Strain identifier

BacDive ID: 24459

Type strain: Yes

Species: Actinophytocola sediminis

Strain history: BCRC 16956 <-- W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM M13705.

NCBI tax ID(s): 1476870 (species)

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

@ref: 21209

BacDive-ID: 24459

DSM-Number: 45939

keywords: 16S sequence, Bacteria, mesophilic

description: Actinophytocola sediminis DSM 45939 is a mesophilic bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 1476870
  • Matching level: species

strain history

@refhistory
21209<- W.-J. Li, YIM; YIM M13705 <- D.-F. Zhang, Yunnan University,China
67770BCRC 16956 <-- W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM M13705.

doi: 10.13145/bacdive24459.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Actinophytocola
  • species: Actinophytocola sediminis
  • full scientific name: Actinophytocola sediminis Zhang et al. 2014

@ref: 21209

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Actinophytocola

species: Actinophytocola sediminis

full scientific name: Actinophytocola sediminis Zhang et al. 2014

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 21209
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535
  • composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21209positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-10(H2)

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
21209marine sedimentSouth China Sea (112° 30.203' E 18° 1.654' N, at a depth of 2439 m)ChinaCHNAsia18.0276112.503
67770Marine sediment of the South China Sea

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_49329.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_770;97_898;98_35467;99_49329&stattab=map
  • Last taxonomy: Actinophytocola sediminis subclade
  • 16S sequence: KJ013500
  • Sequence Identity:
  • Total samples: 14
  • soil counts: 14

Safety information

risk assessment

  • @ref: 21209
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21209
  • description: Actinophytocola sediminis strain YIM M13705 16S ribosomal RNA gene, partial sequence
  • accession: KJ013500
  • length: 1528
  • database: ena
  • NCBI tax ID: 1476870

GC content

  • @ref: 21209
  • GC-content: 68.2
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 21209

culture collection no.: DSM 45939, BCRC 16956, YIM M13705, JCM 30581

straininfo link

  • @ref: 88334
  • straininfo: 399711

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24867173Actinophytocola sediminis sp. nov., an actinomycete isolated from a marine sediment.Zhang DF, Jiang Z, Zhang XM, Yang LL, Tian XP, Long LJ, Zhang S, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.062638-02014Actinomycetales/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Vitamin K 2/chemistryGenetics
Phylogeny28073395Actinophytocola xanthii sp. nov., an actinomycete isolated from rhizosphere soil of the plant Xanthium sibiricum.Wang W, Wang B, Meng H, Xing Z, Lai Q, Yuan LInt J Syst Evol Microbiol10.1099/ijsem.0.0017812017Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, Xanthium/*microbiologyTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
21209Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45939Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45939)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
88334Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID399711.1