Strain identifier

BacDive ID: 134025

Type strain: Yes

Species: Mycobacterium paragordonae

Strain Designation: 49061

Strain history: B.-J. Kim; Seoul Natl. Univ. Coll. of Med., South Korea; 49061.

NCBI tax ID(s): 1389713 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 31080

BacDive-ID: 134025

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, rod-shaped

description: Mycobacterium paragordonae 49061 is a mesophilic, rod-shaped bacterium that was isolated from human - mouth.

NCBI tax id

  • NCBI tax id: 1389713
  • Matching level: species

strain history

  • @ref: 67770
  • history: B.-J. Kim; Seoul Natl. Univ. Coll. of Med., South Korea; 49061.

doi: 10.13145/bacdive134025.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Mycobacteriaceae
  • genus: Mycobacterium
  • species: Mycobacterium paragordonae
  • full scientific name: Mycobacterium paragordonae Kim et al. 2014

@ref: 31080

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Mycobacteriales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium paragordonae

strain designation: 49061

type strain: yes

Morphology

cell morphology

@refcell shapemotilityconfidencegram stain
31080rod-shaped
69480no93.283
69480100positive

pigmentation

  • @ref: 31080
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31080positivegrowth25-30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.851

metabolite utilization

  • @ref: 31080
  • Chebi-ID: 53426
  • metabolite: tween 80
  • utilization activity: +
  • kind of utilization tested: carbon source

enzymes

@refvalueactivityec
31080arylsulfatase+3.1.6.1
31080catalase+1.11.1.6
31080urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
31080human - mouth
67770Sputum of a patient with a symptomatic pulmonary infectionSeoulRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Mouth

Sequence information

16S sequences

  • @ref: 31080
  • description: Mycobacterium paragordonae strain 49061 16S ribosomal RNA gene, partial sequence
  • accession: KC525204
  • length: 1393
  • database: nuccore
  • NCBI tax ID: 1389713

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium paragordonae 49061GCA_003614435completencbi1389713
66792Mycobacterium paragordonae JCM 18565GCA_010723415scaffoldncbi1389713
66792Mycobacterium paragordonae strain JCM 185651389713.13wgspatric1389713
66792Mycobacterium paragordonae 490612923207141completeimg1389713

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno73no
flagellatedno98.794no
gram-positiveyes87.078no
anaerobicno98.667no
aerobicyes89.596no
halophileno96.598no
spore-formingno81.486no
glucose-utilyes66.809no
thermophileno98.951no
motileno94.697no
glucose-fermentno91.51no

External links

@ref: 31080

culture collection no.: JCM 18565, KCTC 29126T, KCTC 29126

literature

  • topic: Phylogeny
  • Pubmed-ID: 24006480
  • title: Mycobacterium paragordonae sp. nov., a slowly growing, scotochromogenic species closely related to Mycobacterium gordonae.
  • authors: Kim BJ, Hong SH, Kook YH, Kim BJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.051540-0
  • year: 2013
  • mesh: Bacterial Typing Techniques, Base Sequence, DNA, Bacterial/genetics, Genes, Bacterial, Humans, Lung Diseases/microbiology, Molecular Sequence Data, Mycobacterium/*classification/genetics/growth & development/isolation & purification, Mycobacterium Infections/microbiology, Nontuberculous Mycobacteria, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sputum/microbiology
  • topic2: Pathogenicity

Reference

@idauthorstitledoi/urlID_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
31080Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172740928776041
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/
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