Rhodovibrio sodomensis (DSM 9895, ATCC 51195, DSI)

Name: Rhodovibrio sodomensis (DSM 9895, ATCC 51195, DSI)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13959

Type strain

Strain Designation DSI

Culture col. no. DSM 9895 ATCC 51195 DSI

NCBI tax ID(s) 1088

Special Collections DSMZ

History DSMZ <- M. T. Madigan

Links

Rhodovibrio sodomensis DSI is an anaerobe bacterium that was isolated from sediment/water samples from the Dead Sea.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 48718

DSM 9895,ATCC 51195

@ref 20215

Last LPSN update 2026-05-29 08:28:10

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Rhodovibrionaceae

Genus Rhodovibrio

Species Rhodovibrio sodomensis

Full scientific name Rhodovibrio sodomensis (Mack et al. 1996) Imhoff et al. 1998

Synonyms (1)

Rhodospirillum sodomense

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	97.741
125438	negative	98.25

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3756	DSIC MEDIUM (modified) (DSMZ Medium 747)		Medium recipe at MediaDive	Name: DSIC MEDIUM (modified) (DSMZ Medium 747) Composition: NaCl 112.613 g/l MgCl2 x 6 H2O 9.5238 g/l K2SO4 2.25225 g/l MOPS buffer 1.89189 g/l Na-acetate 1.8018 g/l NaHCO3 1.11111 g/l Yeast extract 0.675676 g/l KH2PO4 0.540541 g/l NH4Cl 0.450451 g/l CaCl2 x 2 H2O 0.190476 g/l Na2S2O3 x 5 H2O 0.09009 g/l HCl 0.00225225 g/l FeCl2 x 4 H2O 0.00135135 g/l CoCl2 x 6 H2O 0.000171171 g/l MnCl2 x 4 H2O 9.00901e-05 g/l ZnCl2 6.30631e-05 g/l Na2MoO4 x 2 H2O 3.24324e-05 g/l NiCl2 x 6 H2O 2.16216e-05 g/l H3BO3 5.40541e-06 g/l CuCl2 x 2 H2O 1.8018e-06 g/l Vitamin B12 Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
3756	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
3756	anaerobe
125439	obligate aerobe	98.545

Spore formation

@ref	Spore formation	Confidence
125439		99.542

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location
3756	sediment/water samples from the Dead Sea	Ein Gedi region

Taxonmaps

69479

Global distribution of 16S sequence FR733704 (>99% sequence identity) for Rhodovibrio sodomensis from Microbeatlas

Aquatic Samples	5
Soil Samples	5
Animal Samples	0
Plant Samples	0
Total Samples	10

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3756	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	ASM1658364v1 assembly for Rhodovibrio sodomensis DSM 9895	scaffold	GCA_016583645	1088.4	2993873675	1088	8.41

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Rhodospirillum sodomense 16S ribosomal RNA	M59072	1440		1088
20218	Rhodovibrio sodomensis partial 16S rRNA gene, type strain DSM9895T	FR733704	1480		1088

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1658364v1 assembly for Rhodovibrio sodomensis DSM 9895
BV-BRC: 1088.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.55	no
125439	gram_stain	BacteriaNetⓘ	negative	97.74	no
125439	spore_formation	BacteriaNetⓘ	no	99.54	no
125439	motility	BacteriaNetⓘ	yes	63.32	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodovibrio sodomensis DSM 9895
NCBI: GCA_016583645.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.25	no
125438	anaerobic	anaerobicⓘ	no	76.35	yes
125438	aerobic	aerobicⓘ	yes	62.96	yes
125438	spore-forming	spore-formingⓘ	no	86.10	no
125438	thermophilic	thermophileⓘ	no	89.43	yes
125438	flagellated	motile2+ⓘ	yes	77.14	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genomic highlights of the phylogenetically unique halophilic purple nonsulfur bacterium, Rhodothalassium salexigens.	Madigan MT, Bender KS, Parenteau MN, Kimura Y, Wang-Otomo ZY, Sattley WM.	Extremophiles	10.1007/s00792-025-01380-8	2025
Genetics	Osmotic Adaptation and Compatible Solute Biosynthesis of Phototrophic Bacteria as Revealed from Genome Analyses.	Imhoff JF, Rahn T, Kunzel S, Keller A, Neulinger SC.	Microorganisms	10.3390/microorganisms9010046	2020
Phylogeny	Limimonas halophila gen. nov., sp. nov., an extremely halophilic bacterium in the family Rhodospirillaceae.	Amoozegar MA, Makhdoumi-Kakhki A, Ramezani M, Nikou MM, Fazeli SAS, Schumann P, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.041236-0	2012

References

#3756	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 9895
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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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Rhodovibrio sodomensis (DSM 9895, ATCC 51195, DSI)

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_016583645

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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