Strain identifier

BacDive ID: 1581

Type strain: Yes

Species: Pseudobacteroides cellulosolvens

Strain Designation: WM 2

Strain history: <- W.D. Murray, WM 2

NCBI tax ID(s): 35825 (species)

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General

@ref: 1253

BacDive-ID: 1581

DSM-Number: 2933

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic

description: Pseudobacteroides cellulosolvens WM 2 is an anaerobe, mesophilic bacterium that was isolated from municipal sewage sludge.

NCBI tax id

  • NCBI tax id: 35825
  • Matching level: species

strain history

  • @ref: 1253
  • history: <- W.D. Murray, WM 2

doi: 10.13145/bacdive1581.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Pseudobacteroides
  • species: Pseudobacteroides cellulosolvens
  • full scientific name: Pseudobacteroides cellulosolvens (Murray et al. 1984) Horino et al. 2014

  • synonyms

    • @ref: 20215
    • synonym: Bacteroides cellulosolvens

@ref: 1253

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Bacteroidales

family: Oscillospiraceae

genus: Pseudobacteroides

species: Pseudobacteroides cellulosolvens

full scientific name: Pseudobacteroides cellulosolvens (Murray et al. 1984) Horino et al. 2014

strain designation: WM 2

type strain: yes

Morphology

colony morphology

  • @ref: 1253
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

  • @ref: 1253
  • name: BACTEROIDES CELLULOSOLVENS MEDIUM (DSMZ Medium 315)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/315
  • composition: Name: BACTEROIDES CELLULOSOLVENS MEDIUM (DSMZ Medium 315) Composition: Cellulose 5.0 g/l Cellobiose 5.0 g/l NaHCO3 2.0 g/l NH4Cl 0.68 g/l K2HPO4 0.3 g/l Na2S x 9 H2O 0.25 g/l L-Cysteine HCl x H2O 0.25 g/l KH2PO4 0.18 g/l (NH4)2SO4 0.15 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l CoSO4 x 7 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.0018 g/l Resazurin 0.001 g/l CaCl2 x 2 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l NiCl2 x 6 H2O 0.00025 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l Pyridoxine hydrochloride 0.0001 g/l p-Aminobenzoic acid 5e-05 g/l D-Calcium pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Riboflavin 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Lipoic acid 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Distilled water

culture temp

  • @ref: 1253
  • growth: positive
  • type: growth
  • temperature: 35

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1253anaerobe
125438anaerobe91.736

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838027897tryptophan-energy source
6838029985L-glutamate-degradation
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838017632nitrate-reduction
6838016634raffinose-fermentation
6838016024D-mannose-fermentation

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamate decarboxylase-4.1.1.15
68380beta-glucosidase+3.2.1.21
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-glucosidase-3.2.1.20
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
1253------++---------------------
1253------++/----------------------

Isolation, sampling and environmental information

isolation

  • @ref: 1253
  • sample type: municipal sewage sludge
  • country: Canada
  • origin.country: CAN
  • continent: North America

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Sewage sludge

Safety information

risk assessment

  • @ref: 1253
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
1253Bacteroides cellulosolvens (ATCC 35603) 16S ribosomal RNA (16S rRNA)L355171464nuccore35825
1253Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933 16S ribosomal RNA, partial sequenceNR_0259181464nuccore398512

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933GCA_001262605contigncbi398512
66792Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933GCA_000745845scaffoldncbi398512
66792Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933398512.8wgspatric398512
66792Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933398512.9wgspatric398512
66792Pseudobacteroides cellulosolvens DSM 29332695420353draftimg398512
66792Pseudobacteroides cellulosolvens DSM 29332571042001draftimg398512

GC content

  • @ref: 1253
  • GC-content: 43.0

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes59.253no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes91.736yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no97.61no
125438spore-formingspore-formingAbility to form endo- or exosporesyes83.768no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno78.523no
125438motile2+flagellatedAbility to perform flagellated movementyes75.429no
125439BacteriaNetspore_formationAbility to form endo- or exosporesyes81
125439BacteriaNetmotilityAbility to perform movementyes75.4
125439BacteriaNetgram_stainReaction to gram-stainingvariable83.1
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthanaerobe85.3

External links

@ref: 1253

culture collection no.: DSM 2933, ATCC 35603, NRCC 2944

straininfo link

  • @ref: 71226
  • straininfo: 41189

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24425743Description of Anaerobacterium chartisolvens gen. nov., sp. nov., an obligately anaerobic bacterium from Clostridium rRNA cluster III isolated from soil of a Japanese rice field, and reclassification of Bacteroides cellulosolvens Murray et al. 1984 as Pseudobacteroides cellulosolvens gen. nov., comb. nov.Horino H, Fujita T, Tonouchi AInt J Syst Evol Microbiol10.1099/ijs.0.059378-02014Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Bacteroides/classification, Base Composition, Cellulose/metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gram-Positive Asporogenous Rods/*classification/genetics/isolation & purification, Japan, Molecular Sequence Data, Oryza/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyEnzymology
Genetics26404597Near-Complete Genome Sequence of the Cellulolytic Bacterium Bacteroides (Pseudobacteroides) cellulosolvens ATCC 35603.Dassa B, Utturkar S, Hurt RA, Klingeman DM, Keller M, Xu J, Reddy YH, Borovok I, Rozman Grinberg I, Lamed R, Zhivin O, Bayer EA, Brown SDGenome Announc10.1128/genomeA.01022-152015

Reference

@idauthorscataloguedoi/urltitle
1253Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2933)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2933
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68380Automatically annotated from API rID32A
71226Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID41189.1StrainInfo: A central database for resolving microbial strain identifiers
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1