Strain identifier

BacDive ID: 8538

Type strain: Yes

Species: Mycobacterium paraseoulense

Strain Designation: 31118

Strain history: <- BJ Kim, Seoul Natl. Univ.

NCBI tax ID(s): 590652 (species)

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General

@ref: 12232

BacDive-ID: 8538

DSM-Number: 45000

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

description: Mycobacterium paraseoulense 31118 is an aerobe, mesophilic, rod-shaped human pathogen that was isolated from sputum of a patient with general pulmonary symptoms.

NCBI tax id

  • NCBI tax id: 590652
  • Matching level: species

strain history

@refhistory
12232<- H.-S. Mun; strain 31118
67770KCTC 19145 <-- B.-J. Kim 31118.
67771<- BJ Kim, Seoul Natl. Univ.

doi: 10.13145/bacdive8538.20230509.8.1

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 paraseoulense
  • full scientific name: Mycobacterium paraseoulense Lee et al. 2010

@ref: 12232

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium paraseoulense

full scientific name: Mycobacterium paraseoulense Lee et al. 2010 emend. Nouioui et al. 2018

strain designation: 31118

type strain: yes

Morphology

cell morphology

@refcell shapemotilitygram stainconfidence
29387rod-shapedno
67771positive
69480positive100

pigmentation

  • @ref: 29387
  • production: yes

multimedia

  • @ref: 12232
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45000.jpg
  • caption: Medium 645 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 12232
  • name: MIDDLEBROOK MEDIUM (DSMZ Medium 645)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/645
  • composition: Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water

culture temp

@refgrowthtypetemperaturerange
12232positivegrowth37mesophilic
29387positivegrowth25-40
29387positiveoptimum37mesophilic
67770positivegrowth37mesophilic
67771positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29387no
69481no100
69480no99.746

halophily

  • @ref: 29387
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

enzymes

  • @ref: 29387
  • value: urease
  • activity: +
  • ec: 3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12232sputum of a patient with general pulmonary symptomsSeoulRepublic of KoreaKORAsia
67770Human sputumRepublic of KoreaKORAsia
67771From sputumRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Infection#Patient
#Host Body-Site#Oral cavity and airways#Airways
#Host Body Product#Fluids#Sputum

taxonmaps

  • @ref: 69479
  • File name: preview.99_75.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_37;97_39;98_43;99_75&stattab=map
  • Last taxonomy: Mycobacterium
  • 16S sequence: DQ536404
  • Sequence Identity:
  • Total samples: 1520
  • soil counts: 881
  • aquatic counts: 382
  • animal counts: 203
  • plant counts: 54

Safety information

risk assessment

  • @ref: 12232
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 12232
  • description: Mycobacterium paraseoulense strain 31118 16S ribosomal RNA gene, partial sequence
  • accession: DQ536404
  • length: 1522
  • database: ena
  • NCBI tax ID: 590652

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium paraseoulense JCM 16952GCA_010731655completencbi590652
66792Mycobacterium paraseoulense strain DSM 45000590652.3wgspatric590652
66792Mycobacterium paraseoulense strain JCM 16952590652.11completepatric590652
66792Mycobacterium paraseoulense DSM 450002865579360draftimg590652
67770Mycobacterium paraseoulense DSM 45000GCA_002086475contigncbi590652
66792Mycobacterium paraseoulense DSM 45000GCA_025823155scaffoldncbi590652

GC content

  • @ref: 67770
  • GC-content: 67.9
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.102yes
flagellatedno98.77yes
gram-positiveyes88.099yes
anaerobicno98.735no
aerobicyes89.333yes
halophileno93.55no
spore-formingno89.158yes
glucose-utilyes65.379no
thermophileno98.122yes
glucose-fermentno91.557no

External links

@ref: 12232

culture collection no.: DSM 45000, KCTC 19145, JCM 16952

straininfo link

  • @ref: 77924
  • straininfo: 297478

literature

  • topic: Phylogeny
  • Pubmed-ID: 19654367
  • title: Mycobacterium paraseoulense sp. nov., a slowly growing, scotochromogenic species related genetically to Mycobacterium seoulense.
  • authors: Lee HK, Lee SA, Lee IK, Yu HK, Park YG, Hyun JW, Kim K, Kook YH, Kim BJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.012054-0
  • year: 2009
  • mesh: Bacterial Proteins/genetics, Base Sequence, Chaperonin 60/genetics, DNA, Ribosomal Spacer/genetics, Humans, Molecular Sequence Data, Mycobacterium/*classification/genetics/isolation & purification, Mycobacterium Infections/*microbiology, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12232Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45000)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45000
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
29387Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2579428776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
77924Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297478.1StrainInfo: A central database for resolving microbial strain identifiers