Strain identifier

BacDive ID: 131819

Type strain: Yes

Species: Micromonospora yasonensis

Strain Designation: DS3186

Strain history: <- N. Sahin, Ondokuz Mayis Univ., Dept. of Biology, Kurupelit-Samsun, Turkey; DS3186 <- A. Veyisoglu

NCBI tax ID(s): 1128667 (species)

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General

@ref: 23614

BacDive-ID: 131819

DSM-Number: 45980

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Micromonospora yasonensis DS3186 is a mesophilic bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 1128667
  • Matching level: species

strain history

  • @ref: 23614
  • history: <- N. Sahin, Ondokuz Mayis Univ., Dept. of Biology, Kurupelit-Samsun, Turkey; DS3186 <- A. Veyisoglu

doi: 10.13145/bacdive131819.20230509.8.1

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 yasonensis
  • full scientific name: Micromonospora yasonensis Veyisoglu et al. 2017

@ref: 23614

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora yasonensis

full scientific name: Micromonospora yasonensis Veyisoglu et al. 2017

strain designation: DS3186

type strain: yes

Morphology

colony morphology

@refcolony colormedium used
69456Golden yellow (1004)ISP 3
69456Daffodil yellow (1007)ISP 2
69456ColourlessISP 7
69456ColourlessISP 4
69456ColourlessISP 5
69456Beige (1001)suter without tyrosine
69456Maize yellow (1006)suter with tyrosine
69456Sand yellow (1002)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69456noAerial myceliumISP 2
69456noAerial myceliumISP 3
69456noAerial myceliumISP 4
69456noAerial myceliumISP 5
69456noAerial myceliumISP 6
69456noAerial myceliumISP 7
69456noAerial myceliumsuter with tyrosine
69456noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69456noMelanin
69456nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69456DSM_45980_image3.jpegPlates (554, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69456DSM_45980_image4.jpegPlates (554, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
23614TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
23614GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf
23614N-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

culture temp

  • @ref: 23614
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

halophily

  • @ref: 69456
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6945622599arabinose+growth
6945662968cellulose+growth
6945628757fructose+growth
6945617234glucose+growth
6945617268inositol+growth
6945637684mannose+/-growth
6945616634raffinose+growth
6945626546rhamnose+growth
6945617992sucrose+growth
6945618222xylose+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
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
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
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69456+--+--++--+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69456++/-+/-+/-++/-+/-+-++++-+-+-+/-

Isolation, sampling and environmental information

isolation

  • @ref: 23614
  • sample type: marine sediment
  • geographic location: Black Sea coast, Yason Peninsula near Ordu
  • country: Turkey
  • origin.country: TUR
  • continent: Asia
  • latitude: 41.1333
  • longitude: 37.6833

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Safety information

risk assessment

  • @ref: 23614
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 23614
  • description: Micromonospora yasonensis 16S ribosomal RNA gene, partial sequence
  • accession: JN989295
  • length: 1452
  • database: ena
  • NCBI tax ID: 1128667

Genome sequences

  • @ref: 66792
  • description: Micromonospora yasonensis DSM 45980
  • accession: GCA_026013475
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1128667

GC content

  • @ref: 23614
  • GC-content: 73.1
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno95.197no
flagellatedno98.2no
gram-positiveyes88.995no
anaerobicno99.355no
aerobicyes94.829no
halophileno96.362no
spore-formingyes92.475no
glucose-fermentno92.599yes
thermophileno95.991yes
glucose-utilyes87.591yes

External links

@ref: 23614

culture collection no.: DSM 45980, KCTC 29433

straininfo link

  • @ref: 90210
  • straininfo: 407679

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27154186Micromonospora yasonensis sp. nov., isolated from a Black Sea sediment.Veyisoglu A, Carro L, Guven K, Cetin D, Sproer C, Schumann P, Klenk HP, Goodfellow M, Sahin NAntonie Van Leeuwenhoek10.1007/s10482-016-0701-x2016Bacterial Typing Techniques, Black Sea, DNA Gyrase/genetics, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Geologic Sediments/*microbiology, Micromonospora/*classification/genetics/*isolation & purification/metabolism, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Turkey, Vitamin K 2/analysisMetabolism
Phylogeny31596193Micromonospora deserti sp. nov., isolated from the Karakum Desert.Saygin H, Ay H, Guven K, Cetin D, Sahin NInt J Syst Evol Microbiol10.1099/ijsem.0.0037522020Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, *Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Micromonospora/*classification/isolation & purification, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, TurkmenistanTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
23614Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45980Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45980)
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
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69456Wink, J.Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweighttps://cdn.dsmz.de/wink/DSM%2045980.pdf
90210Reimer, 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-ID407679.1