Strain identifier

BacDive ID: 140935

Type strain: Yes

Species: Saccharothrix stipae

Strain Designation: D34

Strain history: Y. Lin; Northwest A&F Univ., China; D34 (=CCNWNX0220).

NCBI tax ID(s): 1049182 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 8.1 (current version)

General

@ref: 43817

BacDive-ID: 140935

keywords: 16S sequence, Bacteria, aerobe, spore-forming

description: Saccharothrix stipae D34 is an aerobe, spore-forming bacterium that was isolated from A soil sample collected from the rhizosphere of Stipa grandis at Yunwu Mountain.

NCBI tax id

  • NCBI tax id: 1049182
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y. Lin; Northwest A&F Univ., China; D34 (=CCNWNX0220).

doi: 10.13145/bacdive140935.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Saccharothrix
  • species: Saccharothrix stipae
  • full scientific name: Saccharothrix stipae Lin et al. 2016

@ref: 43817

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Pseudonocardiales

family: Pseudonocardiaceae

genus: Saccharothrix

species: Saccharothrix stipae

strain designation: D34

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowth
43817Bennett's glucose asparagine agaryes
43817Czapeck's agar mediayes
43817Gause's synthetic agaryes
43817ISP 1no
43817ISP 2yes
43817ISP 3yes
43817ISP 4yes
43817ISP 5yes
43817ISP 6no
43817ISP 7no
43817Nutrient agar (NA)yes

culture temp

@refgrowthtypetemperaturerange
43817positivegrowth28-45
43817positiveoptimum28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
43817positivegrowth5-9alkaliphile
43817positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 43817
  • oxygen tolerance: aerobe

spore formation

  • @ref: 43817
  • spore description: Spherical to oval in shape with verrucose surfaces
  • type of spore: spore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
43817NaClpositivegrowth0-6 %(w/v)
43817NaClpositiveoptimum2 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4381765327D-xylose-carbon source
4381762345L-rhamnose-carbon source
4381717716lactose-carbon source
438175291gelatin-hydrolysis
4381718186tyrosine-nitrogen source
4381717632nitrate-reduction
4381717268myo-inositol+carbon source
4381730849L-arabinose+carbon source
4381716634raffinose+carbon source
4381728017starch+carbon source
4381762968cellulose+hydrolysis
4381728017starch+hydrolysis
4381716708adenine+nitrogen source
4381716449alanine+nitrogen source
4381727570histidine+nitrogen source
4381716857L-threonine+nitrogen source
4381725017leucine+nitrogen source

metabolite production

  • @ref: 43817
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
43817cytochrome oxidase-1.9.3.1
43817catalase+1.11.1.6
43817cellulase+3.2.1.4

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudehost species
43817A soil sample collected from the rhizosphere of Stipa grandis at Yunwu MountainNingxiaChinaCHNAsia36.267106.399
67770Soil from the rhizosphere of Stipa grandis at Yunwu MountainNingxia, north-west ChinaChinaCHNAsiaStipa grandis

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_7188.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_840;97_2407;98_2976;99_7188&stattab=map
  • Last taxonomy: Saccharothrix
  • 16S sequence: JN002085
  • Sequence Identity:
  • Total samples: 141
  • soil counts: 112
  • aquatic counts: 8
  • animal counts: 13
  • plant counts: 8

Sequence information

16S sequences

  • @ref: 43817
  • description: 16S rRNA gene sequence
  • accession: JN002085
  • database: nuccore

GC content

  • @ref: 43817
  • GC-content: 74.1
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 43817

culture collection no.: JCM 30560, ACCC 19714

literature

  • topic: Phylogeny
  • Pubmed-ID: 26674086
  • title: Saccharothrix stipae sp. nov., an actinomycete isolated from the rhizosphere of Stipa grandis.
  • authors: Bing Lin Y, Qing Guo Y, Hui Di X, Chun Fan M, Hong Dong D, Hong Wei G
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000827
  • year: 2015

Reference

@idauthorstitledoi/urljournalpubmed
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
43817Yan Bing Lin, Yan Qing Guo, Xiao Hui Di, Miao Chun Fan, Dan Hong Dong, Ge Hong WeiSaccharothrix stipae sp. nov., an actinomycete isolated from the rhizosphere of Stipa grandis10.1099/ijsem.0.000827IJSEM 66: 1017-1021 201626674086
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/