Strain identifier

BacDive ID: 158643

Type strain: Yes

Species: Micromonospora globbae

Strain Designation: WPS1-2

Strain history: S. Tanasupawat; Chulalongkorn Univ., Thailand; WPS1-2.

NCBI tax ID(s): 1894969 (species)

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General

@ref: 65368

BacDive-ID: 158643

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

description: Micromonospora globbae WPS1-2 is an aerobe, spore-forming, mesophilic bacterium that was isolated from roots of Globba winitii C. H. Wright.

NCBI tax id

  • NCBI tax id: 1894969
  • Matching level: species

strain history

@refhistory
67771<- Somboon Tanasupawat
67770S. Tanasupawat; Chulalongkorn Univ., Thailand; WPS1-2.

doi: 10.13145/bacdive158643.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Micromonospora
  • species: Micromonospora globbae
  • full scientific name: Micromonospora globbae Kuncharoen et al. 2018

@ref: 65368

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Micromonosporales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora globbae

strain designation: WPS1-2

type strain: yes

Morphology

cell morphology

  • @ref: 65368
  • gram stain: positive

colony morphology

  • @ref: 65368
  • colony color: vivid orange-yellow
  • incubation period: 14 days
  • medium used: ISP2

multicellular morphology

  • @ref: 65368
  • forms multicellular complex: yes
  • medium name: ISP2
  • further description: mesophilic actinomycete which forms single spores (1.1 – 1.2 µm) directly on substrate mycelium.

Culture and growth conditions

culture medium

  • @ref: 65368
  • name: ISP2
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
65368positiveoptimum30-37mesophilic
67770positivegrowth28mesophilic
67771positivegrowth28mesophilic

culture pH

  • @ref: 65368
  • ability: positive
  • type: growth
  • pH: 5-9
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65368aerobe
67771aerobe

spore formation

  • @ref: 65368
  • spore description: single spores (1.1-1.2 µm)
  • spore formation: yes

halophily

  • @ref: 65368
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 3 %(w/v)

observation

@refobservation
65368Whole-cell hydrolysates contain ribose, xylose, arabinose and glucose
67770quinones: MK-10(H8), MK-10(H10)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6536817057cellobiose-carbon source
6536815824D-fructose-carbon source
6536816899D-mannitol+carbon source
6536865327D-xylose-carbon source
6536828260galactose-carbon source
653685291gelatin-hydrolysis
6536817234glucose+carbon source
6536817754glycerol+carbon source
6536830849L-arabinose-carbon source
6536837684mannose+carbon source
6536817268myo-inositol+carbon source
6536817632nitrate-reduction
6536816634raffinose+carbon source
6536826546rhamnose-carbon source
6536833942ribose-carbon source
6536817814salicin+carbon source
65368skimmed milk+assimilation
6536827922sorbose-carbon source
6536828017starch+hydrolysis
6536817992sucrose+carbon source

enzymes

@refvalueactivityec
65368alpha-chymotrypsin+3.4.21.1
65368alpha-galactosidase+3.2.1.22
65368alpha-glucosidase+3.2.1.20
65368beta-galactosidase+3.2.1.23
65368N-acetyl-beta-glucosaminidase+3.2.1.52
65368leucine arylamidase+3.4.11.1
65368trypsin+3.4.21.4
65368alkaline phosphatase+3.1.3.1
65368esterase (C 4)+
65368esterase Lipase (C 8)+
65368valine arylamidase+
65368acid phosphatase+3.1.3.2
65368naphthol-AS-BI-phosphohydrolase+
65368beta-glucosidase+3.2.1.21
65368lipase (C 14)-
65368cystine arylamidase-3.4.11.3
65368beta-glucuronidase-3.2.1.31
65368alpha-mannosidase-3.2.1.24
65368alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65368C16:01.8
    65368C17:05.5
    65368C18:01.1
    65368C16:1 2OH0.5
    65368C15:1ω6c0.6
    65368C17:1ω8c5.6
    65368C18:1ω9c1
    65368C15:1 iso G3.4
    65368C16:1 iso G2.3
    65368C17:1 anteiso ω9c1.1
    65368C14:0 iso1.3
    65368C15:0 iso27.6
    65368C15:0 anteiso10.3
    65368C16:0 iso14.1
    65368C17:0 iso6.1
    65368C17:0 anteiso9.9
    6536810-Methyl C17:01.5
    65368C16:1ω7c or C16:1ω6c1.3
    6536810-methyl C16:0 or iso-C17:1ω9c1.4
  • type of FA analysis: whole cell analysis
  • incubation medium: yeast extract-dextrose broth
  • incubation temperature: 30
  • incubation time: 7
  • software version: Sherlock 6.2B
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedurehost species
65368roots of Globba winitii C. H. Wrightbotanical garden of the Faculty of Pharmaceutical Sciences, Chulalongkorn University, BangkokThailandTHAAsiastarch casein gellan gum mediumsupplemented with 25 µg nalidixic acid ml-1 and 50 µg cycloheximide ml-121 days30The root samples were cut to 2 cm in length, then soaked in 75 % (v/v) ethanol for 3 min and subsequently immersed in 3 % (v/v) NaOCl for 10 min. Surface-sterilized roots were washed three times with sterile distilled water. The roots were soaked in 10 % (w/v) NaHCO3 for 10 min to disrupt root tissues and delay the growth of fungi. The roots were crushed with 4 % (w/v) sucrose solution in a sterile motar. The crushed roots suspension was incubated at 60 C in a water bath for 10 min. The suspen
67770Roots of Globba winitii C. H. Wright from the botanical garden of the Fac. of Pharm. Sci.Chulalongkorn Univ., BangkokThailandTHAAsiaGlobba winitii
67771from a root of `Globba winitii`ThailandTHAAsia

isolation source categories

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

Sequence information

16S sequences

  • @ref: 65368
  • description: 16S rRNA gene sequence
  • accession: LC177396
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Micromonospora globbae WPS1-22867302475draftimg1894969
67770Micromonospora globbae WPS1-2GCA_003610785contigncbi1894969

GC content

  • @ref: 65368
  • GC-content: 73.7
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 65368

culture collection no.: KCTC 39787, NBRC 112325, TISTR 2405, JCM 32902

literature

  • topic: Phylogeny
  • Pubmed-ID: 29458491
  • title: Micromonospora globbae sp. nov., an endophytic actinomycete isolated from roots of Globba winitii C. H. Wright.
  • authors: Kuncharoen N, Pittayakhajonwut P, Tanasupawat S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002625
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Micromonospora/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Vitamin K 2/chemistry, Zingiberaceae/*microbiology
  • 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
65368Nattakorn Kuncharoen, Pattama Pittayakhajonwut, Somboon TanasupawatMicromonospora globbae sp. nov., an endophytic actinomycete isolated from roots of Globba winitii C. H. Wright10.1099/ijsem.0.002625IJSEM 68: 1073-1077 201829458491
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc