Archive BacDiveID:10.13145/bacdive3981.20230509.8.1

Strain identifier

BacDive ID: 3981

Type strain:

Species: Desulfococcus multivorans

Strain Designation: Göttingen (1be1)

Strain history: <- F. Widdel, strain "Göttingen" (1be1)

NCBI tax ID(s): 1121405 (strain), 897 (species)

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

General

@ref: 695

BacDive-ID: 3981

DSM-Number: 2059

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

description: Desulfococcus multivorans Göttingen is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from sewage digester.

NCBI tax id

NCBI tax id	Matching level
1121405	strain
897	species

strain history

@ref: 695
history: <- F. Widdel, strain "Göttingen" (1be1)

doi: 10.13145/bacdive3981.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobacteraceae
genus: Desulfococcus
species: Desulfococcus multivorans
full scientific name: Desulfococcus multivorans Widdel 1981

@ref: 695

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfobacterales

family: Desulfobacteraceae

genus: Desulfococcus

species: Desulfococcus multivorans

full scientific name: Desulfococcus multivorans Widdel 1981

strain designation: Göttingen (1be1)

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: negative
confidence: 100

Culture and growth conditions

culture medium

@ref: 695
name: DESULFOBACTER MEDIUM (DSMZ Medium 193)
growth: yes
link: https://mediadive.dsmz.de/medium/193
composition: Name: DESULFOBACTER MEDIUM (DSMZ Medium 193; with strain-specific modifications) Composition: NaCl 6.97906 g/l Na2SO4 2.99102 g/l Na2CO3 1.49551 g/l MgCl2 x 6 H2O 1.29611 g/l Na-benzoate 0.598205 g/l KCl 0.498505 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299102 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149552 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498505 g/l NaOH 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 (DL)-alpha-Lipoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 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: 695
growth: positive
type: growth
temperature: 35
range: mesophilic

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
695	anaerobe
69480	anaerobe	92.384

spore formation

@ref	spore formation	confidence
69481	no	100
69480	no	99.967

Isolation, sampling and environmental information

isolation

@ref: 695
sample type: sewage digester
geographic location: Göttingen
country: Germany
origin.country: DEU
continent: Europe

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Biodegradation
#Engineered	#Waste	#Sewage sludge
#Engineered	#Waste	#Wastewater

taxonmaps

@ref: 69479
File name: preview.99_2639.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_339;96_1406;97_1678;98_2044;99_2639&stattab=map
Last taxonomy: Desulfococcus multivorans subclade
16S sequence: AF418173
Sequence Identity:
Total samples: 2756
soil counts: 283
aquatic counts: 2171
animal counts: 247
plant counts: 55

Safety information

risk assessment

@ref: 695
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	D.multivorans 16S ribosomal rRNA	M34405	1375	ena	897
695	Desulfococcus multivorans DSM 2059 16S ribosomal RNA gene, partial sequence	AF418173	1529	ena	897

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Desulfococcus multivorans DSM 2059	GCA_002009335	complete	ncbi	897
66792	Desulfococcus multivorans DSM 2059	GCA_001854245	complete	ncbi	897
66792	Desulfococcus multivorans DSM 2059	GCA_900167235	scaffold	ncbi	1121405
66792	Desulfococcus multivorans DSM 2059	GCA_000422185	contig	ncbi	1121405
66792	Desulfococcus multivorans DSM 2059	1121405.3	wgs	patric	1121405
66792	Desulfococcus multivorans DSM 2059 strain DSM 2059	1121405.12	wgs	patric	1121405
66792	Desulfococcus multivorans strain DSM 2059	897.5	complete	patric	897
66792	Desulfococcus multivorans strain DSM 2059	897.4	complete	patric	897
66792	Desulfococcus multivorans DSM 2059	2619619091	draft	img	1121405
66792	Desulfococcus multivorans DSM 2059	2568526001	draft	img	1121405

GC content

@ref: 695
GC-content: 57.4

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	100	no
flagellated	no	95.997	no
flagellated	no	95.997	no
gram-positive	no	99.094	no
gram-positive	no	99.094	no
anaerobic	yes	98.355	no
anaerobic	yes	98.355	no
halophile	no	63.838	no
halophile	no	63.838	no
spore-forming	no	93.598	no
spore-forming	no	93.598	no
glucose-util	yes	51.603	no
glucose-util	yes	51.603	no
aerobic	no	96.035	no
aerobic	no	96.035	no
thermophile	no	90.066	no
thermophile	no	90.066	no
motile	no	83.201	no
motile	no	83.201	no
glucose-ferment	no	85.254	no
glucose-ferment	no	85.254	no

External links

@ref: 695

culture collection no.: DSM 2059, ATCC 33890

straininfo link

@ref: 73487
straininfo: 40747

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Metabolism	16085855	Cadmium accumulation and DNA homology with metal resistance genes in sulfate-reducing bacteria.	Naz N, Young HK, Ahmed N, Gadd GM	Appl Environ Microbiol	10.1128/AEM.71.8.4610-4618.2005	2005	Amino Acid Sequence, Bacterial Proteins/genetics/metabolism, Cadmium/metabolism/pharmacology, DNA-Binding Proteins/genetics, Deltaproteobacteria/drug effects/genetics/metabolism, Desulfovibrio/drug effects/growth & development/metabolism, Drug Resistance, Bacterial/genetics, Metallothionein/genetics, Metals, Heavy/metabolism/pharmacology, Molecular Sequence Data, Oxidation-Reduction, Repressor Proteins/genetics, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Sulfur-Reducing Bacteria/*drug effects/genetics/metabolism	Pathogenicity
Metabolism	19534128	Stable isotope fractionation of gamma-hexachlorocyclohexane (lindane) during reductive dechlorination by two strains of sulfate-reducing bacteria.	Badea SL, Vogt C, Weber S, Danet AF, Richnow HH	Environ Sci Technol	10.1021/es801284m	2009	Anaerobiosis, Biodegradation, Environmental, Carbon Isotopes, Chemical Fractionation, Desulfovibrio gigas/metabolism, Halogenation, Hexachlorocyclohexane/chemistry/isolation & purification, Oxidation-Reduction, Sulfur-Reducing Bacteria/*metabolism	Enzymology
Genetics	23950126	Draft genome sequences for three mercury-methylating, sulfate-reducing bacteria.	Brown SD, Hurt RA Jr, Gilmour CC, Elias DA	Genome Announc	10.1128/genomeA.00618-13	2013
Proteome	27846794	Genome and catabolic subproteomes of the marine, nutritionally versatile, sulfate-reducing bacterium Desulfococcus multivorans DSM 2059.	Dorries M, Wohlbrand L, Kube M, Reinhardt R, Rabus R	BMC Genomics	10.1186/s12864-016-3236-7	2016	Anaerobiosis, Biomarkers, Chromosomes, Bacterial, Deltaproteobacteria/genetics/metabolism, Gene Order, Genome, Bacterial, Genomics/methods, Metabolic Networks and Pathways, Metabolome, Metabolomics/methods, Open Reading Frames, Oxidation-Reduction, Oxidative Stress, Proteome, Proteomics/methods, Sulfates/*metabolism	Genetics

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
695	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2059)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-2059
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
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
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)
66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg		10.1093/nar/gkaa1025	BRENDA, the ELIXIR core data resource in 2021: new developments and updates	Nucleic Acids Res. 49: D498-D508 2020	33211880
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
73487	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID40747.1	StrainInfo: A central database for resolving microbial strain identifiers