Strain identifier

BacDive ID: 130264

Type strain: Yes

Species: Collinsella massiliensis

Strain Designation: GD3

Strain history: <- J.-C. Lagier; Timone Hospital, Marseille, France; GD3 <- G. Dubourg; Timone Hospital, Marseille, France;

NCBI tax ID(s): 1232426 (species)

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General

@ref: 21552

BacDive-ID: 130264

DSM-Number: 26110

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

description: Collinsella massiliensis GD3 is an anaerobe, mesophilic bacterium that was isolated from human feces, French Caucasoid woman with Guillain-Barre syndrome.

NCBI tax id

  • NCBI tax id: 1232426
  • Matching level: species

strain history

  • @ref: 21552
  • history: <- J.-C. Lagier; Timone Hospital, Marseille, France; GD3 <- G. Dubourg; Timone Hospital, Marseille, France;

doi: 10.13145/bacdive130264.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Coriobacteriia
  • order: Coriobacteriales
  • family: Coriobacteriaceae
  • genus: Collinsella
  • species: Collinsella massiliensis
  • full scientific name: Collinsella massiliensis Padmanabhan et al. 2016

@ref: 21552

domain: Bacteria

phylum: Actinobacteria

class: Coriobacteriia

order: Coriobacteriales

family: Coriobacteriaceae

genus: Collinsella

species: Collinsella massiliensis

full scientific name: Collinsella massiliensis Padmanabhan et al. 2016

strain designation: GD3

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
21552CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
21552COLUMBIA 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

  • @ref: 21552
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 21552
  • oxygen tolerance: anaerobe

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
68380glutamyl-glutamate arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
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
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 rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
21552-++--+-------+--++/-+-+/-+/--+/-+/-+/-+/--+/-

Isolation, sampling and environmental information

isolation

  • @ref: 21552
  • sample type: human feces, French Caucasoid woman with Guillain-Barre syndrome
  • geographic location: Timone Hospital, Marseille
  • country: France
  • origin.country: FRA
  • continent: Europe
  • latitude: 43.2965
  • longitude: 5.3698

isolation source categories

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

Sequence information

16S sequences

  • @ref: 21552
  • description: Collinsella massiliensis strain GD3 16S ribosomal RNA gene, partial sequence
  • accession: JX424766
  • length: 1279
  • database: ena
  • NCBI tax ID: 1232426

Genome sequences

  • @ref: 66792
  • description: Collinsella massiliensis GD3
  • accession: 2551306475
  • assembly level: draft
  • database: img
  • NCBI tax ID: 1232426

GC content

  • @ref: 21552
  • GC-content: 65.8
  • method: sequence analysis

External links

@ref: 21552

culture collection no.: DSM 26110

straininfo link

  • @ref: 88803
  • straininfo: 398281

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
21552Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26110Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26110)
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
68380Automatically annotated from API rID32A
88803Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID398281.1