Strain identifier

BacDive ID: 132519

Type strain: Yes

Species: Phytoactinopolyspora alkaliphila

Strain history: CGMCC 4.7225 <-- Y.-G. Zhang; Xinjiang Inst. of Ecol. & Geogr., CAS, China; EGI 80629.

NCBI tax ID(s): 1783498 (species)

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General

@ref: 24308

BacDive-ID: 132519

DSM-Number: 101529

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, rod-shaped

description: Phytoactinopolyspora alkaliphila DSM 101529 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from saline-alkaline desert soil.

NCBI tax id

  • NCBI tax id: 1783498
  • Matching level: species

strain history

@refhistory
24308<- Yongguang Zhang, Xinjiang Inst. of Ecol. and Geography, Chin. Acad. of Scs.; EGI80629
67770CGMCC 4.7225 <-- Y.-G. Zhang; Xinjiang Inst. of Ecol. & Geogr., CAS, China; EGI 80629.

doi: 10.13145/bacdive132519.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Jiangellales
  • family: Jiangellaceae
  • genus: Phytoactinopolyspora
  • species: Phytoactinopolyspora alkaliphila
  • full scientific name: Phytoactinopolyspora alkaliphila Zhang et al. 2016

@ref: 24308

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Jiangellaceae

genus: Phytoactinopolyspora

species: Phytoactinopolyspora alkaliphila

full scientific name: Phytoactinopolyspora alkaliphila Zhang et al. 2016

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
43661positiverod-shaped
69480no91.04
69480positive100

multimedia

  • @ref: 24308
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_101529.jpg
  • caption: Medium 535 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24308BHI MEDIUM (DSMZ Medium 215)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium215.pdf
24308TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43661positivegrowth15-45
43661positiveoptimum30mesophilic
24308positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
43661positivegrowth6-11alkaliphile
43661positiveoptimum9-10

Physiology and metabolism

oxygen tolerance

  • @ref: 43661
  • oxygen tolerance: aerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
43661short chains of spores; spore chains do not aggregate at maturitysporeyes
69481yes100
69480no92.322

halophily

@refsaltgrowthtested relationconcentration
43661NaClpositivegrowth0-13 %(w/v)
43661NaClpositiveoptimum3-5 %(w/v)

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4366116988D-ribose-carbon source
4366162968cellulose-hydrolysis
4366128017starch-hydrolysis
4366116467L-arginine-nitrogen source
4366117895L-tyrosine-nitrogen source
4366117632nitrate-reduction
4366117108D-arabinose+carbon source
4366115824D-fructose+carbon source
4366112936D-galactose+carbon source
4366117634D-glucose+carbon source
4366116024D-mannose+carbon source
4366117924D-sorbitol+carbon source
4366117151xylitol+carbon source
4366165327D-xylose+carbon source
4366117754glycerol+carbon source
4366117268myo-inositol+carbon source
4366162345L-rhamnose+carbon source
4366117266L-sorbose+carbon source
4366117716lactose+carbon source
4366125115malate+carbon source
4366117306maltose+carbon source
4366116634raffinose+carbon source
4366153258sodium citrate+carbon source
4366150144sodium pyruvate+carbon source
4366117992sucrose+carbon source
4366127082trehalose+carbon source
436615291gelatin+hydrolysis
4366153424tween 20+hydrolysis
4366153423tween 40+hydrolysis
4366153425tween 60+hydrolysis
4366153426tween 80+hydrolysis
4366116449dl-alanine+nitrogen source
4366117196L-asparagine+nitrogen source
4366129991L-aspartate+nitrogen source
4366116283L-cystine+nitrogen source
4366129985L-glutamate+nitrogen source
4366115971L-histidine+nitrogen source
4366117191L-isoleucine+nitrogen source
4366118019L-lysine+nitrogen source
4366116643L-methionine+nitrogen source
4366117295L-phenylalanine+nitrogen source
4366117115L-serine+nitrogen source
4366116857L-threonine+nitrogen source
4366116828L-tryptophan+nitrogen source
4366116414L-valine+nitrogen source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
43661124991cefalotinyesyes30 µg
436619215spectinomycinyesyes100 µg
4366117076streptomycinyesyes10 µg
4366128001vancomycinyesyes30 µg
4366128971ampicillinyesyes10 µg (disc)
4366117698chloramphenicolyesyes30 µg (disc)
4366117833gentamicinyesyes10 µg (disc)
436616472lincomycinyesyes2 µg (disc)
4366128368novobiocinyesyes30 µg (disc)
4366118208penicillin gyesyes10 µg (disc)
436618309polymyxin byesyes300 µg (disc)
436612652amphotericin byesyes30 µg (disc)
436612955azithromycinyesyes15 µg
436613732clarithromycinyesyes15 µg
4366148923erythromycinyesyes15 µg
436616104kanamycinyesyes30 µg
436617507neomycinyesyes30 µg
4366148844roxithromycinyesyes15 µg
4366127902tetracyclineyesyes30 µg

