Strain identifier

BacDive ID: 6107

Type strain: Yes

Species: Helicobacter marmotae

Strain history: <- CCUG <- Z. Shen, Massachusetts Inst. Technology, Cambridge, USA <- S. Xu

NCBI tax ID(s): 152490 (species)

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General

@ref: 16600

BacDive-ID: 6107

DSM-Number: 22879

keywords: 16S sequence, Bacteria, anaerobe, mesophilic, animal pathogen

description: Helicobacter marmotae DSM 22879 is an anaerobe, mesophilic animal pathogen that was isolated from liver of a woodchuck infected with WHV.

NCBI tax id

  • NCBI tax id: 152490
  • Matching level: species

strain history

  • @ref: 16600
  • history: <- CCUG <- Z. Shen, Massachusetts Inst. Technology, Cambridge, USA <- S. Xu

doi: 10.13145/bacdive6107.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Epsilonproteobacteria
  • order: Campylobacterales
  • family: Helicobacteraceae
  • genus: Helicobacter
  • species: Helicobacter marmotae
  • full scientific name: Helicobacter marmotae Fox et al. 2006

@ref: 16600

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Helicobacteraceae

genus: Helicobacter

species: Helicobacter marmotae

full scientific name: Helicobacter marmotae Fox et al. 2006

type strain: yes

Morphology

colony morphology

  • @ref: 16600
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 16600
  • name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/693
  • composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
16600positivegrowth37mesophilic
59543positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16600anaerobe
59543microaerophile

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837316199urea+hydrolysis
6837317632nitrate+reduction
68373606565hippurate-hydrolysis
6837378019triphenyltetrazolium chloride+reduction
6837317634D-glucose-assimilation
6837330031succinate-assimilation
6837330089acetate-assimilation
6837317272propionate-assimilation
6837325115malate-assimilation
6837316947citrate-assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
6837348923erythromycinyesyes14 µg
68373474053cefazolinyesyes224 µg
68373100147nalidixic acidyesyes84 µg

metabolite production

  • @ref: 68373
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
16600catalase+1.11.1.6
68373catalase+1.11.1.6
68373alkaline phosphatase+3.1.3.1
68373L-aspartate arylamidase-3.4.11.21
68373pyrrolidonyl arylamidase-3.4.19.3
68373gamma-glutamyltransferase-2.3.2.2
68373urease+3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    59543C12:03.612
    59543C14:010.714
    59543C15:00.315
    59543C16:025.616
    59543C17:00.317
    59543C18:01.218
    59543C12:0 3OH1.213.455
    59543C13:1 at 12-133.412.931
    59543C14:0 3OH/C16:1 ISO I0.315.485
    59543C14:0 ISO0.913.618
    59543C16:0 3OH3.217.52
    59543C16:0 aldehyde2.514.949
    59543C16:0 iso0.515.626
    59543C16:1 ω7c0.315.819
    59543C17:1 ISO I/C16:0 DMA14.316.481
    59543C18:1 ISO H0.817.46
    59543C18:1 ω7c /12t/9t29.617.824
    59543C18:1 ω7c DMA0.718.282
    59543C18:2 ω6,9c/C18:0 ANTE0.417.724
    59543unknown 12.4860.312.486
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API CAM

@refURENITESTHIPGGTTTCPYRAArgAAspAPALH2SGLUSUTNALCFZACEPROPMLTCITEROCAT
16600++---+---+----------+
16600+++--+-+-+----------+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
16600liver of a woodchuck infected with WHVUSAUSANorth America
59543Woodchuck1997-06-18

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host#Mammals#Rodentia (Other)
#Host Body-Site#Organ#Liver

taxonmaps

  • @ref: 69479
  • File name: preview.99_70545.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_36;96_1102;97_32024;98_49489;99_70545&stattab=map
  • Last taxonomy: Helicobacter marmotae subclade
  • 16S sequence: AF333341
  • Sequence Identity:
  • Total samples: 258
  • soil counts: 4
  • aquatic counts: 3
  • animal counts: 251

Safety information

risk assessment

  • @ref: 16600
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16600
  • description: Helicobacter sp. MIT 98-6070 16S ribosomal RNA gene, partial sequence
  • accession: AF333341
  • length: 1473
  • database: ena
  • NCBI tax ID: 152490

External links

@ref: 16600

culture collection no.: DSM 22879, ATCC BAA 546, CCUG 52419, MIT 98-6070

straininfo link

  • @ref: 75594
  • straininfo: 297224

Reference

@idauthorscataloguedoi/urltitle
16600Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22879)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22879
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
59543Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52419)https://www.ccug.se/strain?id=52419
68373Automatically annotated from API CAM
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
75594Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297224.1StrainInfo: A central database for resolving microbial strain identifiers