Archive BacDiveID:10.13145/bacdive3979.20230509.8.1

Strain identifier

BacDive ID: 3979

Type strain:

Species: Desulfobacula toluolica

Strain history: <- F. Widdel; Tol2 <- F. Widdel {1991}

NCBI tax ID(s): 651182 (strain), 28223 (species)

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

General

@ref: 3172

BacDive-ID: 3979

DSM-Number: 7467

keywords: 16S sequence, Bacteria, anaerobe, mesophilic

description: Desulfobacula toluolica DSM 7467 is an anaerobe, mesophilic bacterium that was isolated from marine mud.

NCBI tax id

NCBI tax id	Matching level
28223	species
651182	strain

strain history

@ref: 3172
history: <- F. Widdel; Tol2 <- F. Widdel {1991}

doi: 10.13145/bacdive3979.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobacteraceae
genus: Desulfobacula
species: Desulfobacula toluolica
full scientific name: Desulfobacula toluolica Rabus et al. 2000

@ref: 3172

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfobacterales

family: Desulfobacteraceae

genus: Desulfobacula

species: Desulfobacula toluolica

full scientific name: Desulfobacula toluolica Rabus et al. 2000

type strain: yes

Culture and growth conditions

culture medium

@ref: 3172
name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383)
growth: yes
link: https://mediadive.dsmz.de/medium/383
composition: Name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383; with strain-specific modifications) Composition: NaCl 20.9372 g/l MgCl2 x 6 H2O 2.99103 g/l Na2SO4 2.99103 g/l Na2CO3 0.997009 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l Na-benzoate 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l Yeast extract 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 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 Riboflavin 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Nicotinic acid 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 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: 3172
growth: positive
type: growth
temperature: 28
range: mesophilic

Physiology and metabolism

oxygen tolerance

@ref: 3172
oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

@ref: 3172
sample type: marine mud
geographic location: Massachusetts, Woods Hole
country: USA
origin.country: USA
continent: North America

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Terrestrial	#Mud (Sludge)
#Environmental	#Aquatic	#Sediment

taxonmaps

@ref: 69479
File name: preview.99_104.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_40;96_82;97_86;98_95;99_104&stattab=map
Last taxonomy: Desulfobacula toluolica
16S sequence: AJ441316
Sequence Identity:
Total samples: 509
soil counts: 15
aquatic counts: 489
animal counts: 1
plant counts: 4

Safety information

risk assessment

@ref: 3172
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 3172
description: Desulfobacula toluolica 16S rRNA gene, strain DSM 7467
accession: AJ441316
length: 1518
database: ena
NCBI tax ID: 651182

