Strain identifier

BacDive ID: 13413

Type strain: Yes

Species: Umezawaea tangerina

Strain Designation: MK27-91F2

Strain history: M. Hamada MK27-91F2 (IMC A-0190).

NCBI tax ID(s): 84725 (species)

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General

@ref: 12039

BacDive-ID: 13413

DSM-Number: 44720

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

description: Umezawaea tangerina MK27-91F2 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 84725
  • Matching level: species

strain history

@refhistory
12039<- NBRC <- M. Hamada; MK27-91F2
67770M. Hamada MK27-91F2 (IMC A-0190).

doi: 10.13145/bacdive13413.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Umezawaea
  • species: Umezawaea tangerina
  • full scientific name: Umezawaea tangerina (Kinoshita et al. 2000) Labeda and Kroppenstedt 2007

  • synonyms

    • @ref: 20215
    • synonym: Saccharothrix tangerinus

@ref: 12039

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Umezawaea

species: Umezawaea tangerina

full scientific name: Umezawaea tangerina (Kinoshita et al. 2000) Labeda and Kroppenstedt 2007 emend. Nouioui et al. 2018

strain designation: MK27-91F2

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.758
69480100positive

colony morphology

@refcolony colormedium used
69360Brown beige (1011)suter with tyrosine
69360Brown beige (1011)suter without tyrosine
69360Beige (1001)ISP 2
69360Ivory (1014), brown beige (1011)ISP 4
69360Ivory (1014), light ivory (1015)ISP 7
69360Sand yellow (1002)ISP 5
69360Sand yellow (1002)ISP 6
69360Sand yellow (1002), ivory (1014)ISP 3

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69360yesAerial myceliumCream (9001)ISP 2
69360yesAerial myceliumCream (9001)ISP 3
69360yesAerial myceliumOyster white (1013)ISP 4
69360yesAerial myceliumCream (9001)ISP 5
69360noAerial myceliumISP 6
69360noAerial myceliumISP 7
69360noAerial myceliumsuter with tyrosine
69360noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69360noMelanin
69360yessoluble pigmentBeige (1001)

multimedia

@refmultimedia contentcaptionintellectual property rights
69360DSM_44720_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69360DSM_44720_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12039N-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
12039GYM 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

culture temp

@refgrowthtypetemperaturerange
12039positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 12039
  • compound: formamicin

halophily

  • @ref: 69360
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-10(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836927689decanoate-assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
6936022599arabinose+growth
6936062968cellulose+/-growth
6936028757fructose+growth
6936017234glucose+growth
6936017268inositol+growth
6936037684mannose+growth
6936016634raffinose+growth
6936026546rhamnose+/-growth
6936017992sucrose+/-growth
6936018222xylose+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

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
67770formamicinyes

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

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
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
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
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69360-+-+-++++-+--------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
12039-++/-++/-++/-+/--+++++-++/-++/--
69360++/-++++/-+/-++++++-++++-

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
12039-----+++++/-+/-+++/-+/--+/-++/-+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12039soilTokyoJapanJPNAsia
67770SoilSetagaya-ku, TokyoJapanJPNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 12039
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 12039
  • description: Umezawaea tangerina gene for 16S rRNA, strain: MK27-91F2
  • accession: AB020031
  • length: 1475
  • database: ena
  • NCBI tax ID: 84725

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Umezawaea tangerina strain DSM 4472084725.8wgspatric84725
66792Umezawaea tangerina DSM 447202728369483draftimg84725
67770Umezawaea tangerina NRRL B-24463GCA_000715895scaffoldncbi84725
67770Umezawaea tangerina DSM 44720GCA_003002815scaffoldncbi84725

GC content

@refGC-contentmethod
1203974high performance liquid chromatography (HPLC)
6777071.6genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.063no
flagellatedno97.192no
gram-positiveyes87.844no
anaerobicno99.417no
halophileno91.732no
spore-formingyes93.167no
thermophileno99.382yes
glucose-utilyes89.152yes
aerobicyes93.016no
glucose-fermentno92.56no

External links

@ref: 12039

culture collection no.: DSM 44720, AS 4.1711, ATCC BAA 481, FERM P-16053, IFO 16184, JCM 10302, NBRC 16184, NRRL B-24463, CGMCC 4.1711

straininfo link

  • @ref: 82610
  • straininfo: 100942

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18048721Proposal of Umezawaea gen. nov., a new genus of the Actinosynnemataceae related to Saccharothrix, and transfer of Saccharothrix tangerinus Kinoshita et al. 2000 as Umezawaea tangerina gen. nov., comb. nov.Labeda DP, Kroppenstedt RMInt J Syst Evol Microbiol10.1099/ijs.0.64985-02007Actinomycetales/chemistry/*classification/cytology/*genetics, Carbohydrates/analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Spores, Bacterial/cytology, Vitamin K 2/analysisTranscriptome
Phylogeny26228842Umezawaea endophytica sp. nov., isolated from tobacco root samples.Chu X, Liu BB, Gao R, Zhang ZY, Duan YQ, Nimaichand S, Chen W, Li WJAntonie Van Leeuwenhoek10.1007/s10482-015-0522-32015Actinobacteria/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Tobacco/*microbiology, Vitamin K 2/analysisGenetics
Phylogeny35212620Solihabitans fulvus gen. nov., sp. nov., a member of the family Pseudonocardiaceae isolated from soil.Jin CZ, Jin L, Liu MJ, Lee JM, Park DJ, Kim CJInt J Syst Evol Microbiol10.1099/ijsem.0.0051102022Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12039Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44720)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44720
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/
68369Automatically annotated from API 20NE
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69360Wink, J.https://cdn.dsmz.de/wink/DSM%2044720.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
82610Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100942.1StrainInfo: A central database for resolving microbial strain identifiers