Strain identifier

BacDive ID: 159717

Type strain: Yes

Species: Streptomyces geranii

Strain Designation: A301

Strain history: Y. Tian; Sichuan Univ., China; A301.

NCBI tax ID(s): 2058923 (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 8.1 (current version)

General

@ref: 66617

BacDive-ID: 159717

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

description: Streptomyces geranii A301 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from root of Geranium carolinianum.

NCBI tax id

  • NCBI tax id: 2058923
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y. Tian; Sichuan Univ., China; A301.

doi: 10.13145/bacdive159717.20230509.8.1

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 geranii
  • full scientific name: Streptomyces geranii Li et al. 2018

@ref: 66617

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Streptomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces geranii

strain designation: A301

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
66617positive
69480no93.519
69480positive100

multicellular morphology

  • @ref: 66617
  • forms multicellular complex: yes
  • complex color: white or greyish white or light grey
  • medium name: ISP1, ISP5, NA, modified Bennett's, Czapek's media, ISP2, ISP3, ISP4
  • further description: actinomycete with an extensively branched substrate and aerial mycelia which can differentiate into flexuous spore chains with smooth-surfaced spores. The aerial mycelia appeared white on ISP 1, ISP 5, NA, modified Bennett's and Czapek's media, greyish white on ISP 2, greyish on ISP 3 and light grey on ISP 4.

Culture and growth conditions

culture medium

@refnamegrowthcomposition
66617Czapek's agaryes
66617ISP 1yes
66617ISP 2yes
66617ISP 3yes
66617ISP 4yes
66617ISP 5yes
66617modified Bennett's agaryes(1 g yeast extract, 1 g beef extract, 2 g casein peptone, 10 g glycerol, 15 g agar, 1 l distilled water; pH 7.0-7.2)
66617Nutrient agar (NA)yes

culture temp

@refgrowthtypetemperaturerange
66617positiveoptimum28mesophilic
66617positivegrowth10-37
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
66617positiveoptimum7
66617positivegrowth6-11alkaliphile

Physiology and metabolism

spore formation

@refspore descriptiontype of sporespore formationconfidence
66617flexuous spore chains with smooth-surfaced sporessporeyes
69480yes100
69481yes100

halophily

  • @ref: 66617
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %(w/v)

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8)

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
66617milk+assimilation
66617galactitol-carbon source16813
66617maltose-carbon source17306
66617D-sorbitol-carbon source17924
66617L-arabinose-carbon source30849
66617D-galactose+carbon source12936
66617D-fructose+carbon source15824
66617D-ribose+carbon source16988
66617cellobiose+carbon source17057
66617glucose+carbon source17234
66617myo-inositol+carbon source17268
66617lactose+carbon source17716
66617glycerol+carbon source17754
66617sucrose+carbon source17992
66617starch+carbon source28017
66617mannitol+carbon source29864
66617sodium citrate+carbon source53258
66617L-rhamnose+carbon source62345
66617D-xylose+carbon source65327
66617tween 60-degradation53425
66617tween 80-degradation53426
66617cellulose-degradation62968
66617tween 20+degradation53424
66617glucose-fermentation17234
66617starch+hydrolysis28017
66617L-methionine-nitrogen source16643
66617L-threonine-nitrogen source16857
66617glycine+nitrogen source15428
66617L-histidine+nitrogen source15971
66617L-valine+nitrogen source16414
66617L-arginine+nitrogen source16467
66617creatine+nitrogen source16919
66617L-alanine+nitrogen source16977
66617L-serine+nitrogen source17115
66617L-asparagine+nitrogen source17196
66617L-proline+nitrogen source17203
66617L-phenylalanine+nitrogen source17295
66617L-tyrosine+nitrogen source17895
66617L-lysine+nitrogen source18019
66617L-aspartate+nitrogen source29991
66617nitrate-reduction17632

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
6661717698chloramphenicolyesyes30 µg (disc)
66617100241ciprofloxacinyesyes5 µg (disc)
6661748923erythromycinyesyes15 µg (disc)
6661717833gentamicinyesyes10 µg (disc)
666176104kanamycinyesyes15 µg (disc)
66617100246norfloxacinyesyes10 µg (disc)
6661728368novobiocinyesyes5 µg (disc)
666177809oxacillinyesyes1 µg (disc)
6661717334penicillinyesyes10 Unit (disc)
666178232piperacillinyesyes100 µg (disc)
666178309polymyxin byesyes30 µg (disc)
6661717076streptomycinyesyes10 µg (disc)
6661727902tetracyclineyesyes30 µg (disc)
6661728001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
6661716136hydrogen sulfideyes
6661715688acetoinno
6661789634melaninno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
6661717234glucose-
6661715688acetoin-

enzymes

@refvalueactivityec
66617catalase+1.11.1.6
66617cytochrome oxidase+1.9.3.1
66617urease+3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66617C15:0 anteiso13
    66617C13:0 anteiso0.5
    66617C13:00.5
    66617C18:1 w8c0.5
    66617C14:01.2
    66617C15:016.1
    66617C16:016.1
    66617C16:0 iso19.5
    66617C17:0 cyclo w7c2.3
    66617C18:02.7
    66617C17:03.4
    66617C17:1 iso w5c3.4
    66617C14:0 iso5.3
    66617C17:0 anteiso6.1
    66617C16:1 w7c8.7
  • type of FA analysis: whole cell analysis
  • incubation medium: tryptic soy broth
  • agar/liquid: liquid
  • incubation temperature: 28
  • incubation time: 6
  • library/peak naming table: NIST 05
  • system: MIS MIDI
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
66617root of Geranium carolinianumGeranium carolinianumMount EmeiChinaCHNAsiawater-yeast extract agarsupplemented with actidione (50 mg l-1) and nalidixic acid (25 mg l-1)2-6 weeks28fresh root tissue samples were air-dried, washed completely and surface-sterilized, as described by Coombs and Franco. Surface-sterilized roots were cut aseptically into small pieces and then distributed onto water-yeast extract agar and cultured at 28°C for 2-6 weeks
67770Root of Geranium carolinianumGeranium carolinianumMount Emei, south-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root (Rhizome)

Sequence information

16S sequences

  • @ref: 66617
  • description: Streptomyces sp. strain A301 16S ribosomal RNA gene, partial sequence
  • accession: MF100124
  • length: 1551
  • database: ena
  • NCBI tax ID: 2058923

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces geranii A3012862674093draftimg2058923
67770Streptomyces geranii A301GCA_002954775scaffoldncbi2058923

GC content

  • @ref: 66617
  • GC-content: 70.5
  • method: genome sequence analysis

Genome-based predictions

predictions

  • trait: spore-forming
  • prediction: yes
  • confidence: 100
  • training_data: no

External links

@ref: 66617

culture collection no.: CGMCC 4.7422, JCM 32177

literature

  • topic: Phylogeny
  • Pubmed-ID: 29944094
  • title: Streptomyces geranii sp. nov., a novel endophytic actinobacterium isolated from root of Geranium carolinianum L.
  • authors: Li X, Lai X, Gan L, Long X, Hou Y, Zhang Y, Tian Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002876
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geranium/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

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
66617Xiaoguang Li, Xinting Lai, Longzhan Gan, Xiufeng Long, Yanyan Hou, Yuqing Zhang, Yongqiang TianStreptomyces geranii sp. nov., a novel endophytic actinobacterium isolated from root of Geranium carolinianum L.10.1099/ijsem.0.002876IJSEM 68: 2562-2567 201829944094
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/
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