Strain identifier

BacDive ID: 130490

Type strain: Yes

Species: Nocardioides marmoriterrae

Strain Designation: JOS5-1

Strain history: <- S. W. Kwon, KACC; JOS5-1 <- H.-Y. Weon

NCBI tax ID(s): 1542736 (species)

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General

@ref: 21649

BacDive-ID: 130490

DSM-Number: 27141

keywords: 16S sequence, Bacteria, mesophilic

description: Nocardioides marmoriterrae JOS5-1 is a mesophilic bacterium that was isolated from soil planted with tangerine trees.

NCBI tax id

  • NCBI tax id: 1542736
  • Matching level: species

strain history

  • @ref: 21649
  • history: <- S. W. Kwon, KACC; JOS5-1 <- H.-Y. Weon

doi: 10.13145/bacdive130490.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Nocardioidaceae
  • genus: Nocardioides
  • species: Nocardioides marmoriterrae
  • full scientific name: Nocardioides marmoriterrae Wang et al. 2023

  • synonyms

    • @ref: 20215
    • synonym: Marmoricola terrae

@ref: 21649

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardioidaceae

genus: Marmoricola

species: Marmoricola terrae

full scientific name: Marmoricola terrae Kim et al. 2015

strain designation: JOS5-1

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
21649GLYCEROL-YEAST EXTRACT-PEPTONE MEDIUM (DSMZ Medium 1484)yeshttps://mediadive.dsmz.de/medium/1484Name: Glycerol-Yeast extract-Peptone Medium (DSMZ Medium 1484) Composition: Agar 15.0 g/l Yeast extract 5.0 g/l Bacto peptone 3.0 g/l Betaine 1.25 g/l Sodium pyruvate 1.25 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l ZnSO4 x 7 H2O 0.0018 g/l CoSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Pyridoxine hydrochloride 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l (DL)-alpha-Lipoic acid 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Riboflavin 5e-05 g/l Thiamine HCl 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Glycerol Distilled water
21649R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
21649GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

culture temp

  • @ref: 21649
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Isolation, sampling and environmental information

isolation

  • @ref: 21649
  • sample type: soil planted with tangerine trees
  • geographic location: Jeju Island
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Tree

taxonmaps

  • @ref: 69479
  • File name: preview.99_13248.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_723;97_7475;98_10034;99_13248&stattab=map
  • Last taxonomy: Marmoricola
  • 16S sequence: KM199639
  • Sequence Identity:
  • Total samples: 235
  • soil counts: 162
  • aquatic counts: 54
  • animal counts: 9
  • plant counts: 10

Safety information

risk assessment

  • @ref: 21649
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21649
  • description: Marmoricola terrae strain JOS5-1 16S ribosomal RNA gene, partial sequence
  • accession: KM199639
  • length: 1451
  • database: ena
  • NCBI tax ID: 1542736

GC content

  • @ref: 21649
  • GC-content: 62.9
  • method: fluorimetric

External links

@ref: 21649

culture collection no.: DSM 27141, KACC 17308, NBRC 109602

straininfo link

  • @ref: 89015
  • straininfo: 405155

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25754550Marmoricola solisilvae sp. nov. and Marmoricola terrae sp. nov., isolated from soil and emended description of the genus Marmoricola.Kim SJ, Lim JM, Hamada M, Ahn JH, Weon HY, Suzuki KI, Ahn TY, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.0001842015Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Forests, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Soil, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny31637662Nocardioides jejuensis sp. nov., isolated from soil.Jang JH, Maeng S, Jung HY, Kim MK, Subramani GAntonie Van Leeuwenhoek10.1007/s10482-019-01343-y2019DNA, Bacterial, Genome, Bacterial, Genomics/methods, Phylogeny, Propionibacterium/*classification/genetics/*isolation & purification, RNA, Ribosomal, 16S, *Soil Microbiology, Whole Genome SequencingGenetics

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
21649Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27141Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27141)
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/
89015Reimer, 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-ID405155.1