Halodesulfovibrio aestuarii (DSM 10141, W218)

Name: Halodesulfovibrio aestuarii (DSM 10141, W218)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4126

Type strain

Strain Designation W218

Culture col. no. DSM 10141 W218

NCBI tax ID(s) 1121434 126333

Special Collections DSMZ

Links

Halodesulfovibrio aestuarii W218 is an anaerobe, mesophilic prokaryote that was isolated from marine sediment.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 48761

DSM 10141

@ref 20215

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

Domain Pseudomonadati

Phylum Thermodesulfobacteriota

Class Desulfovibrionia

Order Desulfovibrionales

Family Desulfovibrionaceae

Genus Halodesulfovibrio

Species Halodesulfovibrio aestuarii

Full scientific name Halodesulfovibrio aestuarii (Postgate and Campbell 1966) Shivani et al. 2017

Synonyms (2)

Desulfovibrio acrylicus
Desulfovibrio desulfuricans subsp. aestuarii

BacDive ID	Other strains from **Halodesulfovibrio aestuarii** (2)	Type strain
4161	H. aestuarii DSM 17919, ATCC 29578, NCIMB 9335, Sylt 3 (type strain)
4127	H. aestuarii JBL, DSM 14367

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.9
125438	negative	95.983

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3818	DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c)		Medium recipe at MediaDive	Name: DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c; with strain-specific modifications) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na-L-lactate 2.49252 g/l Na2CO3 1.49551 g/l Yeast extract 0.997009 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299103 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 NaOH 0.000498504 g/l Sodium resazurin 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 Nicotinic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 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
3818	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
3818	anaerobe
125439	obligate aerobe	96

Spore formation

@ref	Spore formation	Confidence
125439		99.7
125438		91.182

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
3818	marine sediment	Wadden Sea near Westernieland	Netherlands	NLD	Europe

Taxonmaps

69479

Global distribution of 16S sequence U32578 (>99% sequence identity) for Halodesulfovibrio from Microbeatlas

Aquatic Samples	28
Soil Samples	2
Animal Samples
Plant Samples
Total Samples	30

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3818	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
124043	118246 assembly for Halodesulfovibrio aestuarii DSM 10141	complete	GCA_050571345			1121434	99.77
66792	ASM42252v1 assembly for Halodesulfovibrio aestuarii DSM 10141	scaffold	GCA_000422525	1121434.3	2524614816	1121434	51.85

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
3818	Desulfovibrio acrylicus 16S ribosomal RNA gene	U32578	1354		1121434

GC content

@ref	GC-content (mol%)	Method
3818	45.1	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Halodesulfovibrio aestuarii DSM 10141
NCBI: GCA_000422525

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.00	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	motility	BacteriaNetⓘ	yes	84.90	no
125439	spore_formation	BacteriaNetⓘ	no	99.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halodesulfovibrio aestuarii DSM 10141 DSM 10141
NCBI: GCA_000422525.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.98	no
125438	anaerobic	anaerobicⓘ	yes	82.73	yes
125438	aerobic	aerobicⓘ	no	90.73	yes
125438	spore-forming	spore-formingⓘ	no	91.18	no
125438	thermophilic	thermophileⓘ	no	92.27	yes
125438	flagellated	motile2+ⓘ	yes	75.25	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Novel Insights on Extracellular Electron Transfer Networks in the Desulfovibrionaceae Family: Unveiling the Potential Significance of Horizontal Gene Transfer.	Gonzalez V, Abarca-Hurtado J, Arancibia A, Claverias F, Guevara MR, Orellana R.	Microorganisms	10.3390/microorganisms12091796	2024
	Ecophysiological Features Shape the Distribution of Prophages and CRISPR in Sulfate Reducing Prokaryotes.	Orellana R, Arancibia A, Badilla L, Acosta J, Arancibia G, Escar R, Ferrada G, Seeger M.	Microorganisms	10.3390/microorganisms9050931	2021
Metabolism	Prokaryotic viperins produce diverse antiviral molecules.	Bernheim A, Millman A, Ofir G, Meitav G, Avraham C, Avraham C, Shomar H, Rosenberg MM, Tal N, Melamed S, Amitai G, Sorek R.	Nature	10.1038/s41586-020-2762-2	2021
Metabolism	The Ruegeria pomeroyi acuI gene has a role in DMSP catabolism and resembles yhdH of E. coli and other bacteria in conferring resistance to acrylate.	Todd JD, Curson AR, Sullivan MJ, Kirkwood M, Johnston AW.	PLoS One	10.1371/journal.pone.0035947	2012
Genetics	Rhodoalgimonas zhirmunskyi gen. nov., sp. nov., a Marine Alphaproteobacterium Isolated from the Pacific Red Alga Ahnfeltia tobuchiensis: Phenotypic Characterization and Pan-Genome Analysis.	Nedashkovskaya O, Otstavnykh N, Balabanova L, Bystritskaya E, Kim SG, Zhukova N, Tekutyeva L, Isaeva M.	Microorganisms	10.3390/microorganisms11102463	2023
Phylogeny	Epibacterium ulvae gen. nov., sp. nov., epibiotic bacteria isolated from the surface of a marine alga.	Penesyan A, Breider S, Schumann P, Tindall BJ, Egan S, Brinkhoff T.	Int J Syst Evol Microbiol	10.1099/ijs.0.042838-0	2013
Phylogeny	Desulfovibrio oceani subsp. oceani sp. nov., subsp. nov. and Desulfovibrio oceani subsp. galateae subsp. nov., novel sulfate-reducing bacteria isolated from the oxygen minimum zone off the coast of Peru.	Finster KW, Kjeldsen KU	Antonie Van Leeuwenhoek	10.1007/s10482-009-9403-y	2009
Phylogeny	Desulfovibrio marinisediminis sp. nov., a novel sulfate-reducing bacterium isolated from coastal marine sediment via enrichment with Casamino acids.	Takii S, Hanada S, Hase Y, Tamaki H, Uyeno Y, Sekiguchi Y, Matsuura K	Int J Syst Evol Microbiol	10.1099/ijs.0.65750-0	2008
Phylogeny	Desulfovibrio psychrotolerans sp. nov., a psychrotolerant and moderately alkaliphilic sulfate-reducing deltaproteobacterium from the Himalayas.	Sasi Jyothsna TS, Sasikala Ch, Ramana ChV	Int J Syst Evol Microbiol	10.1099/ijs.0.65402-0	2008

References

#3818	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10141
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Halodesulfovibrio aestuarii (DSM 10141, W218)

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_050571345

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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