Strain identifier

BacDive ID: 23877

Type strain: Yes

Species: Corynebacterium lactis

Strain Designation: RW2-5

Strain history: CIP <- 2014, DSMZ <- A. Lipski, Bonn Univ., Bonn, Germany: strain RW2-5 <- R. Wierz, Bonn Univ., Bonn, Germany

NCBI tax ID(s): 1231000 (species)

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General

@ref: 20517

BacDive-ID: 23877

DSM-Number: 45799

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, rod-shaped, animal pathogen

description: Corynebacterium lactis RW2-5 is an aerobe, mesophilic, Gram-positive animal pathogen that was isolated from raw cow milk.

NCBI tax id

  • NCBI tax id: 1231000
  • Matching level: species

strain history

@refhistory
20517<- A. Lipski, Universität Bonn; RW2-5 <- R. Wiertz, Universität Bonn
67770CCUG 63372 <-- A. Lipski; Univ. Bonn, Germany; RW2-5 <-- R. Wiertz.
120525CIP <- 2014, DSMZ <- A. Lipski, Bonn Univ., Bonn, Germany: strain RW2-5 <- R. Wierz, Bonn Univ., Bonn, Germany

doi: 10.13145/bacdive23877.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium lactis
  • full scientific name: Corynebacterium lactis Wiertz et al. 2013

@ref: 20517

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium lactis

full scientific name: Corynebacterium lactis Wiertz et al. 2013 emend. Nouioui et al. 2018

strain designation: RW2-5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31049positive1.3 µm0.7 µmrod-shapedno
69480no91.57
69480positive100
120525positiverod-shapedno

pigmentation

  • @ref: 31049
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
41609MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
20517TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)yesName: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/535a
120525CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
20517positivegrowth28mesophilic
31049positivegrowth30-42
41609positivegrowth30mesophilic
62974positivegrowth37mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31049aerobe
62974microaerophile

spore formation

@refspore formationconfidence
31049no
69481no100
69480no99.983

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2), MK-8(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3104928757fructose+carbon source
3104917234glucose+carbon source
3104937684mannose+carbon source
3104933942ribose+carbon source

enzymes

@refvalueactivityec
31049alkaline phosphatase+3.1.3.1
31049alpha-galactosidase+3.2.1.22
31049catalase+1.11.1.6
31049pyrazinamidase+3.5.1.B15
31049urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
20517raw cow milkBonnGermanyDEUEurope
62974Raw cow milkGermanyDEUEurope2010-10-19
67770Raw cow's milkGermanyDEUEurope
120525Food, Raw cow milkBonnGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body Product#Fluids#Milk

taxonmaps

  • @ref: 69479
  • File name: preview.99_3815.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_138;97_149;98_2907;99_3815&stattab=map
  • Last taxonomy: Corynebacterium lactis subclade
  • 16S sequence: HE983829
  • Sequence Identity:
  • Total samples: 1308
  • soil counts: 114
  • aquatic counts: 72
  • animal counts: 1114
  • plant counts: 8

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
20517yes, in single cases1Risk group (German classification)
1205252Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20517
  • description: Corynebacterium lactis partial 16S rRNA gene, type strain RW2-5T
  • accession: HE983829
  • length: 1452
  • database: ena
  • NCBI tax ID: 1408189

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium lactis RW2-5GCA_001274895completencbi1408189
66792Corynebacterium lactis RW2-51408189.4completepatric1408189
66792Corynebacterium lactis RW2-52645727750completeimg1408189

GC content

  • @ref: 67770
  • GC-content: 60.5
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.185yes
flagellatedno95.916yes
gram-positiveyes87.228no
anaerobicno98.044yes
halophileyes61.113no
spore-formingno88.212yes
thermophileno93.083yes
glucose-utilyes88.89no
aerobicno74.837no
glucose-fermentno51.178no

External links

@ref: 20517

culture collection no.: DSM 45799, CCUG 63372, CIP 110786, JCM 32211

straininfo link

  • @ref: 87889
  • straininfo: 404474

literature

  • topic: Phylogeny
  • Pubmed-ID: 23907219
  • title: Corynebacterium frankenforstense sp. nov. and Corynebacterium lactis sp. nov., isolated from raw cow milk.
  • authors: Wiertz R, Schulz SC, Muller U, Kampfer P, Lipski A
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.050757-0
  • year: 2013
  • mesh: Animals, Bacterial Typing Techniques, Cattle, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Food Microbiology, Milk/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Biotechnology

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
20517Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45799Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45799)
31049Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172737928776041
41609Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/30598
62974Curators of the CCUGhttps://www.ccug.se/strain?id=63372Culture Collection University of Gothenburg (CCUG) (CCUG 63372)
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/
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
87889Reimer, 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-ID404474.1
120525Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110786Collection of Institut Pasteur (CIP 110786)