Strain identifier

BacDive ID: 132341

Type strain: Yes

Species: Streptomyces alfalfae

Strain Designation: XY25

Strain history: <- CCTCC; CCTCC AA2015019

NCBI tax ID(s): 1642299 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 24130

BacDive-ID: 132341

DSM-Number: 103384

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

description: Streptomyces alfalfae XY25 is an aerobe, spore-forming, mesophilic bacterium that builds branched substrate mycelia and aerial and was isolated from rhizosphere soil.

NCBI tax id

  • NCBI tax id: 1642299
  • Matching level: species

strain history

  • @ref: 24130
  • history: <- CCTCC; CCTCC AA2015019

doi: 10.13145/bacdive132341.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces alfalfae
  • full scientific name: Streptomyces alfalfae She et al. 2016

@ref: 24130

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces alfalfae

full scientific name: Streptomyces alfalfae She et al. 2016

strain designation: XY25

type strain: yes

Morphology

cell morphology

  • @ref: 65213
  • gram stain: positive

colony morphology

  • @ref: 65213
  • colony color: light brown
  • medium used: yeast extract-malt extract agar

multicellular morphology

  • @ref: 65213
  • forms multicellular complex: yes
  • complex name: branched substrate mycelia and aerial
  • complex color: white in most media

multimedia

  • @ref: 24130
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_103384.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24130GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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
65213tryptone-yeast extract brothyes
65213yeast extract-malt extract agaryes
65213oatmeal agaryes
65213inorganic salts-starch agaryes
65213tyrosine agaryes
65213glycerol-asparagine agaryes
65213peptone-yeast extract agaryes

culture temp

@refgrowthtypetemperaturerange
24130positivegrowth28mesophilic
65213positivegrowth16-45
65213positiveoptimum37mesophilic

culture pH

@refabilitytypepHPH range
65213positivegrowth6-10alkaliphile
65213nogrowth5

Physiology and metabolism

oxygen tolerance

  • @ref: 65213
  • oxygen tolerance: aerobe

spore formation

  • @ref: 65213
  • spore description: long flexuous spore chains with a smooth surface and long rod-shaped spores
  • type of spore: spore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
65213NaClpositivegrowth0-6 %
65213NaClnogrowth8 %(w/v)

observation

  • @ref: 65213
  • observation: The major menaquinones are MK-9(H 6 ) and MK-9(H 8 )

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6521316708adenine+degradation
65213casein+degradation
6521317057cellobiose-carbon source
6521317108D-arabinose+carbon source
6521317108D-arabinose+energy source
6521315824D-fructose+carbon source
6521315824D-fructose+energy source
6521312936D-galactose+builds acid from
6521312936D-galactose+carbon source
6521312936D-galactose+energy source
6521317634D-glucose+builds acid from
6521317634D-glucose+carbon source
6521317634D-glucose+energy source
6521316899D-mannitol+carbon source
6521316899D-mannitol+energy source
6521316024D-mannose+builds acid from
6521316024D-mannose+carbon source
6521316024D-mannose+energy source
6521316988D-ribose+builds acid from
6521316988D-ribose+carbon source
6521316988D-ribose+energy source
6521317924D-sorbitol+carbon source
6521317924D-sorbitol+energy source
6521365327D-xylose+carbon source
6521365327D-xylose+energy source
6521317113erythritol+carbon source
6521317113erythritol+energy source
652134853esculin+degradation
6521328757fructose+builds acid from
652135291gelatin+carbon source
652135291gelatin+energy source
652135291gelatin+hydrolysis
6521317754glycerol+builds acid from
6521317754glycerol+carbon source
6521317754glycerol+energy source
6521317368hypoxanthine+degradation
6521317268myo-inositol-carbon source
6521317196L-asparagine+nitrogen source
6521329991L-aspartate+nitrogen source
6521329985L-glutamate+nitrogen source
6521315971L-histidine+nitrogen source
6521362345L-rhamnose+carbon source
6521362345L-rhamnose+energy source
6521316857L-threonine+nitrogen source
6521317895L-tyrosine+degradation
6521317716lactose+carbon source
6521317716lactose+energy source
6521317306maltose+carbon source
6521317306maltose+energy source
6521328053melibiose-carbon source
6521316811methionine-nitrogen source
65213506227N-acetylglucosamine+builds acid from
65213506227N-acetylglucosamine+carbon source
65213506227N-acetylglucosamine+energy source
6521316634raffinose+carbon source
6521316634raffinose+energy source
6521317814salicin+carbon source
6521317814salicin+energy source
6521328017starch-hydrolysis
6521328017starch+carbon source
6521328017starch+energy source
6521317992sucrose+carbon source
6521317992sucrose+energy source
6521327082trehalose+carbon source
6521327082trehalose+energy source
6521315318xanthine+degradation
6521317151xylitol+carbon source
6521317151xylitol+energy source

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65213C15:0 iso2.9
    65213C15:0 anteiso31.5
    65213C16:0 iso15.4
    65213iso-C15:0 2-OH and C16:1ω6c and C16:1ω6.2
    65213C16:06.3
    65213C17:1 anteiso ω9c8.1
    65213C17:0 anteiso14.1
    65213C18:00.2
  • type of FA analysis: whole cell analysis
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
24130rhizosphere soilShanxi province, Jingyang, alfalfa fieldChinaCHNAsia
65213rhizosphere soilalfalfa field in Jingyang, Shanxi provinceChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host Body-Site#Plant#Rhizosphere
#Host#Plants

Safety information

risk assessment

  • @ref: 24130
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24130
  • description: Streptomyces alfalfae 16S ribosomal RNA gene, partial sequence
  • accession: KR080524
  • length: 1487
  • database: ena
  • NCBI tax ID: 1642299

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces alfalfae XY25GCA_004127445contigncbi1642299
66792Streptomyces alfalfae XY25GCA_004212445contigncbi1642299

GC content

  • @ref: 24130
  • GC-content: 71.8
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.283no
flagellatedno97.592no
gram-positiveyes91.232yes
anaerobicno99.36no
aerobicyes93.528no
halophileno93.542no
spore-formingyes96.563no
thermophileno98.358yes
glucose-utilyes90.327yes
glucose-fermentno88.989no

External links

@ref: 24130

culture collection no.: DSM 103384, CCTCC AA 2015019, KCTC 39571

straininfo link

  • @ref: 90687
  • straininfo: 407969

literature

  • topic: Phylogeny
  • Pubmed-ID: 26449519
  • title: Streptomyces alfalfae sp. nov. and comparisons with its closest taxa Streptomyces silaceus, Streptomyces flavofungini and Streptomyces intermedius.
  • authors: She W, Sun Z, Yi L, Zhao S, Liang Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000671
  • year: 2015
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Medicago/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Genetics

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
24130Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103384Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103384)
65213Wenqing She, Zhongfeng Sun, Lei Yi, Shumiao Zhao, Yunxiang LiangStreptomyces alfalfae sp. nov. and comparisons with its closest taxa Streptomyces silaceus, Streptomyces flavofungini and Streptomyces intermedius10.1099/ijsem.0.000671IJSEM 66: 44-49 201626449519
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
90687Reimer, 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-ID407969.1