Name: Halodesulfovibrio aestuarii DSM 17919
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 4161

Type strain:

Species: Halodesulfovibrio aestuarii

Culture col. no.: DSM 17919, ATCC 29578, NCIMB 9335, Sylt 3

Strain history: <- NCIMB <- J. R. Postgate <- K. Stüven, Inst. Allg. Botanik, Univ. Hamburg; Sylt 3

NCBI tax ID(s): 126333 (species)

SI-ID 39595

ATCC 29578, NCIB 9335, NCIMB 9335, DSM 17919

Special Collections

Other strains from Halodesulfovibrio aestuarii

Section

Halodesulfovibrio aestuarii DSM 17919 is an anaerobe, vibrio-shaped bacterium that was isolated from shoal mud.

vibrio-shaped
anaerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfovibrionales*
	Family	*Desulfovibrionaceae*
	Genus	*Halodesulfovibrio*
	Species	**Halodesulfovibrio aestuarii**
	Full Scientific Name (LPSN)	Halodesulfovibrio aestuarii (Postgate and Campbell 1966) Shivani et al. 2017

	Synonym	Desulfovibrio desulfuricans subsp. aestuarii
	Synonym	Desulfovibrio acrylicus

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %96.983

[Ref.: #25150]	Cell length	1.5-4.0 µm

[Ref.: #25150]	Cell width	0.5-0.8 µm

[Ref.: #25150]	Cell shape	vibrio-shaped

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7246]

Culture medium

HALODESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 163)

[Ref.: #7246]

Culture medium growth

[Ref.: #7246]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7246]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7246]	growth	30 °C
[Ref.: #25150]	optimum	30.0-36.0 °C
[Ref.: #25150]	growth	10.0-40.0 °C

	pH	Kind of pH		pH
[Ref.: #25150]			optimum	7.5
[Ref.: #25150]			growth	6.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7246]	Oxygen tolerance	anaerobe
[Ref.: #25150]	Oxygen tolerance	obligate anaerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %90.216
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25150]		NaCl		optimum	2	%
[Ref.: #25150]		NaCl		growth	1.0-4.0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #25150]	acetate ChEBI	+	electron donor
[Ref.: #25150]	aspartate ChEBI	+	electron donor
[Ref.: #25150]	benzoate ChEBI	+	electron donor
[Ref.: #25150]	cellobiose ChEBI	-	growth
[Ref.: #25150]	cysteine ChEBI	-	electron donor
[Ref.: #25150]	D-fructose ChEBI	-	growth
[Ref.: #25150]	D-galactose ChEBI	+	growth
[Ref.: #25150]	D-glucose ChEBI	+	growth
[Ref.: #25150]	D-mannitol ChEBI	+	growth
[Ref.: #25150]	D-mannose ChEBI	-	growth
[Ref.: #25150]	D-sorbitol ChEBI	-	growth
[Ref.: #25150]	formate ChEBI	+	growth
[Ref.: #25150]	fumarate ChEBI	+	growth
[Ref.: #25150]	gelatin ChEBI	-	hydrolysis
[Ref.: #25150]	glycerol ChEBI	+	electron donor
[Ref.: #25150]	lactate ChEBI	+	growth
[Ref.: #25150]	lactose ChEBI	+	growth
[Ref.: #25150]	malate ChEBI	+	growth
[Ref.: #25150]	pyruvate ChEBI	+	growth
[Ref.: #25150]	serine ChEBI	+	electron donor
[Ref.: #25150]	starch ChEBI	+	growth
[Ref.: #25150]	succinate ChEBI	+	growth
[Ref.: #25150]	sulfite ChEBI	+	electron acceptor
[Ref.: #25150]	tryptophan ChEBI	-	energy source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #25150]		indole ChEBI	no

	Physiological tests	Metabolite	Indole test
[Ref.: #25150]		indole ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #25150]	catalase	+	1.11.1.6
[Ref.: #25150]	cytochrome oxidase	-	1.9.3.1
[Ref.: #25150]	tryptophan deaminase	-	4.1.99.1

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #7246]	Sample type/isolated from	shoal mud
[Ref.: #7246]	Country	Germany
[Ref.: #7246]	Country ISO 3 Code	DEU
[Ref.: #7246]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Mud (Sludge)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ655909 (>99% sequence identity) for Halodesulfovibrio from Microbeatlas

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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #7246]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #7246]	Desulfovibrio desulfuricans subsp. aestuarii 16S ribosomal RNA gene, partial sequence	FJ655909	1501	GenBank ENA	126333 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halodesulfovibrio aestuarii DSM 17919 = ATCC 29578	GCA_000384815	contig	GenBank ENA	1121444 tax ID	*
[Ref.: #66792]	Halodesulfovibrio aestuarii DSM 17919	GCA_900142115	scaffold	GenBank ENA	126333 tax ID	*
[Ref.: #66792]	Desulfovibrio desulfuricans strain DSM 17919	876.10	wgs	PATRIC	876 tax ID	*
[Ref.: #66792]	Desulfovibrio desulfuricans subsp. aestuarii DSM 17919 = ATCC 29578	1121444.3	wgs	PATRIC	1121444 tax ID	*
[Ref.: #66792]	Desulfovibrio desulfuricans aestuarii DSM 17919	2585428154	draft	JGI IMG/M	876 tax ID	*
[Ref.: #66792]	Halodesulfovibrio aestuarii aestuarii ATCC 29578	2518645586	draft	JGI IMG/M	1121444 tax ID	*

[Ref.: #25150]	GC-content	45.1 mol%	genome sequence analysis
[Ref.: #7246]	GC-content	45.1 mol%	sequence analysis
[Ref.: #7246]	GC-content	46.7 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Desulfovibrio desulfuricans subsp. aestuarii DSM 17919 = ATCC 29578 PATRIC: 1121444.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halodesulfovibrio aestuarii DSM 17919 NCBI: GCA_900142115.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.983	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	83.231	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	90.168	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.216	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.164	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	73.416	no

Availability in culture collections External links

[Ref.: #7246]

Culture collection no.

DSM 17919, ATCC 29578, NCIMB 9335, Sylt 3

[Ref.: #73662]

SI-ID 39595

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halodesulfovibrio spirochaetisodalis gen. nov. sp. nov. and reclassification of four Desulfovibrio spp.	Shivani Y, Subhash Y, Sasikala C, Ramana CV	Int J Syst Evol Microbiol	10.1099/ijsem.0.001574	2017	*

References

#7246

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17919

#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 )

#25150

Y. S. Shivani, Y.,Sasikala, C.,Ramana, C. V.: Halodesulfovibrio spirochaetisodalis gen. nov. sp. nov. and reclassification of four Desulfovibrio spp. IJSEM 67: 87 - 93 2017 ( DOI 10.1099/ijsem.0.001574 , PubMed 27902290 )

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#73662

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID39595.1 )

* These data were automatically processed and therefore are not curated

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Desulfovibrio desulfuricans subsp. aestuarii DSM 17919 = ATCC 29578

Halodesulfovibrio aestuarii DSM 17919

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