Strain identifier

BacDive ID: 1623

Type strain: Yes

Species: Bacteroides cellulosilyticus

Strain Designation: CRE21

Strain history: CCUG 44979 <-- M. D. Collins <-- A. Bernalier-Donadille CRE21.

NCBI tax ID(s): 537012 (strain), 246787 (species)

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General

@ref: 5571

BacDive-ID: 1623

DSM-Number: 14838

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

description: Bacteroides cellulosilyticus CRE21 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human faeces.

NCBI tax id

NCBI tax idMatching level
537012strain
246787species

strain history

@refhistory
5571<- A. Bernalier-Donadille <- C. Robert; CRE21
67770CCUG 44979 <-- M. D. Collins <-- A. Bernalier-Donadille CRE21.

doi: 10.13145/bacdive1623.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Bacteroidaceae
  • genus: Bacteroides
  • species: Bacteroides cellulosilyticus
  • full scientific name: Bacteroides cellulosilyticus Robert et al. 2007

@ref: 5571

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Bacteroidaceae

genus: Bacteroides

species: Bacteroides cellulosilyticus

full scientific name: Bacteroides cellulosilyticus Robert et al. 2007 emend. Hahnke et al. 2016

strain designation: CRE21

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
32120negative1.7 µm0.9 µmrod-shapedno
28365negative1.7 µm0.9 µmrod-shapedno

colony morphology

@reftype of hemolysishemolysis abilityincubation periodcolony sizecolony colorcolony shapemedium used
5571beta11-2 days
283652-5 mmwhite to slightly browncircularglucose-BC agar

pigmentation

  • @ref: 32120
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5571COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
5571CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
28365glucose-BC agaryes

culture temp

@refgrowthtypetemperaturerange
5571positivegrowth37mesophilic
32120positivegrowth30-39mesophilic
32120positiveoptimum37mesophilic
28365positiveoptimum37mesophilic
28365positivegrowth30-39mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepH
32120positivegrowth6.5-7.2
32120positiveoptimum6.8
28365positivegrowth6.5-7.2
28365positiveoptimum6.8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
5571anaerobe
32120anaerobe
28365obligate anaerobe

spore formation

@refspore formation
32120no
28365no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3212022599arabinose+carbon source
3212017057cellobiose+carbon source
3212028757fructose+carbon source
3212028260galactose+carbon source
3212024175galacturonate+carbon source
3212017234glucose+carbon source
3212017716lactose+carbon source
3212017306maltose+carbon source
3212037684mannose+carbon source
3212028053melibiose+carbon source
3212016634raffinose+carbon source
3212033942ribose+carbon source
3212017814salicin+carbon source
3212017992sucrose+carbon source
3212018222xylose+carbon source
321204853esculin+hydrolysis
2836517057cellobiose+/-growth
2836562968cellulose+degradation
2836562968cellulose+fermentation
283654853esculin+/-growth
2836528757fructose+fermentation
2836533984fucose-growth
2836528260galactose+fermentation
2836524175galacturonate+fermentation
2836517234glucose+fermentation
2836517268myo-inositol-growth
2836517716lactose+/-growth
283656359lactulose+fermentation
2836517306maltose+fermentation
2836529864mannitol-growth
2836537684mannose+fermentation
2836528053melibiose+fermentation
2836517309pectin+fermentation
2836516634raffinose+/-growth
2836533942ribose+fermentation
2836517814salicin+/-growth
2836530911sorbitol-growth
2836528017starch+fermentation
2836517992sucrose+fermentation
2836527082trehalose-growth
2836537166xylan+/-growth
2836518222xylose+fermentation
6836727082trehalose-builds acid from
6836762345L-rhamnose+builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose+builds acid from
683676731melezitose-builds acid from
6836716024D-mannose+builds acid from
6836717057cellobiose+builds acid from
6836717754glycerol-builds acid from
683674853esculin+hydrolysis
683675291gelatin-hydrolysis
6836730849L-arabinose+builds acid from
6836765327D-xylose+builds acid from
6836717306maltose+builds acid from
6836717992sucrose+builds acid from
6836717716lactose+builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose+builds acid from
6836716199urea-hydrolysis
6836727897tryptophan+energy source
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
6838016634raffinose+fermentation
6838029985L-glutamate+degradation
6838017632nitrate-reduction
6838027897tryptophan+energy source

metabolite production

@refChebi-IDmetaboliteproduction
2836530089acetateyes
2836517272propionateyes
2836530031succinateyes
6836735581indoleyes
6838035581indoleyes

