Strain identifier

BacDive ID: 132520

Type strain: Yes

Species: Nocardiopsis mwathae

Strain Designation: No.156

Strain history: <- J. K. Akhwale, Nairobi,Kenya; No.156

NCBI tax ID(s): 1472723 (species)

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General

@ref: 24309

BacDive-ID: 132520

DSM-Number: 46659

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

description: Nocardiopsis mwathae No.156 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from sediment from an alkaline, saline lake.

NCBI tax id

  • NCBI tax id: 1472723
  • Matching level: species

strain history

  • @ref: 24309
  • history: <- J. K. Akhwale, Nairobi,Kenya; No.156

doi: 10.13145/bacdive132520.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Nocardiopsidaceae
  • genus: Nocardiopsis
  • species: Nocardiopsis mwathae
  • full scientific name: Nocardiopsis mwathae Akhwale et al. 2016

@ref: 24309

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiopsaceae

genus: Nocardiopsis

species: Nocardiopsis mwathae

full scientific name: Nocardiopsis mwathae Akhwale et al. 2016

strain designation: No.156

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no96.07
69480100positive

colony morphology

@refcolony colormedium used
69459Honey yellow (1005)ISP 6
69459Ivory (1014)ISP 4
69459Lemon yellow (1012)ISP 2
69459Lemon yellow (1012)ISP 7
69459Sulfur yellow (1016)ISP 5
69459Zinc yellow (1018)ISP 3
69459Zinc yellow (1018)suter with tyrosine
69459Zinc yellow (1018)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69459yesAerial myceliumLight ivory (1015)ISP 2
69459noAerial myceliumISP 3
69459yesAerial myceliumOyster white (1013)ISP 4
69459noAerial myceliumISP 5
69459yesAerial myceliumIvory (1014)ISP 6
69459noAerial myceliumISP 7
69459noAerial myceliumsuter with tyrosine
69459noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69459noMelanin
69459nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
24309https://www.dsmz.de/microorganisms/photos/DSM_46659.jpgMedium 535 28°C© Leibniz-Institut DSMZ
69459DSM_46659_image3.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69459DSM_46659_image4.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24309TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
24309BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

  • @ref: 24309
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes97
69480yes99.653

halophily

  • @ref: 69459
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6945922599arabinose-growth
6945962968cellulose-growth
6945928757fructose+/-growth
6945917234glucose+growth
6945917268inositol+growth
6945937684mannose+growth
6945916634raffinose-growth
6945926546rhamnose-growth
6945917992sucrose-growth
6945918222xylose-growth
6837917632nitrate+reduction
683794853esculin-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-
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
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
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
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69459+-++--++-+/----------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69459++/-+/--+++/-+/-+++---+-++-

Isolation, sampling and environmental information

isolation

  • @ref: 24309
  • sample type: sediment from an alkaline, saline lake
  • geographic location: Lake Elmenteita in the African Rift Valley
  • country: Kenya
  • origin.country: KEN
  • continent: Africa

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Sediment
#Condition#Alkaline
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_104459.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_152;96_2754;97_14972;98_71134;99_104459&stattab=map
  • Last taxonomy: Nocardiopsis
  • 16S sequence: KF976731
  • Sequence Identity:
  • Total samples: 4
  • soil counts: 3
  • animal counts: 1

Safety information

risk assessment

  • @ref: 24309
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24309
  • description: Nocardiopsis mwathae strain No.156 16S ribosomal RNA gene, partial sequence
  • accession: KF976731
  • length: 1464
  • database: ena
  • NCBI tax ID: 1472723

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nocardiopsis mwathae DSM 46659GCA_014201195contigncbi1472723
66792Nocardiopsis mwathae strain DSM 466591472723.3wgspatric1472723
66792Nocardiopsis mwathae DSM 466592857398645draftimg1472723

GC content

  • @ref: 24309
  • GC-content: 71.0
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes97no
motileno92.632no
gram-positiveyes90.551no
anaerobicno98.793no
aerobicyes88.041no
halophileno51.286no
spore-formingyes90.034no
thermophileno96.881no
glucose-utilyes89.748yes
flagellatedno98.024no
glucose-fermentno93.512yes

External links

@ref: 24309

culture collection no.: DSM 46659, CECT 8552

straininfo link

  • @ref: 90846
  • straininfo: 402360

literature

  • topic: Phylogeny
  • Pubmed-ID: 26781972
  • title: Nocardiopsis mwathae sp. nov., isolated from the haloalkaline Lake Elmenteita in the African Rift Valley.
  • authors: Akhwale JK, Goker M, Rohde M, Schumann P, Boga HI, Klenk HP
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-016-0647-z
  • year: 2016
  • mesh: Actinobacteria/chemistry/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Geologic Sediments/*microbiology, *Lakes, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA
  • topic2: Phenotype

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
24309Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-46659Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46659)
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
69459Wink, J.Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweighttps://cdn.dsmz.de/wink/DSM%2046659.pdf
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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
90846Reimer, 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-ID402360.1