Strain identifier

BacDive ID: 24184

Type strain: Yes

Species: Agromyces iriomotensis

Strain Designation: IY07-20

Strain history: <- M. Hamada, NBRC <- Y. Ishida

NCBI tax ID(s): 717856 (species)

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

@ref: 20272

BacDive-ID: 24184

DSM-Number: 26155

keywords: mesophilic, Bacteria, 16S sequence

description: Agromyces iriomotensis IY07-20 is a mesophilic bacterium that was isolated from soil from a pineapple field.

NCBI tax id

  • NCBI tax id: 717856
  • Matching level: species

strain history: <- M. Hamada, NBRC <- Y. Ishida

doi: 10.13145/bacdive24184.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Agromyces
  • species: Agromyces iriomotensis
  • full scientific name: Agromyces iriomotensis Hamada et al. 2014

@ref: 20272

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Agromyces

species: Agromyces iriomotensis

full scientific name: Agromyces iriomotensis Hamada et al. 2014

strain designation: IY07-20

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20272R2A MEDIUM (DSMZ Medium 830)yeshttps://bacmedia.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l Na-pyruvate 0.3 g/l K2HPO4 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
20272PP-MEDIUM (DSMZ Medium 513)yeshttps://bacmedia.dsmz.de/medium/513Name: PP-MEDIUM (DSMZ Medium 513) Composition: Agar 15.0 g/l Polypeptone 10.0 g/l Yeast extract 2.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water

culture temp

  • @ref: 20272
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Isolation, sampling and environmental information

isolation

  • @ref: 20272
  • sample type: soil from a pineapple field
  • geographic location: Okinawa, Iriomote Island
  • country: Japan
  • origin.country: JPN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)

Safety information

risk assessment

  • @ref: 20272
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20272
  • description: Agromyces iriomotensis gene for 16S ribosomal RNA, partial sequence
  • accession: AB546308
  • length: 1482
  • database: ena
  • NCBI tax ID: 717856

GC content

  • @ref: 20272
  • GC-content: 72.9
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 20272

culture collection no.: DSM 26155, NBRC 106452

straininfo link

@refpassport
20218http://www.straininfo.net/strains/894482
20218http://www.straininfo.net/strains/894480
20218http://www.straininfo.net/strains/894481

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24243967Agromyces iriomotensis sp. nov. and Agromyces subtropicus sp. nov., isolated from soil.Hamada M, Shibata C, Ishida Y, Tamura T, Yamamura H, Hayakawa M, Suzuki KIInt J Syst Evol Microbiol10.1099/ijs.0.057349-02013Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryGenetics
Phylogeny32790601Agromyces humi sp. nov., actinobacterium isolated from farm soil.Lee JC, Whang KSInt J Syst Evol Microbiol10.1099/ijsem.0.0043762020Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Farms, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Spinacia oleracea, Vitamin K 2/chemistryTranscriptome
Phylogeny34559623Agromyces mariniharenae sp. nov., a novel indole-acetic acid producing actinobacterium isolated from marine sand.Zhang Y, Zhao J, Hu J, Han C, Yu B, Wu Y, Xiao J, Wang X, Xiang WInt J Syst Evol Microbiol10.1099/ijsem.0.0050262021Acetates, Actinobacteria, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Fatty Acids/chemistry, Indoles, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, *Sand, Sequence Analysis, DNA, Vitamin K 2Transcriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
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
20272Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26155Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26155)