Strain identifier
BacDive ID: 132341
Type strain:
Species: Streptomyces alfalfae
Strain Designation: XY25
Strain history: <- CCTCC; CCTCC AA2015019
NCBI tax ID(s): 1642299 (species)
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
@ref | name | growth | link | composition |
---|---|---|---|---|
24130 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: 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 |
65213 | tryptone-yeast extract broth | yes | ||
65213 | yeast extract-malt extract agar | yes | ||
65213 | oatmeal agar | yes | ||
65213 | inorganic salts-starch agar | yes | ||
65213 | tyrosine agar | yes | ||
65213 | glycerol-asparagine agar | yes | ||
65213 | peptone-yeast extract agar | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
24130 | positive | growth | 28 | mesophilic |
65213 | positive | growth | 16-45 | |
65213 | positive | optimum | 37 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
65213 | positive | growth | 6-10 | alkaliphile |
65213 | no | growth | 5 |
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
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
65213 | NaCl | positive | growth | 0-6 % |
65213 | NaCl | no | growth | 8 %(w/v) |
observation
- @ref: 65213
- observation: The major menaquinones are MK-9(H 6 ) and MK-9(H 8 )
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
65213 | 16708 | adenine | + | degradation |
65213 | casein | + | degradation | |
65213 | 17057 | cellobiose | - | carbon source |
65213 | 17108 | D-arabinose | + | carbon source |
65213 | 17108 | D-arabinose | + | energy source |
65213 | 15824 | D-fructose | + | carbon source |
65213 | 15824 | D-fructose | + | energy source |
65213 | 12936 | D-galactose | + | builds acid from |
65213 | 12936 | D-galactose | + | carbon source |
65213 | 12936 | D-galactose | + | energy source |
65213 | 17634 | D-glucose | + | builds acid from |
65213 | 17634 | D-glucose | + | carbon source |
65213 | 17634 | D-glucose | + | energy source |
65213 | 16899 | D-mannitol | + | carbon source |
65213 | 16899 | D-mannitol | + | energy source |
65213 | 16024 | D-mannose | + | builds acid from |
65213 | 16024 | D-mannose | + | carbon source |
65213 | 16024 | D-mannose | + | energy source |
65213 | 16988 | D-ribose | + | builds acid from |
65213 | 16988 | D-ribose | + | carbon source |
65213 | 16988 | D-ribose | + | energy source |
65213 | 17924 | D-sorbitol | + | carbon source |
65213 | 17924 | D-sorbitol | + | energy source |
65213 | 65327 | D-xylose | + | carbon source |
65213 | 65327 | D-xylose | + | energy source |
65213 | 17113 | erythritol | + | carbon source |
65213 | 17113 | erythritol | + | energy source |
65213 | 4853 | esculin | + | degradation |
65213 | 28757 | fructose | + | builds acid from |
65213 | 5291 | gelatin | + | carbon source |
65213 | 5291 | gelatin | + | energy source |
65213 | 5291 | gelatin | + | hydrolysis |
65213 | 17754 | glycerol | + | builds acid from |
65213 | 17754 | glycerol | + | carbon source |
65213 | 17754 | glycerol | + | energy source |
65213 | 17368 | hypoxanthine | + | degradation |
65213 | 17268 | myo-inositol | - | carbon source |
65213 | 17196 | L-asparagine | + | nitrogen source |
65213 | 29991 | L-aspartate | + | nitrogen source |
65213 | 29985 | L-glutamate | + | nitrogen source |
65213 | 15971 | L-histidine | + | nitrogen source |
65213 | 62345 | L-rhamnose | + | carbon source |
65213 | 62345 | L-rhamnose | + | energy source |
65213 | 16857 | L-threonine | + | nitrogen source |
65213 | 17895 | L-tyrosine | + | degradation |
65213 | 17716 | lactose | + | carbon source |
65213 | 17716 | lactose | + | energy source |
65213 | 17306 | maltose | + | carbon source |
65213 | 17306 | maltose | + | energy source |
65213 | 28053 | melibiose | - | carbon source |
65213 | 16811 | methionine | - | nitrogen source |
65213 | 506227 | N-acetylglucosamine | + | builds acid from |
65213 | 506227 | N-acetylglucosamine | + | carbon source |
65213 | 506227 | N-acetylglucosamine | + | energy source |
65213 | 16634 | raffinose | + | carbon source |
65213 | 16634 | raffinose | + | energy source |
65213 | 17814 | salicin | + | carbon source |
65213 | 17814 | salicin | + | energy source |
65213 | 28017 | starch | - | hydrolysis |
65213 | 28017 | starch | + | carbon source |
65213 | 28017 | starch | + | energy source |
65213 | 17992 | sucrose | + | carbon source |
65213 | 17992 | sucrose | + | energy source |
65213 | 27082 | trehalose | + | carbon source |
65213 | 27082 | trehalose | + | energy source |
65213 | 15318 | xanthine | + | degradation |
65213 | 17151 | xylitol | + | carbon source |
65213 | 17151 | xylitol | + | energy source |
fatty acid profile
fatty acids
@ref fatty acid percentage 65213 C15:0 iso 2.9 65213 C15:0 anteiso 31.5 65213 C16:0 iso 15.4 65213 iso-C15:0 2-OH and C16:1ω6c and C16:1ω 6.2 65213 C16:0 6.3 65213 C17:1 anteiso ω9c 8.1 65213 C17:0 anteiso 14.1 65213 C18:0 0.2 - type of FA analysis: whole cell analysis
- system: MIS MIDI
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
24130 | rhizosphere soil | Shanxi province, Jingyang, alfalfa field | China | CHN | Asia |
65213 | rhizosphere soil | alfalfa field in Jingyang, Shanxi province | China | CHN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces alfalfae XY25 | GCA_004127445 | contig | ncbi | 1642299 |
66792 | Streptomyces alfalfae XY25 | GCA_004212445 | contig | ncbi | 1642299 |
GC content
- @ref: 24130
- GC-content: 71.8
- method: sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 92.283 | no |
flagellated | no | 97.592 | no |
gram-positive | yes | 91.232 | yes |
anaerobic | no | 99.36 | no |
aerobic | yes | 93.528 | no |
halophile | no | 93.542 | no |
spore-forming | yes | 96.563 | no |
thermophile | no | 98.358 | yes |
glucose-util | yes | 90.327 | yes |
glucose-ferment | no | 88.989 | no |
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
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
24130 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103384 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103384) | |||
65213 | Wenqing She, Zhongfeng Sun, Lei Yi, Shumiao Zhao, Yunxiang Liang | Streptomyces alfalfae sp. nov. and comparisons with its closest taxa Streptomyces silaceus, Streptomyces flavofungini and Streptomyces intermedius | 10.1099/ijsem.0.000671 | IJSEM 66: 44-49 2016 | 26449519 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
90687 | Reimer, 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 identifiers | 10.60712/SI-ID407969.1 |