Archive BacDiveID:10.13145/bacdive4069.20230509.8.1

Strain identifier

BacDive ID: 4069

Type strain:

Species: Desulfocurvus vexinensis

Strain Designation: VNs36

Strain history: M.-L. Fardeau VNs36.

NCBI tax ID(s): 1121406 (strain), 399548 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 7297

BacDive-ID: 4069

DSM-Number: 17965

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Desulfocurvus vexinensis VNs36 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from well water from a deep aquifer.

NCBI tax id

NCBI tax id	Matching level
399548	species
1121406	strain

strain history

@ref	history
7297	<- M.-L. Fardeau, Lab. Microbiol. de l'IRD/ESIL, Univ. de Provence et de la Méditerranée, Marseille, France; VNs36 <- J.-F. Lascourrèges {2000}
67770	M.-L. Fardeau VNs36.

doi: 10.13145/bacdive4069.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfovibrionaceae
genus: Desulfocurvus
species: Desulfocurvus vexinensis
full scientific name: Desulfocurvus vexinensis Klouche et al. 2009

@ref: 7297

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfovibrionaceae

genus: Desulfocurvus

species: Desulfocurvus vexinensis

full scientific name: Desulfocurvus vexinensis Klouche et al. 2009

strain designation: VNs36

type strain: yes

Morphology

cell morphology

@ref	gram stain	cell length	cell width	cell shape	motility	confidence
29292	negative	4 µm	0.5 µm	rod-shaped	yes
69480					yes	95.395
69480	negative					99.987

Culture and growth conditions

culture medium

@ref: 7297
name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)
growth: yes
link: https://mediadive.dsmz.de/medium/641
composition: Name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641) Composition: Na-DL-lactate 2.49252 g/l Na2SO4 1.99402 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2CO3 0.997009 g/l MgSO4 x 7 H2O 0.997009 g/l Na2S2O3 x 5 H2O 0.997009 g/l KH2PO4 0.498504 g/l Na2S x 9 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0997009 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 MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-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 Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 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	range
7297	positive	growth	37	mesophilic
29292	positive	growth	20-50
29292	positive	optimum	37	mesophilic
67770	positive	growth	37	mesophilic

culture pH

@ref	ability	type	pH	PH range
29292	positive	growth	05-09	alkaliphile
29292	positive	optimum	6.9

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
7297	anaerobe
29292	anaerobe
69480	anaerobe	98.649

spore formation

@ref	spore formation	confidence
69481	no	98
69480	no	99.826

halophily

@ref: 29292
salt: NaCl
growth: positive
tested relation: growth
concentration: 0-2 %

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
29292	30089	acetate	+	carbon source
29292	15740	formate	+	carbon source
29292	24996	lactate	+	carbon source
29292	15361	pyruvate	+	carbon source

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
7297	well water from a deep aquifer	Paris Basin	France	FRA	Europe
67770	Deep artesian well in the Paris Basin		France	FRA	Europe

isolation source categories

Cat1: #Environmental
Cat2: #Aquatic

taxonmaps

@ref: 69479
File name: preview.99_155682.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5791;96_58776;97_76088;98_102637;99_155682&stattab=map
Last taxonomy: Desulfocurvus vexinensis
16S sequence: DQ841177
Sequence Identity:
Total samples: 501
soil counts: 73
aquatic counts: 394
animal counts: 28
plant counts: 6

Safety information

risk assessment

@ref: 7297
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 7297
description: Desulfocurvus vexinensis strain VNs36 16S ribosomal RNA gene, partial sequence
accession: DQ841177
length: 1532
database: ena
NCBI tax ID: 1121406

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Desulfocurvus vexinensis DSM 17965	1121406.3	wgs	patric	1121406
66792	Desulfocurvus vexinensis DSM 17965	2541046937	draft	img	1121406
67770	Desulfocurvus vexinensis DSM 17965	GCA_000519125	scaffold	ncbi	1121406

GC content

@ref	GC-content	method
7297	67.2	high performance liquid chromatography (HPLC)
29292	67.2

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	98	no
motile	yes	92.111	yes
flagellated	yes	55.444	no
gram-positive	no	99.084	yes
anaerobic	yes	99.467	no
aerobic	no	99.162	no
halophile	no	56.397	no
spore-forming	no	94.217	no
glucose-util	no	57.873	no
thermophile	no	92.892	yes
glucose-ferment	no	82.215	no

External links

@ref: 7297

culture collection no.: DSM 17965, JCM 14038, AS As36, AS 36

straininfo link

@ref: 73572
straininfo: 402238

literature

topic: Phylogeny
Pubmed-ID: 19643880
title: Desulfocurvus vexinensis gen. nov., sp. nov., a sulfate-reducing bacterium isolated from a deep subsurface aquifer.
authors: Klouche N, Basso O, Lascourreges JF, Cayol JL, Thomas P, Fauque G, Fardeau ML, Magot M
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijs.0.010363-0
year: 2009
mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Desulfovibrio/*classification/genetics/*isolation & purification/metabolism, France, Fresh Water/*microbiology, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism, Sulfates/*metabolism
topic2: Metabolism

Reference

@id	authors	catalogue	doi/url	title	ID_cross_reference	pubmed
7297	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17965)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-17965
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29292	Barberan A, Caceres Velazquez H, Jones S, Fierer N.		10.1128/mSphere.00237-17	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	25708	28776041
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	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		10.21203/rs.3.rs-2527258/v1	Predictions based on the model GenomeNet Sporulation v. 1
73572	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID402238.1	StrainInfo: A central database for resolving microbial strain identifiers