Strain identifier

BacDive ID: 1600

Type strain: No

Species: Bacteroides thetaiotaomicron

Strain history: CIP <- 1994, ATCC <- T.D. Wilkins: strain WAL 2926 <- V.L. Sutter

NCBI tax ID(s): 818 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 1004

BacDive-ID: 1600

DSM-Number: 2255

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

description: Bacteroides thetaiotaomicron DSM 2255 is an anaerobe, mesophilic bacterium that was isolated from perforated appendix.

NCBI tax id

  • NCBI tax id: 818
  • Matching level: species

strain history

@refhistory
1004<- ATCC; ATCC 29741 <- T. D. Wilkins; WAL 2926 <- V. L. Sutter;
123519CIP <- 1994, ATCC <- T.D. Wilkins: strain WAL 2926 <- V.L. Sutter

doi: 10.13145/bacdive1600.20230509.8.1

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 thetaiotaomicron
  • full scientific name: Bacteroides thetaiotaomicron (Distaso 1912) Castellani and Chalmers 1919 (Approved Lists 1980)
  • synonyms

    @refsynonym
    20215Bacteroides fragilis subsp. thetaiotaomicron
    20215Bacillus thetaiotaomicron

@ref: 1004

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Bacteroidaceae

genus: Bacteroides

species: Bacteroides thetaiotaomicron

full scientific name: Bacteroides thetaiotaomicron (Distaso 1912) Castellani and Chalmers 1919 emend. Hahnke et al. 2016

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.49
6948099.993negative
123519nonegativerod-shaped

colony morphology

@refincubation period
10041-2 days
123519

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1004COLUMBIA 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
1004FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)yeshttps://mediadive.dsmz.de/medium/1203aName: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water
1004CHOPPED 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
123519CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

  • @ref: 1004
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1004anaerobe
69480anaerobe98.65
123519anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.986

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836727082trehalose+builds acid from
6836762345L-rhamnose+builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose+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
6836717814salicin-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
1235194853esculin-hydrolysis
12351917632nitrate-reduction
12351916301nitrite-reduction
12351917632nitrate+respiration
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
6838016634raffinose+fermentation
6838029985L-glutamate+degradation
6838017632nitrate-reduction
6838027897tryptophan+energy source

metabolite production

@refChebi-IDmetaboliteproduction
12351935581indoleyes
6838035581indoleyes

metabolite tests

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

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
68380serine arylamidase-
68380alanine arylamidase+3.4.11.2
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
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase+4.1.99.1
68380alpha-fucosidase+3.2.1.51
68380glutamate decarboxylase+4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
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
68367catalase-1.11.1.6
68367beta-glucosidase+3.2.1.21
68367gelatinase-
68367urease-3.5.1.5
123519oxidase-
123519beta-galactosidase+3.2.1.23
123519gelatinase-
123519amylase-
123519caseinase-3.4.21.50
123519catalase-1.11.1.6
123519tween esterase+/-
123519urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123519-+-+------++-+-+-+--

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRECAT
1004--+-+++-++-+-++++-++-
1004+-+-+++-++-+-++-+-++

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
1004--++-+++-+++++-+++-+-+--+-+/-+-
1004--++-++++/-+++++-+++-+-+--+--+/--
1004--++-+++-+++++-+++-+-+-+/-++/-+/-+/--
1004--++-+++-+++++-+++/--+-+--+--+-

Isolation, sampling and environmental information

isolation

@refsample typeisolation date
1004perforated appendix
123519Human, Perforated appendix1973

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Gastrointestinal tract

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
10042Risk group (German classification)
1235192Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacteroides thetaiotaomicron 16S-23S ribosomal RNA intergenic spacer, partial sequenceAF385897532ena818
20218Bacteroides thetaiotaomicron strain ATCC 29741 clone 1 16S-23S ribosomal RNA intergenic spacer, partial sequenceGQ496397543ena818

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacteroides thetaiotaomicron ATCC 29741GCA_004349615scaffoldncbi818
66792Bacteroides thetaiotaomicron strain ATCC 29741818.972wgspatric818
66792Bacteroides thetaiotaomicron strain FDAARGOS_935818.1394completepatric818

