Name: Halodesulfovibrio aestuarii DSM 17919
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/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

Other strains from Halodesulfovibrio aestuarii

H. aestuarii W218, DSM 10141
H. aestuarii JBL, DSM 14367

Section

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

vibrio-shaped
anaerobe
mesophilic
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 %99.992

[Ref.: #25150]	Cell length	1.5-4.0 µm

[Ref.: #25150]	Cell width	0.5-0.8 µm

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

[Ref.: #69480]	Motility	yes Confidence in %95.393

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

[Ref.: #7246]	Temperature range	mesophilic
[Ref.: #25150]	Temperature range	mesophilic

	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]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.977

	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	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	1121444 tax ID	*
[Ref.: #66792]	Halodesulfovibrio aestuarii DSM 17919	GCA_900142115	scaffold	GenBank	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	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	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halodesulfovibrio aestuarii DSM 17919 NCBI: GCA_900142115.1
[Ref.: #69480]	motile	yes	90.941	no
[Ref.: #69480]	flagellated	no	50	no
[Ref.: #69480]	gram-positive	no	99.333	no
[Ref.: #69480]	anaerobic	yes	99.259	yes
[Ref.: #69480]	aerobic	no	98.714	yes
[Ref.: #69480]	halophile	no	53.139	no
[Ref.: #69480]	spore-forming	no	95.212	no
[Ref.: #69480]	thermophile	no	98.18	yes
[Ref.: #69480]	glucose-util	no	59.16	no
[Ref.: #69480]	glucose-ferment	no	75.238	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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