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole+
6836735581indole+

enzymes

@refvalueactivityec
32120acid phosphatase+3.1.3.2
32120alkaline phosphatase+3.1.3.1
28365cytochrome oxidase-1.9.3.1
28365catalase-1.11.1.6
28365N-acetyl-beta-glucosaminidase+3.2.1.52
28365alkaline phosphatase+3.1.3.1
28365phenylalanine arylamidase+
28365alpha-arabinosidase+3.2.1.55
28365alpha-galactosidase+3.2.1.22
28365beta-galactosidase+3.2.1.23
28365alpha-glucosidase+3.2.1.20
28365beta-glucosidase+3.2.1.21
28365glutamate decarboxylase+4.1.1.15
28365glutamyl-glutamate arylamidase+
28365leucyl glycin arylamidase+3.4.11.1
28365alpha-fucosidase+/-3.2.1.51
28365phenylalanine arylamidase+/-
28365tyrosine arylamidase+/-
28365acid phosphatase+3.1.3.2
28365naphthol-AS-BI-phosphohydrolase+
28365esterase Lipase (C 8)+
68380serine arylamidase-
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
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380tryptophan deaminase+4.1.99.1
68380alpha-fucosidase+3.2.1.51
68380glutamate decarboxylase+4.1.1.15
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase+3.2.1.55
68380beta-glucosidase+3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68367beta-glucosidase+3.2.1.21
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRE
5571+-+-++++/-++-+-++-+-+-

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
5571--++-+++-+++++-++--++--++--+-
5571--++-+++-+++++-++--+---++--+-
5571--++-+++--++++-+---++--++--+-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
5571human faecesFranceFRAEurope
28365faeces of a healthy, non-methane-excreting individual
56574Human feces,50-yr-old male,healthy volunteerFranceFRAEuropeClermont Ferrand/Theix,INRA
67770Human feces

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_2361.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_1274;97_1512;98_1840;99_2361&stattab=map
  • Last taxonomy: Bacteroides cellulosilyticus subclade
  • 16S sequence: AJ583243
  • Sequence Identity:
  • Total samples: 49428
  • soil counts: 111
  • aquatic counts: 665
  • animal counts: 48605
  • plant counts: 47

Safety information

risk assessment

  • @ref: 5571
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
5571Bacteroides cellulosilyticus DSM 14838 partial 16S rRNA gene, type strain CRE21TAJ5832431426ena537012
67770Bacteroides cellulosilyticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 15632AB5106981473ena246787

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacteroides cellulosilyticus DSM 14838537012.5wgspatric537012
66792Bacteroides cellulosilyticus DSM 14838643886111draftimg537012
67770Bacteroides cellulosilyticus DSM 14838GCA_000158035scaffoldncbi537012
66792Bacteroides cellulosilyticus DSM 14838GCA_028539415contigncbi537012

GC content

@refGC-contentmethod
557141.1
557142.7sequence analysis
6777041.1high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno97.136no
anaerobicyes96.622yes
halophileno92.851no
spore-formingno91.389no
glucose-utilyes90.258no
thermophileno99.247yes
aerobicno96.036yes
motileno90.691yes
glucose-fermentyes74.413yes
flagellatedno96.918no

External links

@ref: 5571

culture collection no.: DSM 14838, CCUG 44979, JCM 15632

straininfo link

  • @ref: 71269
  • straininfo: 402776

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17625186Bacteroides cellulosilyticus sp. nov., a cellulolytic bacterium from the human gut microbial community.Robert C, Chassard C, Lawson PA, Bernalier-Donadille AInt J Syst Evol Microbiol10.1099/ijs.0.64998-02007Acetic Acid/metabolism, Anaerobiosis, Bacterial Typing Techniques, Bacteroides/chemistry/*classification/genetics/*isolation & purification, Base Composition, Carbohydrate Metabolism, Cellulose/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Feces/microbiology, Gastrointestinal Tract/*microbiology, Genes, rRNA, Humans, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Propionates/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Succinic Acid/metabolismMetabolism
Pathogenicity27693306Diverse Intestinal Bacteria Contain Putative Zwitterionic Capsular Polysaccharides with Anti-inflammatory Properties.Neff CP, Rhodes ME, Arnolds KL, Collins CB, Donnelly J, Nusbacher N, Jedlicka P, Schneider JM, McCarter MD, Shaffer M, Mazmanian SK, Palmer BE, Lozupone CACell Host Microbe10.1016/j.chom.2016.09.0022016Animals, Anti-Inflammatory Agents/*metabolism, Bacteria/*chemistry, Colitis/pathology, Disease Models, Animal, Humans, *Immune Tolerance, Interleukin-10/*metabolism, Leukocytes, Mononuclear/drug effects/metabolism, Mice, Polysaccharides, Bacterial/*metabolism, T-Lymphocytes, Regulatory/*immunologyMetabolism

Reference

@idauthorscataloguedoi/urltitlepubmedID_cross_referencejournal
5571Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14838)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14838
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
2836510.1099/ijs.0.64998-017625186
32120Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128365
56574Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 44979)https://www.ccug.se/strain?id=44979
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68367Automatically annotated from API 20A
68380Automatically annotated from API rID32A
69479João 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
71269Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402776.1StrainInfo: A central database for resolving microbial strain identifiers