Strain identifier

BacDive ID: 1753

Type strain: Yes

Species: Bifidobacterium reuteri

Strain Designation: AFB22-1

Strain history: A. Endo AFB22-1.

NCBI tax ID(s): 1437610 (strain), 983706 (species)

« back to strain detail view
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: 17466

BacDive-ID: 1753

DSM-Number: 23975

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

description: Bifidobacterium reuteri AFB22-1 is an anaerobe, mesophilic bacterium that was isolated from feces of common marmoset.

NCBI tax id

NCBI tax idMatching level
983706species
1437610strain

strain history

@refhistory
17466<- A. Endo, Dept. Microbiology, Stellenbosch Univ., South Africa; AFB22-1
67770A. Endo AFB22-1.

doi: 10.13145/bacdive1753.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Bifidobacteriales
  • family: Bifidobacteriaceae
  • genus: Bifidobacterium
  • species: Bifidobacterium reuteri
  • full scientific name: Bifidobacterium reuteri Endo et al. 2012

@ref: 17466

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium reuteri

full scientific name: Bifidobacterium reuteri Endo et al. 2012

strain designation: AFB22-1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.224
69480100positive

Culture and growth conditions

culture medium

  • @ref: 17466
  • name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/58
  • composition: Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water

culture temp

@refgrowthtypetemperaturerange
17466positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
17466anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no93
69480no99.992

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose+builds acid from16634
68371melezitose+builds acid from6731
68371inulin-builds acid from15443
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin+builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
17466----+++---++++-------+-++++++++++/--++++-++------+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17466feces of common marmosetCape TownSouth AfricaZAFAfrica
67770Feces of a common marmosetCape TownSouth AfricaZAFAfrica

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Primates
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_6257.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_2980;97_3664;98_4636;99_6257&stattab=map
  • Last taxonomy: Bifidobacterium reuteri subclade
  • 16S sequence: LC519985
  • Sequence Identity:
  • Total samples: 10309
  • soil counts: 165
  • aquatic counts: 58
  • animal counts: 10067
  • plant counts: 19

Safety information

risk assessment

  • @ref: 17466
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
17466Bifidobacterium reuteri gene for 16S rRNA, partial sequenceAB6132591429ena1437610
67770Bifidobacterium reuteri JCM 17295 gene for 16S rRNA, partial sequenceLC5199851423ena983706

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium reuteri DSM 239751437610.3wgspatric1437610
66792Bifidobacterium reuteri DSM 239751437610.4wgspatric1437610
66792Bifidobacterium reuteri DSM 239752675903550draftimg1437610
66792Bifidobacterium reuteri DSM 239752600254975draftimg1437610
67770Bifidobacterium reuteri DSM 23975GCA_000771685contigncbi1437610
67770Bifidobacterium reuteri DSM 23975GCA_000741695contigncbi1437610

GC content

@refGC-contentmethod
1746661.3high performance liquid chromatography (HPLC)
6777061.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno93no
motileno94.365no
gram-positiveyes93.715no
anaerobicyes98.034no
halophileno81.114no
spore-formingno93.896no
glucose-utilyes85.743no
thermophileno96.375yes
aerobicno96.003no
flagellatedno96.194no
glucose-fermentyes83.95no

External links

@ref: 17466

culture collection no.: DSM 23975, JCM 17295, KCTC 15318

straininfo link

  • @ref: 71400
  • straininfo: 379795

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22225994Bifidobacterium reuteri sp. nov., Bifidobacterium callitrichos sp. nov., Bifidobacterium saguini sp. nov., Bifidobacterium stellenboschense sp. nov. and Bifidobacterium biavatii sp. nov. isolated from faeces of common marmoset (Callithrix jacchus) and red-handed tamarin (Saguinus midas).Endo A, Futagawa-Endo Y, Schumann P, Pukall R, Dicks LMSyst Appl Microbiol10.1016/j.syapm.2011.11.0062012Aldehyde-Lyases/metabolism, Animals, Bacterial Typing Techniques, Base Composition, Base Sequence, Bifidobacterium/*classification/*genetics/isolation & purification, Callithrix/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Feces/microbiology, HSP40 Heat-Shock Proteins/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/analysis/genetics, Saguinus/*microbiology, Sequence Alignment, Sequence Analysis, DNAGenetics
Phylogeny31585749Characterization of Bifidobacterium species in feaces of the Egyptian fruit bat: Description of B. vespertilionis sp. nov. and B. rousetti sp. nov.Modesto M, Satti M, Watanabe K, Puglisi E, Morelli L, Huang CH, Liou JS, Miyashita M, Tamura T, Saito S, Mori K, Huang L, Sciavilla P, Sandri C, Spiezio C, Vitali F, Cavalieri D, Perpetuini G, Tofalo R, Bonetti A, Arita M, Mattarelli PSyst Appl Microbiol10.1016/j.syapm.2019.1260172019Amino Acids/analysis, Animals, Base Composition, Bifidobacterium/chemistry/*classification/genetics/growth & development, Chiroptera/*microbiology, DNA, Bacterial/genetics, Egypt, Fatty Acids/analysis, Feces/*microbiology, Genes, Essential/genetics, Genetic Variation, Genome, Bacterial/genetics, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17466Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23975)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23975
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)
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 updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
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
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
71400Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID379795.1StrainInfo: A central database for resolving microbial strain identifiers