Strain identifier

BacDive ID: 11156

Type strain: Yes

Species: Nocardioides panzhihuensis

Strain history: <- KCTC; KCTC 19888

NCBI tax ID(s): 860243 (species)

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General

@ref: 18247

BacDive-ID: 11156

DSM-Number: 26487

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Nocardioides panzhihuensis DSM 26487 is a mesophilic bacterium that was isolated from stem of the oil-seed plant Jatropha curcas L..

NCBI tax id

  • NCBI tax id: 860243
  • Matching level: species

strain history

  • @ref: 18247
  • history: <- KCTC; KCTC 19888

doi: 10.13145/bacdive11156.20230509.8.1

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 panzhihuensis
  • full scientific name: Nocardioides panzhihuensis corrig. Qin et al. 2012

  • synonyms

    • @ref: 20215
    • synonym: Nocardioides panzhihuaensis

@ref: 18247

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardioidaceae

genus: Nocardioides

species: Nocardioides panzhihuensis

full scientific name: Nocardioides panzhihuensis Qin et al. 2012

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.252
69480100positive

Culture and growth conditions

culture medium

  • @ref: 18247
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: 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: 18247
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Isolation, sampling and environmental information

isolation

  • @ref: 18247
  • sample type: stem of the oil-seed plant Jatropha curcas L.
  • host species: Jatropha curcas
  • geographic location: Sichuan Province
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Stem (Branch)

taxonmaps

  • @ref: 69479
  • File name: preview.99_7662.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_3563;97_4377;98_5605;99_7662&stattab=map
  • Last taxonomy: Nocardioides
  • 16S sequence: HM153774
  • Sequence Identity:
  • Total samples: 15718
  • soil counts: 9755
  • aquatic counts: 920
  • animal counts: 2174
  • plant counts: 2869

Safety information

risk assessment

  • @ref: 18247
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18247
  • description: Nocardioides panzhihuensis strain KLBMP 1050 16S ribosomal RNA gene, partial sequence
  • accession: HM153774
  • length: 1449
  • database: ena
  • NCBI tax ID: 860243

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nocardioides panzhihuensis DSM 26487GCA_013408335contigncbi860243
66792Nocardioides panzhihuensis strain DSM 26487860243.3wgspatric860243
66792Nocardioides panzhihuensis DSM 264872833997711draftimg860243

GC content

  • @ref: 18247
  • GC-content: 70.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno68no
motileno95.922no
flagellatedno97.502no
gram-positiveyes91.182no
anaerobicno98.752no
halophileno80.857no
spore-formingno65.865no
thermophileno99.477no
glucose-utilyes89.102no
aerobicyes92.297no
glucose-fermentno91.433no

External links

@ref: 18247

culture collection no.: DSM 26487, KCTC 19888, NBRC 108680, KLBMP 1050

straininfo link

  • @ref: 80405
  • straininfo: 399974

literature

  • topic: Phylogeny
  • Pubmed-ID: 22552630
  • title: Nocardioides panzhihuaensis sp. nov., a novel endophytic actinomycete isolated from medicinal plant Jatropha curcas L.
  • authors: Qin S, Yuan B, Zhang YJ, Bian GK, Tamura T, Sun BZ, Li WJ, Jiang JH
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-012-9745-8
  • year: 2012
  • mesh: Actinomycetales/classification/genetics/*isolation & purification/metabolism, Base Composition, Endophytes/classification/genetics/*isolation & purification/metabolism, Fatty Acids/metabolism, Jatropha/*microbiology, Molecular Sequence Data, Phylogeny, Plants, Medicinal/*microbiology
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
18247Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26487)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26487
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
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)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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)
80405Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399974.1StrainInfo: A central database for resolving microbial strain identifiers