Strain identifier

BacDive ID: 24236

Type strain: Yes

Species: Mycobacterium sediminis

Strain Designation: YIM M13028

Culture col. no.: DSM 45643, KCTC 19999

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

@ref: 20671

BacDive-ID: 24236

DSM-Number: 45643

keywords: gram-positive, mesophilic, Bacteria, 16S sequence, genome sequence, ovoid-shaped

description: Mycobacterium sediminis YIM M13028 is a mesophilic, gram-positive, ovoid-shaped bacterium that was isolated from marine sediment.

strain history: <- S.-K. Tang, YIM; YIM M13028 <- D.-F. Zhang

doi: 10.13145/bacdive24236.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinobacteria
  • domain: Bacteria
  • phylum: Actinobacteria
  • class: Actinobacteria
  • order: Mycobacteriales
  • family: Mycobacteriaceae
  • genus: Mycobacterium
  • species: Mycobacterium sediminis
  • full scientific name: Mycobacterium sediminis Zhang et al. 2013
  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium sediminis

@ref: 20671

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium sediminis

full scientific name: Mycobacterium sediminis Zhang et al. 2013

strain designation: YIM M13028

type strain: yes

Morphology

cell morphology

  • @ref: 31044
  • gram stain: positive
  • cell shape: ovoid-shaped
  • motility: no

pigmentation

  • @ref: 31044
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 20671
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf

culture temp

@refgrowthtypetemperaturerange
20671positivegrowth28mesophilic
31044positivegrowth05-37
31044positiveoptimum28mesophilic

culture pH

@refabilitytypepH
31044positivegrowth6.0-8.0
31044positiveoptimum7

Physiology and metabolism

spore formation

  • @ref: 31044
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31044NaClpositivegrowth0-4 %
31044NaClpositiveoptimum1 %

enzymes

@refvalueactivityec
31044catalase+1.11.1.6
31044urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 20671
  • sample type: marine sediment
  • geographic location: Yunnan, South China Sea (19° 30.261' N 111° 0.247' E) at a depth of 42 m
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 19.5044
  • longitude: 111.004

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Safety information

risk assessment

  • @ref: 20671
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20671
  • description: Mycobacterium sediminis strain YIM M13028 16S ribosomal RNA gene, partial sequence
  • accession: KC010490
  • length: 1515
  • database: ena
  • NCBI tax ID: 1286180

Genome sequences

  • @ref: 66792
  • description: Mycolicibacterium sediminis JCM 17899
  • accession: GCA_010731735
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 1286180

GC content

@refGC-contentmethod
2067164.1high performance liquid chromatography (HPLC)
3104464.1

External links

@ref: 20671

culture collection no.: DSM 45643, KCTC 19999

straininfo link

@refpassport
20218http://www.straininfo.net/strains/891897
20218http://www.straininfo.net/strains/891898

Reference

@idauthorstitledoi/urljournalpubmedcatalogueID_cross_reference
20215D.Gleim, M.Kracht, N.Weiss et. al.Prokaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes sincehttp://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.html
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
20671Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45643Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45643)
2737410.1099/ijs.0.050567-0
31044Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-1727374
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