Strain identifier

BacDive ID: 8588

Type strain: Yes

Species: Mycobacterium litorale

Strain Designation: F4

Strain history: J. Zhang F4.

NCBI tax ID(s): 758802 (species)

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

@ref: 18194

BacDive-ID: 8588

DSM-Number: 45785

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

description: Mycobacterium litorale F4 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 758802
  • Matching level: species

strain history

@refhistory
18194<- JCM; JCM 17423 <- J. Zhang; F4
67770J. Zhang F4.

doi: 10.13145/bacdive8588.20230509.8.1

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 litorale
  • full scientific name: Mycobacterium litorale Zhang et al. 2012
  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium litorale

@ref: 18194

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium litorale

full scientific name: Mycobacterium litorale Zhang et al. 2012

strain designation: F4

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
30324positiverod-shaped
69480no93.836
69480positive100

pigmentation

  • @ref: 30324
  • production: no

Culture and growth conditions

culture medium

  • @ref: 18194
  • 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
18194positivegrowth37mesophilic
30324positiveoptimum37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 30324
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30324no
69481no100
69480no99.965

metabolite utilization

  • @ref: 30324
  • Chebi-ID: 17632
  • metabolite: nitrate
  • utilization activity: +
  • kind of utilization tested: reduction

enzymes

@refvalueactivityec
30324catalase+1.11.1.6
30324urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
18194soilHainan Province, HaikouChinaCHNAsia
67770SoilHaikou, Hainan ProvinceChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 18194
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18194
  • description: Mycobacterium litorale strain F4 16S ribosomal RNA gene, partial sequence
  • accession: GU997640
  • length: 1380
  • database: ena
  • NCBI tax ID: 758802

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycolicibacterium litorale JCM 17423GCA_010731695completencbi758802
66792Mycolicibacterium litorale strain CGMCC 4.5724758802.10wgspatric758802
66792Mycolicibacterium litorale strain JCM 17423758802.12completepatric758802
66792Mycolicibacterium litorale CGMCC 4.57242681812963draftimg758802
67770Mycolicibacterium litorale F4GCA_002007745completencbi758802
67770Mycolicibacterium litorale CGMCC 4.5724GCA_004366555scaffoldncbi758802
66792Mycolicibacterium litorale DSM 45785GCA_025823345contigncbi758802

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.855no
flagellatedno98.465no
gram-positiveyes89.047yes
anaerobicno99.495yes
aerobicyes91.357yes
halophileno87.773no
spore-formingno88.366yes
glucose-utilyes88.009no
thermophileno99.304yes
glucose-fermentno90.786no

External links

@ref: 18194

culture collection no.: DSM 45785, CGMCC 4.5724, JCM 17423

straininfo link

  • @ref: 77972
  • straininfo: 401655

literature

  • topic: Phylogeny
  • Pubmed-ID: 21742818
  • title: Mycobacterium litorale sp. nov., a rapidly growing mycobacterium from soil.
  • authors: Zhang Y, Zhang J, Fang C, Pang H, Fan J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.033449-0
  • year: 2011
  • mesh: Bacterial Proteins/genetics, Bacterial Typing Techniques, Chaperonin 60/genetics, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA, Ribosomal Spacer/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Mycobacterium/*classification/genetics/growth & development/*isolation & purification, Mycolic Acids/analysis, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
18194Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45785)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45785
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
30324Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2666528776041
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/
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
77972Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401655.1StrainInfo: A central database for resolving microbial strain identifiers