Strain identifier

BacDive ID: 7765

Type strain: Yes

Species: Nesterenkonia xinjiangensis

Strain history: KCTC 19016 <-- W.-J. Li YIM 70097.

NCBI tax ID(s): 225327 (species)

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General

@ref: 5945

BacDive-ID: 7765

DSM-Number: 15475

keywords: genome sequence, 16S sequence, Bacteria, rod-shaped

description: Nesterenkonia xinjiangensis DSM 15475 is a rod-shaped bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 225327
  • Matching level: species

strain history

@refhistory
5945<- W.-J. Li <- CCTCC <- YIM
67770KCTC 19016 <-- W.-J. Li YIM 70097.

doi: 10.13145/bacdive7765.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Nesterenkonia
  • species: Nesterenkonia xinjiangensis
  • full scientific name: Nesterenkonia xinjiangensis Li et al. 2004

@ref: 5945

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Nesterenkonia

species: Nesterenkonia xinjiangensis

full scientific name: Nesterenkonia xinjiangensis Li et al. 2004

type strain: yes

Morphology

cell morphology

@refcell shapemotilityconfidencegram stain
30096rod-shapedno
69480no92.5
6948091.185positive

pigmentation

  • @ref: 30096
  • production: no

Culture and growth conditions

culture medium

  • @ref: 5945
  • name: MODIFIED ISP5 MEDIUM (DSMZ Medium 993b)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/993b
  • composition: Name: MODIFIED ISP5 MEDIUM (DSMZ Medium 993b) Composition: KCl 100.0 g/l Agar 20.0 g/l Glycerol 10.0 g/l Yeast extract 5.0 g/l L-Asparagine 1.0 g/l K2HPO4 1.0 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water

culture temp

@refgrowthtypetemperature
5945positivegrowth28
30096positivegrowth20-40
30096positiveoptimum28
67770positivegrowth28

culture pH

@refabilitytypepHPH range
30096positivegrowth07-12alkaliphile
30096positiveoptimum9.5

Physiology and metabolism

spore formation

@refspore formationconfidence
30096no
69481no90

halophily

@refsaltgrowthtested relationconcentration
30096NaClpositivegrowth0-25 %
30096NaClpositiveoptimum10 %

murein

  • @ref: 5945
  • murein short key: A11.56
  • type: A4alpha L-Lys-Gly-L-Glu

observation

  • @ref: 67770
  • observation: quinones: MK-8, MK-7, MK-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3009622599arabinose+carbon source
3009617057cellobiose+carbon source
3009623652dextrin+carbon source
3009628757fructose+carbon source
3009628260galactose+carbon source
3009617234glucose+carbon source
3009617716lactose+carbon source
3009617306maltose+carbon source
3009637684mannose+carbon source
3009633942ribose+carbon source
3009617992sucrose+carbon source
3009618222xylose+carbon source

enzymes

@refvalueactivityec
30096gelatinase+
30096urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5945soilXijiangChinaCHNAsia
67770Hypersaline soilXinjang ProvinceChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 5945
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 5945
  • description: Nesterenkonia sp. YIM 70097 16S ribosomal RNA gene, partial sequence
  • accession: AY226510
  • length: 1506
  • database: nuccore
  • NCBI tax ID: 225327

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nesterenkonia xinjiangensis strain DSM 15475225327.3wgspatric225327
66792Nesterenkonia xinjiangensis DSM 154752857419370draftimg225327
67770Nesterenkonia xinjiangensis DSM 15475GCA_013410745contigncbi225327

GC content

@refGC-contentmethod
3009666.7
6777066.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno90no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes91.185no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.544no
69480spore-formingspore-formingAbility to form endo- or exosporesno77.474no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes87.317no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95yes
69480flagellatedmotile2+Ability to perform flagellated movementno92.5no

External links

@ref: 5945

culture collection no.: DSM 15475, CCTCC AA 001025, YIM 70097, JCM 13021, KCTC 19016

straininfo link

  • @ref: 77208
  • straininfo: 132023

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15143032Nesterenkonia halotolerans sp. nov. and Nesterenkonia xinjiangensis sp. nov., actinobacteria from saline soils in the west of China.Li WJ, Chen HH, Zhang YQ, Schumann P, Stackebrandt E, Xu LH, Jiang CLInt J Syst Evol Microbiol10.1099/ijs.0.02935-02004Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Micrococcaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Peptidoglycan/chemistry, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sodium Chloride, Soil MicrobiologyGenetics
Enzymology19838860Gene cloning, expression, and characterization of a thermostable xylanase from Nesterenkonia xinjiangensis CCTCC AA001025.Kui H, Luo H, Shi P, Bai Y, Yuan T, Wang Y, Yang P, Dong S, Yao BAppl Biochem Biotechnol10.1007/s12010-009-8815-52009Amino Acid Sequence, Bacterial Proteins/*chemistry/*genetics/metabolism, *Cloning, Molecular, Endo-1,4-beta Xylanases/*chemistry/*genetics/metabolism, Enzyme Stability, Escherichia coli/genetics/metabolism, *Gene Expression, Hot Temperature, Hydrogen-Ion Concentration, Kinetics, Micrococcaceae/chemistry/*enzymology/genetics, Molecular Sequence Data, Sequence AlignmentMetabolism
Phylogeny25225260Nesterenkonia rhizosphaerae sp. nov., an alkaliphilic actinobacterium isolated from rhizosphere soil in a saline-alkaline desert.Wang HF, Zhang YG, Chen JY, Hozzein WN, Li L, Wadaan MAM, Zhang YM, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.066894-02014Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, *Desert Climate, Fatty Acids/chemistry, Micrococcaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryGenetics
Phylogeny25389152Nesterenkonia alkaliphila sp. nov., an alkaliphilic, halotolerant actinobacteria isolated from the western Pacific Ocean.Zhang G, Zhang Y, Yin X, Wang SInt J Syst Evol Microbiol10.1099/ijs.0.065623-02014Actinobacteria/genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Micrococcaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Pacific Ocean, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26813578Nesterenkonia aurantiaca sp. nov., an alkaliphilic actinobacterium isolated from Antarctica.Finore I, Orlando P, Di Donato P, Leone L, Nicolaus B, Poli AInt J Syst Evol Microbiol10.1099/ijsem.0.0009172016

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5945Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15475)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15475
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
30096Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2645228776041
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
77208Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132023.1StrainInfo: A central database for resolving microbial strain identifiers