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.35no
flagellatedno96.536no
gram-positiveno97.339no
anaerobicyes95.057yes
halophileno89.395no
spore-formingno94.358no
glucose-utilyes88.615no
aerobicno95.295yes
thermophileno99.684no
glucose-fermentyes70.356no

External links

@ref: 1004

culture collection no.: DSM 2255, ATCC 29741, WAL 2926, CIP 104207, CCUG 34778, NCTC 13706

straininfo link

  • @ref: 71245
  • straininfo: 1215

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Cultivation518079Collaborative evaluation of a proposed reference dilution method of susceptibility testing of anaerobic bacteria.Sutter VL, Barry AL, Wilkins TD, Zabransky RJAntimicrob Agents Chemother10.1128/AAC.16.4.4951979Anaerobiosis, Anti-Bacterial Agents/*pharmacology, Bacteria/*drug effects, Culture Media, Evaluation Studies as Topic, Microbial Sensitivity Tests/*methodsPathogenicity
Pathogenicity2280013Quality control criteria for testing the susceptibility of anaerobic bacteria to meropenem.Zabransky RJ, Bayola-Mueller L, Jenkins SG, Pitkin DR, Schreckenberger PC, Celig DM, Spiegel CAJ Clin Microbiol10.1128/jcm.28.12.2804-2805.19901990Bacteria, Anaerobic/*drug effects, Meropenem, Microbial Sensitivity Tests/methods/*standards, Quality Control, Reference Values, Thienamycins/*pharmacology
Pathogenicity2643621Quality control guidelines for testing cefotetan in the reference agar dilution procedure for susceptibility testing of anaerobic bacteria.Zabransky RJ, Bobey DG, Barry AL, Allen SD, Fuchs PC, Gerlach EH, Thornsberry C, Sheikh W, Jones RNJ Clin Microbiol10.1128/jcm.27.1.190-191.19891989Bacteria, Anaerobic/*drug effects, Cefotetan/*pharmacology, Microbial Sensitivity Tests/*standards, Multicenter Studies as Topic, Quality Control, Reference Values
Pathogenicity2896669Evaluation of in vitro methods for testing ceftriaxone against anaerobic bacteria, including quality control guidelines.Barry AL, Jones RNJ Clin Microbiol10.1128/jcm.26.4.776-777.19881988Bacteria, Anaerobic/*drug effects, Bacteroides/drug effects, Ceftriaxone/*pharmacology, Clostridium perfringens/drug effects, Microbial Sensitivity Tests/*standards, Quality Control
Pathogenicity3343304Criteria for disk susceptibility tests and quality control guidelines for the cefoperazone-sulbactam combination.Barry AL, Jones RNJ Clin Microbiol10.1128/jcm.26.1.13-17.19881988Bacteria, Anaerobic/*drug effects, Bacteroides/drug effects, Cefoperazone/*pharmacology, Drug Combinations, Enterobacteriaceae/drug effects, Gram-Negative Bacteria/*drug effects, Microbial Sensitivity Tests/*standards, Pseudomonas/drug effects, Quality Control, Sulbactam/*pharmacology
Pathogenicity3888103Establishment of MICs of moxalactam for control and reference anaerobic organisms in agar dilution and microdilution techniques.Sutter VL, Emmerman J, Randall E, Zabransky RJ, Birk RJAntimicrob Agents Chemother10.1128/AAC.27.3.4241985Agar, Bacteria, Anaerobic/*drug effects, Microbial Sensitivity Tests, Microbiological Techniques, Moxalactam/*pharmacology
Pathogenicity3972999Evaluation of broth microdilution susceptibility results for anaerobic organisms by use of a rapid direct colony inoculum.Mangels JI, Lindberg LHJ Clin Microbiol10.1128/jcm.21.2.269-272.19851985Bacteria, Anaerobic/*drug effects, Humans, Microbial Sensitivity Tests/*methods, Quality Control, Tetracycline/pharmacology
Pathogenicity6222065Establishment of minimum inhibitory concentrations of cefoperazone for control and reference anaerobic organisms.Zabransky RJ, Randall E, Sutter VL, Birk RJ, Westenfelder G, Emmerman J, Ghoneim ATJ Clin Microbiol10.1128/jcm.17.4.711-714.19831983Anaerobiosis, Bacteria/*drug effects, Cefoperazone, Cephalosporins/*pharmacology, Microbial Sensitivity Tests