metabolite production

  • @ref: 43661
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
43661catalase+1.11.1.6
43661cytochrome oxidase-1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
24308saline-alkaline desert soilGurbantünggüt Desert, Xinjiang, KaramayChinaCHNAsia
43661A soi sample collected in KaramayKaramay, XinjiangChinaCHNAsia
67770Soil in KaramayXinjiang, north-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Desert
#Condition#Alkaline
#Condition#Saline
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_20549.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_10433;97_12613;98_15525;99_20549&stattab=map
  • Last taxonomy: Phytoactinopolyspora alkaliphila subclade
  • 16S sequence: KU042078
  • Sequence Identity:
  • Total samples: 164
  • soil counts: 123
  • aquatic counts: 11
  • animal counts: 27
  • plant counts: 3

Safety information

risk assessment

  • @ref: 24308
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24308
  • description: Phytoactinopolyspora alkaliphila strain EGI 80629 16S ribosomal RNA gene, partial sequence
  • accession: KU042078
  • length: 1518
  • database: ena
  • NCBI tax ID: 1783498

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Phytoactinopolyspora alkaliphila strain CGMCC 4.72251783498.3wgspatric1783498
67770Phytoactinopolyspora alkaliphila CGMCC 4.7225GCA_010550695scaffoldncbi1783498

GC content

  • @ref: 24308
  • GC-content: 67.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno86.047no
gram-positiveyes91.023yes
anaerobicno98.498no
aerobicyes92.857yes
halophileno54.702no
spore-formingyes60.372yes
thermophileno94.231no
glucose-utilyes88.014no
flagellatedno98.126no
glucose-fermentno90.183no

External links

@ref: 24308

culture collection no.: DSM 101529, CGMCC 4.7225, KCTC 39701, EGI 80629, JCM 32495

straininfo link

  • @ref: 90845
  • straininfo: 406689

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26920762Phytoactinopolyspora alkaliphila sp. nov., an alkaliphilic actinomycete isolated from a saline-alkaline soil.Zhang YG, Lu XH, Ding YB, Zhou XK, Li L, Guo JW, Wang HF, Duan YQ, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0009922016Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny28825140Phytoactinopolyspora halotolerans sp. nov., a halotolerant actinobacterium isolated from a saline soil in Xinjiang, northwest of China.Ji Y, Chunyu WX, Li EY, Ding ZG, Yin M, Zhao YR, Wang Y, Tang SKAntonie Van Leeuwenhoek10.1007/s10482-017-0923-62017Actinobacteria/chemistry/*classification/genetics/isolation & purification, China, Metabolomics/methods, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Soil/*chemistry, *Soil MicrobiologyPhenotype
Phylogeny30543502Phytoactinopolyspora halophila sp. nov., a halophilic actinomycete isolated from a saline soil.Ding ZG, Ji Y, Yin M, Zhao YR, Feng YZ, Chunyu WX, Tang SKInt J Syst Evol Microbiol10.1099/ijsem.0.0031532018Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
24308Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101529Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101529)
43661Yong-Guang Zhang, Xin-Hua Lu, Yan-Bo Ding, Xing-Kui Zhou, Li Li, Jian-Wei Guo, Hong-Fei Wang, Yan-Qing Duan, Wen-Jun LiPhytoactinopolyspora alkaliphila sp. nov., an alkaliphilic actinomycete isolated from a saline-alkaline soil10.1099/ijsem.0.000992IJSEM 66: 2058-2063 201626920762
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90845Reimer, 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-ID406689.1