Strain identifier

BacDive ID: 130658

Type strain: No

Species: Alistipes senegalensis

Strain Designation: JC50

Strain history: DSM 25460 <-- J.-C. Lagier; Timone Hosp., France; JC50.

NCBI tax ID(s): 1288121 (species)

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General

@ref: 21468

BacDive-ID: 130658

DSM-Number: 25460

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

description: Alistipes senegalensis JC50 is an anaerobe, mesophilic bacterium that was isolated from stool from a healthy 16-year-old male Senegalese volunteer patient.

NCBI tax id

  • NCBI tax id: 1288121
  • Matching level: species

strain history

@refhistory
21468<- J.-C. Lagier, Timone Hospital, Marseille, France; JC50
67770DSM 25460 <-- J.-C. Lagier; Timone Hosp., France; JC50.

doi: 10.13145/bacdive130658.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Rikenellaceae
  • genus: Alistipes
  • species: Alistipes senegalensis
  • full scientific name: Alistipes senegalensis Mishra et al. 2012

@ref: 21468

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Rikenellaceae

genus: Alistipes

species: Alistipes senegalensis

full scientific name: Alistipes senegalensis Mishra et al. 2012

strain designation: JC50

type strain: no

Morphology

colony morphology

  • @ref: 21468
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
21468FASTIDIOUS 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
21468COLUMBIA 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

culture temp

@refgrowthtypetemperaturerange
21468positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 21468
  • oxygen tolerance: anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
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
68380serine arylamidase-
68380histidine arylamidase-
68380alanine arylamidase+3.4.11.2
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-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 rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
21468--++--+-+/-+/---+------++/---+/-++/--+-
21468--++--+-+---+------+----+--+/--
21468--++--+---+/-+/--+/---+/---+----+--+/--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
21468stool from a healthy 16-year-old male Senegalese volunteer patientSenegalSENAfrica
67770Fecal flora of a healthy patient in Senegal

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3506.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_110;96_474;97_542;98_2687;99_3506&stattab=map
  • Last taxonomy: Alistipes senegalensis subclade
  • 16S sequence: JF824804
  • Sequence Identity:
  • Total samples: 10365
  • soil counts: 54
  • aquatic counts: 96
  • animal counts: 10208
  • plant counts: 7

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
21468HIV-1 isolate Primer ID CGGCGGTG_T3_21 from USA protease (pol) gene, partial cdsJN824804297ena11676
67770Alistipes senegalensis JC50 16S ribosomal RNA gene, partial sequenceJF8248041480ena1033732

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alistipes senegalensis JC501033732.3wgspatric1033732
66792Alistipes senegalensis JC502547132124draftimg1033732
67770Alistipes senegalensis JC50GCA_000312145scaffoldncbi1033732
66792Alistipes senegalensis JC50GCA_025145645completencbi1033732
66792Alistipes senegalensis strain FDAARGOS_15781288121.43completepatric1288121
66792Alistipes senegalensis strain FDAARGOS_15781288121.42completepatric1288121
66792Alistipes senegalensis JC501033732.50completepatric1033732

GC content

@refGC-contentmethod
2146858.40sequence analysis
6777058.4genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.309no
flagellatedno96.913no
gram-positiveno98.285no
anaerobicyes97.585yes
aerobicno97.074yes
halophileno87.451no
spore-formingno93.936no
glucose-fermentyes62.678no
thermophileno98.823no
glucose-utilyes84.57no

External links

@ref: 21468

culture collection no.: DSM 25460, CSUR P150, JCM 32779, CSUR P156

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
21468Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25460Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25460)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/