Strain identifier

BacDive ID: 24206

Type strain: Yes

Species: Rothia endophytica

Strain history: S.-K. Tang YIM 67072.

NCBI tax ID(s): 1324766 (species)

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General

@ref: 20785

BacDive-ID: 24206

DSM-Number: 26247

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, ovoid-shaped

description: Rothia endophytica DSM 26247 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from surface-sterilized healthy root of Dysophylla stellata Benth..

NCBI tax id

  • NCBI tax id: 1324766
  • Matching level: species

strain history

@refhistory
20785<- S.-K. Tang, YIM; YIM 67072 <- Z. Xiong
67770S.-K. Tang YIM 67072.

doi: 10.13145/bacdive24206.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Rothia
  • species: Rothia endophytica
  • full scientific name: Rothia endophytica Xiong et al. 2013

@ref: 20785

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Rothia

species: Rothia endophytica

full scientific name: Rothia endophytica Xiong et al. 2013

type strain: yes

Morphology

cell morphology

  • @ref: 31116
  • gram stain: positive
  • cell length: 1 µm
  • cell width: 0.75 µm
  • cell shape: ovoid-shaped
  • motility: no

pigmentation

  • @ref: 31116
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 20785
  • name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/693
  • composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
20785positivegrowth30mesophilic
31116positivegrowth04-45
31116positiveoptimum35mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
31116positivegrowth05-10alkaliphile
31116positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31116
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31116
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31116NaClpositivegrowth0-7 %
31116NaClpositiveoptimum0.25 %

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3111617754glycerol+carbon source
3111617992sucrose+carbon source
3111617632nitrate+reduction

enzymes

@refvalueactivityec
31116acid phosphatase+3.1.3.2
31116alpha-galactosidase+3.2.1.22
31116catalase+1.11.1.6
31116gelatinase+
31116pyrazinamidase+3.5.1.B15

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
20785surface-sterilized healthy root of Dysophylla stellata (Lour.) Benth.Dysophylla stellataYunnan ProvinceChinaCHNAsia
67770Root of Dysophylla stellata (Lour.) Benth.Dysophylla stellataYunnan Province, south-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Aquatic plant
#Host Body-Site#Plant#Root (Rhizome)
#Host Body-Site#Plant#Sterilized plant part

Safety information

risk assessment

  • @ref: 20785
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20785
  • description: Rothia endophytica strain YIM 67072 16S ribosomal RNA gene, partial sequence
  • accession: KC806052
  • length: 1520
  • database: ena
  • NCBI tax ID: 1324766

GC content

@refGC-contentmethod
2078553.2high performance liquid chromatography (HPLC)
3111653.2

External links

@ref: 20785

culture collection no.: DSM 26247, JCM 18541, YIM 67072

straininfo link

  • @ref: 88152
  • straininfo: 399533

literature

  • topic: Phylogeny
  • Pubmed-ID: 23710050
  • title: Rothia endophytica sp. nov., an actinobacterium isolated from Dysophylla stellata (Lour.) Benth.
  • authors: Xiong ZJ, Zhang JL, Zhang DF, Zhou ZL, Liu MJ, Zhu WY, Zhao LX, Xu LH, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.052522-0
  • year: 2013
  • mesh: Bacterial Typing Techniques, Base Composition, Cardiolipins/chemistry, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lamiaceae/*microbiology, Micrococcaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
20785Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26247Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26247)
31116Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172744528776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
88152Reimer, 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-ID399533.1