Strain identifier

BacDive ID: 6342

Type strain: Yes

Species: Butyrivibrio fibrisolvens

Strain Designation: D1

Strain history: Y. Benno <-- T. Mitsuoka <-- ATCC 19171 <-- I. M. Robinson.

NCBI tax ID(s): 1121131 (strain), 831 (species)

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General

@ref: 1290

BacDive-ID: 6342

DSM-Number: 3071

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

description: Butyrivibrio fibrisolvens D1 is an anaerobe, mesophilic bacterium that was isolated from bovine rumen.

NCBI tax id

NCBI tax idMatching level
1121131strain
831species

strain history

@refhistory
1290<- ATCC <- I.M. Robinson <- W.E.C. Moore <- K. Pittman <- M.P. Bryant and N. Small, D1
67770Y. Benno <-- T. Mitsuoka <-- ATCC 19171 <-- I. M. Robinson.

doi: 10.13145/bacdive6342.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Lachnospiraceae
  • genus: Butyrivibrio
  • species: Butyrivibrio fibrisolvens
  • full scientific name: Butyrivibrio fibrisolvens Bryant and Small 1956 (Approved Lists 1980)

@ref: 1290

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Lachnospiraceae

genus: Butyrivibrio

species: Butyrivibrio fibrisolvens

full scientific name: Butyrivibrio fibrisolvens Bryant and Small 1956

strain designation: D1

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 1290
  • name: RUMEN BACTERIA MEDIUM (DSMZ Medium 330)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/330
  • composition: Name: RUMEN BACTERIA MEDIUM (DSMZ Medium 330) Composition: Na2CO3 4.0 g/l Trypticase peptone 2.0 g/l D-Glucose 0.5 g/l Yeast extract 0.5 g/l Maltose 0.5 g/l Cellobiose 0.5 g/l Starch 0.5 g/l Glycerol 0.5 g/l NaCl 0.456 g/l K2HPO4 0.3 g/l L-Cysteine HCl x H2O 0.25 g/l Na2S x 9 H2O 0.25 g/l (NH4)2SO4 0.228 g/l KH2PO4 0.228 g/l MgSO4 x 7 H2O 0.095 g/l CaCl2 x 2 H2O 0.0608 g/l Hemin 0.001 g/l Sodium resazurin 0.0005 g/l NaOH None Distilled water

culture temp

@refgrowthtypetemperaturerange
1290positivegrowth37mesophilic
52745positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
1290anaerobe
52745anaerobe

metabolite utilization

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

metabolite production

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

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-
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
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
52745-+++------+-+++++---

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
52745--+++++++--------+--------+--

Isolation, sampling and environmental information

isolation

@refsample type
1290bovine rumen
52745Bovine rumen
67770Rumen contents

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Organ#Rumen

taxonmaps

  • @ref: 69479
  • File name: preview.99_11699.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_85;96_5906;97_7104;98_8774;99_11699&stattab=map
  • Last taxonomy: Butyrivibrio fibrisolvens subclade
  • 16S sequence: X89970
  • Sequence Identity:
  • Total samples: 9409
  • soil counts: 256
  • aquatic counts: 72
  • animal counts: 8563
  • plant counts: 518

Safety information

risk assessment

  • @ref: 1290
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218B.fibrisolvens DNA for ribosomal RNA gene (strain NCDO 2221)X899701481ena831
1290Butyrivibrio fibrisolvens ATCC 19171 16S rRNA geneU411721477ena831
67770Butyrivibrio fibrisolvens gene for 16S ribosomal RNA, partial sequence, strain: JCM 6563AB9718081506ena831

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Butyrivibrio fibrisolvens DSM 30711121131.4wgspatric1121131
66792Butyrivibrio fibrisolvens DSM 30712585428068draftimg1121131
67770Butyrivibrio fibrisolvens DSM 3071GCA_900129945contigncbi1121131

GC content

  • @ref: 67770
  • GC-content: 41.2
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes84.829no
flagellatedno58.998no
gram-positiveyes68.392no
anaerobicyes99.28yes
aerobicno98.582no
halophileno93.549no
spore-formingyes75.591no
thermophileno95.046yes
glucose-utilyes88.62no
glucose-fermentyes76.888no

External links

@ref: 1290

culture collection no.: DSM 3071, ATCC 19171, CCUG 35459, JCM 6563, NCIMB 702221

straininfo link

  • @ref: 75816
  • straininfo: 36883

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism7576521Fermentation of glucose and xylose in ruminal strains of Butyrivibrio fibrisolvens.Marounek M, Petr OLett Appl Microbiol10.1111/j.1472-765x.1995.tb01058.x1995Aldehyde-Lyases/metabolism, Animals, Bacteria, Anaerobic/enzymology/growth & development/*metabolism, *Fermentation, Glucose/*metabolism, L-Lactate Dehydrogenase/metabolism, Lactobacillus/metabolism, Rumen/*microbiology, Xylose/*metabolismEnzymology
Phylogeny898769416S rDNA analysis of Butyrivibrio fibrisolvens: phylogenetic position and relation to butyrate-producing anaerobic bacteria from the rumen of white-tailed deer.Forster RJ, Teather RM, Gong J, Deng SJLett Appl Microbiol10.1111/j.1472-765x.1996.tb00069.x1996Animals, Butyrates/metabolism, Butyric Acid, DNA, Ribosomal/*analysis, Deer, Gram-Negative Anaerobic Bacteria/*classification, Phylogeny, RNA, Ribosomal, 16S/*genetics, Rumen/*microbiologyMetabolism
Metabolism10827280Effects of ammonia and amino acids on the growth and proteolytic activity of three species of rumen bacteria: Prevotella albensis, Butyrivibrio fibrisolvens, and Streptococcus bovis.Sales M, Lucas F, Blanchart GCurr Microbiol10.1007/s0028400100742000Amino Acids/*pharmacology, Ammonia/*pharmacology, Animals, Caseins/metabolism, Dose-Response Relationship, Drug, Glucose/metabolism, Prevotella/*drug effects/growth & development/metabolism, Rumen, Streptococcus bovis/*drug effects/growth & development/metabolism, Vibrio/*drug effects/growth & development/metabolismPathogenicity
Biotechnology12483606Presence of Butyrivibrio fibrisolvens in the digestive tract of dogs and cats, and its contribution to butyrate production.Asanuma N, Kawato M, Hino TJ Gen Appl Microbiol10.2323/jgam.47.3132001
Metabolism15991056Characterization and transcription of the genes involved in butyrate production in Butyrivibrio fibrisolvens type I and II strains.Asanuma N, Ishiwata M, Yoshii T, Kikuchi M, Nishina Y, Hino TCurr Microbiol10.1007/s00284-005-4477-x20053-Hydroxyacyl CoA Dehydrogenases/*genetics, Acetates/metabolism, Acetyl Coenzyme A/*genetics/metabolism, Acetyl-CoA C-Acetyltransferase/genetics, Acyl Coenzyme A/biosynthesis/*genetics, Butyrates/*metabolism, Butyrivibrio/classification/enzymology/*genetics, Transcription Initiation Site, *Transcription, GeneticEnzymology
16349201Utilization of Glucose and Xylose in Ruminal Strains of Butyrivibrio fibrisolvens.Marounek M, Kopecny JAppl Environ Microbiol10.1128/aem.60.2.738-739.19941994

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1290Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3071)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3071
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
52745Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 35459)https://www.ccug.se/strain?id=35459
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68380Automatically annotated from API rID32A
68382Automatically annotated from API zym
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
75816Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36883.1StrainInfo: A central database for resolving microbial strain identifiers