Strain identifier

BacDive ID: 8011

Type strain: Yes

Species: Micromonospora narathiwatensis

Strain Designation: BTG4-1

Strain history: C. Thawai BTG4-1.

NCBI tax ID(s): 299146 (species)

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General

@ref: 15928

BacDive-ID: 8011

DSM-Number: 45248

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

description: Micromonospora narathiwatensis BTG4-1 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from peat swamp forest soil.

NCBI tax id

  • NCBI tax id: 299146
  • Matching level: species

strain history

@refhistory
15928<- JCM/RIKEN; JCM 12394 <- C. Thawai; BTG4-1
67770C. Thawai BTG4-1.

doi: 10.13145/bacdive8011.20230509.8.1

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 narathiwatensis
  • full scientific name: Micromonospora narathiwatensis Thawai et al. 2008

@ref: 15928

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora narathiwatensis

full scientific name: Micromonospora narathiwatensis Thawai et al. 2008

strain designation: BTG4-1

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

colony morphology

@refcolony colormedium used
69379Curry (1027)suter with tyrosine
69379Ivory (1014)ISP 3
69379Khaki grey (7008), green brown (8000)suter without tyrosine
69379Khaki grey (7008), grey beige (1019)ISP 2
69379Sand yellow (1002)ISP 4
69379Sand yellow (1002), brown beige (1011)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69379noAerial myceliumISP 2
69379noAerial myceliumISP 3
69379noAerial myceliumISP 4
69379noAerial myceliumISP 5
69379noAerial myceliumISP 6
69379noAerial myceliumISP 7
69379noAerial myceliumsuter with tyrosine
69379noAerial myceliumsuter without tyrosine

pigmentation

  • @ref: 69379
  • production: yes
  • color: Beige (1001)
  • name: soluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
15928https://www.dsmz.de/microorganisms/photos/DSM_45248.jpgMedium 554 28°C© Leibniz-Institut DSMZ
69379DSM_45248_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69379DSM_45248_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15928N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://mediadive.dsmz.de/medium/554Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
15928GYM 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
15928BHI MEDIUM (DSMZ Medium 215)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium215.pdf

culture temp

@refgrowthtypetemperaturerange
15928positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes99.334

halophily

  • @ref: 69379
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %

observation

  • @ref: 67770
  • observation: quinones: MK-10(H8), MK-10(H6), MK-10(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6937922599arabinose+/-growth
6937962968cellulose-growth
6937928757fructose+growth
6937917234glucose+growth
6937917268inositol-growth
6937937684mannose+/-growth
6937916634raffinose-growth
6937926546rhamnose-growth
6937917992sucrose-growth
6937918222xylose-growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69379------+---+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69379-++-+/---+++/-+-+-+-+/---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15928peat swamp forest soilNarathiwatThailandTHAAsia
67770Peat swamp forest soilNarathiwatThailandTHAAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil
#Environmental#Terrestrial#Wetland (Swamp)
#Condition#Acidic

Safety information

risk assessment

  • @ref: 15928
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
15928Micromonospora narathiwatensis gene for 16S rRNA, partial sequence, strain: BTG4-1AB1935591509ena299146
67770Micromonospora narathiwatensis gene for 16S rRNA, partial sequence, strain: BTG1-4AB1935601494ena299146

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Micromonospora narathiwatensis DSM 45248GCA_900089605chromosomencbi299146
66792Micromonospora narathiwatensis strain DSM 45248299146.4completepatric299146
66792Micromonospora narathiwatensis DSM 452482617270834draftimg299146

GC content

@refGC-contentmethod
1592871.4-72.0
6777071.6high performance liquid chromatography (HPLC)
6777072.59genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes88.198no
anaerobicno98.843no
halophileno96.108yes
spore-formingyes90.191no
glucose-utilyes86.728yes
motileno95.387no
aerobicyes92.465no
thermophileno93.964yes
flagellatedno98.344no
glucose-fermentno93.486yes

External links

@ref: 15928

culture collection no.: DSM 45248, JCM 12394, PCU 265, TISTR 1570, NRRL B-24763

straininfo link

  • @ref: 77441
  • straininfo: 343455

literature

  • topic: Phylogeny
  • Pubmed-ID: 23677031
  • title: Micromonospora spongicola sp. nov., an actinomycete isolated from a marine sponge in the Gulf of Thailand.
  • authors: Supong K, Suriyachadkun C, Pittayakhajonwut P, Suwanborirux K, Thawai C
  • journal: J Antibiot (Tokyo)
  • DOI: 10.1038/ja.2013.35
  • year: 2013
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Micromonospora/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater, Sequence Analysis, DNA, Spores, Bacterial/cytology, Thailand
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15928Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45248)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45248
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69379Wink, J.https://cdn.dsmz.de/wink/DSM%2045248.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
77441Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID343455.1StrainInfo: A central database for resolving microbial strain identifiers