulfovibrio oxyclinae DSM 11498	contig	GCA_000375485	1121459.3	2515154157	1121459	72.1

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
4389	Desulfovibrio oxyclinae strain P1B 16S ribosomal RNA gene, partial sequence	U33316	1494		63560

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Desulfovibrio oxyclinae DSM 11498
NCBI: GCA_000375485

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.40	no
125439	motility	BacteriaNetⓘ	yes	70.20	no
125439	gram_stain	BacteriaNetⓘ	negative	96.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	86.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Desulfovibrio oxyclinae DSM 11498
PATRIC: 1121459.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.95	no
125438	anaerobic	anaerobicⓘ	yes	84.80	yes
125438	spore-forming	spore-formingⓘ	no	89.87	no
125438	aerobic	aerobicⓘ	no	85.62	yes
125438	thermophilic	thermophileⓘ	no	85.72	no
125438	flagellated	motile2+ⓘ	yes	79.68	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Bioinformatics Investigations of Universal Stress Proteins from Mercury-Methylating Desulfovibrionaceae.	Isokpehi RD, McInnis DS, Destefano AM, Johnson GS, Walker AD, Hall YA, Mapp BW, Johnson MO, Simmons SS.	Microorganisms	10.3390/microorganisms9081780	2021
Metabolism	Oxygen-dependent growth of the sulfate-reducing bacterium Desulfovibrio oxyclinae in coculture with Marinobacter sp. Strain MB in an aerated sulfate-depleted chemostat.	Sigalevich P, Cohen Y.	Appl Environ Microbiol	10.1128/aem.66.11.5019-5023.2000	2000
Metabolism	Sulfate reduction and possible aerobic metabolism of the sulfate-reducing bacterium Desulfovibrio oxyclinae in a chemostat coculture with Marinobacter sp. Strain MB under exposure to increasing oxygen concentrations.	Sigalevich P, Baev MV, Teske A, Cohen Y.	Appl Environ Microbiol	10.1128/aem.66.11.5013-5018.2000	2000
Metabolism	Transition from anaerobic to aerobic growth conditions for the sulfate-reducing bacterium Desulfovibrio oxyclinae results in flocculation.	Sigalevich P, Meshorer E, Helman Y, Cohen Y.	Appl Environ Microbiol	10.1128/aem.66.11.5005-5012.2000	2000
Pathogenicity	Aerotaxis in Desulfovibrio.	Eschemann A, Kuhl M, Cypionka H	Environ Microbiol	10.1046/j.1462-2920.1999.00057.x	1999

References

#4389	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11498
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Desulfovibrio oxyclinae (DSM 11498, P1B)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000375485

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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