Pathogenicity9578166Anti-anaerobic activity of erythromycin, azithromycin and clarithromycin: effect of pH adjustment of media to compensate for pH shift caused by incubation in CO2.Ednie LM, Jacobs MR, Appelbaum PCJ Antimicrob Chemother10.1093/jac/41.3.3871998Anti-Bacterial Agents/*pharmacology, Azithromycin/pharmacology, Bacteria, Anaerobic/*drug effects/growth & development, Bacterial Infections/microbiology, Carbon Dioxide/chemistry/metabolism, Clarithromycin/pharmacology, Colony Count, Microbial, Culture Media/chemistry/metabolism, Drug Resistance, Microbial, Drug Resistance, Multiple, Erythromycin/pharmacology, Gram-Negative Bacteria/drug effects/growth & development, Humans, Hydrogen-Ion Concentration, Microbial Sensitivity Tests, Oxygenases/pharmacologyMetabolism
Metabolism11709306A MATE family multidrug efflux transporter pumps out fluoroquinolones in Bacteroides thetaiotaomicron.Miyamae S, Ueda O, Yoshimura F, Hwang J, Tanaka Y, Nikaido HAntimicrob Agents Chemother10.1128/AAC.45.12.3341-3346.20012001*ATP-Binding Cassette Transporters, Amino Acid Sequence, Anti-Infective Agents/antagonists & inhibitors/*metabolism, Bacterial Proteins/antagonists & inhibitors/genetics/*metabolism, Bacteroides/drug effects/genetics/*metabolism, Blotting, Southern, Cloning, Molecular, DNA, Bacterial/chemistry/genetics, Drug Resistance, Microbial, Drug Resistance, Multiple, Genes, Bacterial, Microbial Sensitivity Tests, Molecular Sequence Data, Mutation, Norfloxacin/metabolismPathogenicity
Pathogenicity16258869Inducible metronidazole resistance in nim-positive and nim-negative bacteroides fragilis group strains after several passages metronidazole containing columbia agar plates.Schaumann R, Petzold S, Fille M, Rodloff ACInfection10.1007/s15010-005-5061-92005Anti-Infective Agents/*pharmacology, Bacteroides fragilis/*drug effects, *Drug Resistance, Bacterial/genetics, *Gene Expression Regulation, Bacterial, Genes, Bacterial, Metronidazole/*pharmacology, Microbial Sensitivity Tests, Polymerase Chain Reaction
Metabolism18512954Characterization of chondroitin sulfate lyase ABC from Bacteroides thetaiotaomicron WAL2926.Shaya D, Hahn BS, Park NY, Sim JS, Kim YS, Cygler MBiochemistry10.1021/bi800353g2008Amino Acid Sequence, Animals, Bacterial Proteins/chemistry/genetics/*metabolism, Bacteroides/*enzymology, Binding Sites/genetics, Calcium/chemistry/pharmacology, Carbohydrate Sequence, Catalysis/drug effects, Catalytic Domain/genetics, Chondroitin ABC Lyase/chemistry/genetics/*metabolism, Chondroitin Sulfates/chemistry/metabolism, Glycosaminoglycans/chemistry/metabolism, Histidine/chemistry/metabolism, Hydrogen-Ion Concentration, Kinetics, Magnesium/chemistry/pharmacology, Models, Molecular, Molecular Sequence Data, Mutation, Osmolar Concentration, Protein Structure, Tertiary, Substrate Specificity, Temperature, Tyrosine/chemistry/metabolismEnzymology
Pathogenicity23461830Determination of disk diffusion and MIC quality control guidelines for GSK2251052: a novel boron-containing antibacterial.Ross JE, Scangarella-Oman N, Jones RNDiagn Microbiol Infect Dis10.1016/j.diagmicrobio.2013.01.0072013Anti-Bacterial Agents/*pharmacology, Gram-Negative Bacteria/*drug effects, Gram-Positive Bacteria/*drug effects, Humans, Microbial Sensitivity Tests/methods/*standards, *Quality Control

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1004Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2255)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2255
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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)
68367Automatically annotated from API 20A
68380Automatically annotated from API rID32A
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71245Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1215.1StrainInfo: A central database for resolving microbial strain identifiers
123519Curators of the CIPCollection of Institut Pasteur (CIP 104207)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104207