GC content

@ref: 3172
GC-content: 42.0

External links

@ref: 3172

culture collection no.: DSM 7467, Tol 2

straininfo link

@ref: 73485
straininfo: 48446

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Metabolism	7686000	Complete oxidation of toluene under strictly anoxic conditions by a new sulfate-reducing bacterium.	Rabus R, Nordhaus R, Ludwig W, Widdel F	Appl Environ Microbiol	10.1128/aem.59.5.1444-1451.1993	1993	Anaerobiosis, Bacteria/genetics/isolation & purification/metabolism, Base Sequence, Biodegradation, Environmental, Molecular Sequence Data, Oxidation-Reduction, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sulfates/metabolism, Toluene/metabolism, Water Microbiology	Phylogeny
Metabolism	8588748	Conversion studies with substrate analogues of toluene in a sulfate-reducing bacterium, strain Tol2.	Rabus R, Widdel F	Arch Microbiol	10.1007/BF02529744	1995	Bacteria, Anaerobic/metabolism, Benzyl Alcohol, Benzyl Alcohols/metabolism, Biodegradation, Environmental, Oxidation-Reduction, Sulfates/metabolism, Toluene/*metabolism
Metabolism	9688816	Anaerobic degradation and transformation of p-toluidine by the sulfate-reducing bacterium Desulfobacula toluolica.	Raber T, Gorontzy T, Kleinschmidt M, Steinbach K, Blotevogel KH	Curr Microbiol	10.1007/s002849900359	1998	Bacteria, Anaerobic/growth & development/metabolism, Biphenyl Compounds/metabolism, Chromatography, High Pressure Liquid, Phenylacetates/metabolism, Time Factors, Tolonium Chloride/metabolism
Metabolism	16003722	Population profiles of a stable, commensalistic bacterial culture grown with toluene under sulphate-reducing conditions.	Vogt C, Losche A, Kleinsteuber S, Muller S	Cytometry A	10.1002/cyto.a.20158	2005	Actinomycetales/genetics/growth & development/metabolism, Bacterial Typing Techniques, Cell Separation, Culture Media, DNA, Bacterial/analysis, Flow Cytometry, Fluorescent Dyes, Indoles, Microscopy, Phase-Contrast, RNA, Ribosomal, 16S/analysis/genetics, Species Specificity, Staining and Labeling, Sulfates/metabolism, Sulfur-Reducing Bacteria/genetics/growth & development/metabolism, Symbiosis, Time Factors, Toluene/metabolism	Phylogeny
Phylogeny	22659505	Desulfoconvexum algidum gen. nov., sp. nov., a psychrophilic sulfate-reducing bacterium isolated from a permanently cold marine sediment.	Konneke M, Kuever J, Galushko A, Jorgensen BB	Int J Syst Evol Microbiol	10.1099/ijs.0.043703-0	2012	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Deltaproteobacteria/classification/genetics/isolation & purification, Fatty Acids/analysis, Geologic Sediments/microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification, Svalbard	Enzymology
Proteome	23088741	Complete genome, catabolic sub-proteomes and key-metabolites of Desulfobacula toluolica Tol2, a marine, aromatic compound-degrading, sulfate-reducing bacterium.	Wohlbrand L, Jacob JH, Kube M, Mussmann M, Jarling R, Beck A, Amann R, Wilkes H, Reinhardt R, Rabus R	Environ Microbiol	10.1111/j.1462-2920.2012.02885.x	2012	Deltaproteobacteria/classification/genetics/metabolism/virology, Energy Metabolism/genetics, Gene Expression Regulation, Bacterial, Genes, Bacterial/genetics, Genome, Bacterial, Metabolic Networks and Pathways/genetics, Metabolism/genetics, Phylogeny, Proteome, Signal Transduction, Stress, Physiological/genetics	Phylogeny
Genetics	25175800	Draft genome sequence of an aromatic compound-degrading bacterium, Desulfobacula sp. TS, belonging to the Deltaproteobacteria.	Kim SJ, Park SJ, Jung MY, Kim JG, Min UG, Hong HJ, Rhee SK	FEMS Microbiol Lett	10.1111/1574-6968.12591	2014	DNA, Bacterial/genetics, Deltaproteobacteria/genetics/metabolism, Genome, Bacterial/genetics, Hydrocarbons, Aromatic/metabolism, Metabolic Networks and Pathways/genetics	Metabolism
Metabolism	25233489	Fifteen years of physiological proteo(geno)mics with (marine) environmental bacteria.	Rabus R	Arch Physiol Biochem	10.3109/13813455.2014.951658	2014	Aerobiosis, Aquatic Organisms/metabolism, Bacteria/metabolism, Environment, Hydrocarbons/metabolism, Proteomics/methods
Metabolism	26316547	Genetic evidence that the degradation of para-cresol by Geobacter metallireducens is catalyzed by the periplasmic para-cresol methylhydroxylase.	Chaurasia AK, Tremblay PL, Holmes DE, Zhang T	FEMS Microbiol Lett	10.1093/femsle/fnv145	2015	Bacterial Proteins/chemistry/genetics/metabolism, Biocatalysis, Biodegradation, Environmental, Cresols/metabolism, Geobacter/enzymology/genetics/metabolism, Metabolic Networks and Pathways, Mixed Function Oxygenases/chemistry/genetics/metabolism, Periplasm/*enzymology/genetics/metabolism	Enzymology
Enzymology	26792001	Analysis of membrane-protein complexes of the marine sulfate reducer Desulfobacula toluolica Tol2 by 1D blue native-PAGE complexome profiling and 2D blue native-/SDS-PAGE.	Wohlbrand L, Ruppersberg HS, Feenders C, Blasius B, Braun HP, Rabus R	Proteomics	10.1002/pmic.201500360	2016	Bacterial Proteins/analysis/chemistry, Deltaproteobacteria/chemistry, Electrophoresis, Gel, Two-Dimensional, Electrophoresis, Polyacrylamide Gel, Membrane Proteins/analysis/chemistry, Native Polyacrylamide Gel Electrophoresis/methods
Enzymology	36331165	A Novel Coenzyme A Analogue in the Anaerobic, Sulfate-Reducing, Marine Bacterium Desulfobacula toluolica Tol2(T).	Bruns S, Cakic N, Mitschke N, Kopke BJ, Rabus R, Wilkes H	Chembiochem	10.1002/cbic.202200584	2022

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
3172	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7467)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-7467
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
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
73485	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID48446.1	StrainInfo: A central database for resolving microbial strain identifiers