Strain identifier

BacDive ID: 16550

Type strain: Yes

Species: Nonomuraea turkmeniaca

Strain Designation: 3344

Strain history: CIP <- 2001, JCM <- IFO <- INA : strain 3344

NCBI tax ID(s): 103838 (species)

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General

@ref: 11275

BacDive-ID: 16550

DSM-Number: 43926

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

description: Nonomuraea turkmeniaca 3344 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 103838
  • Matching level: species

strain history

@refhistory
11275<- IMET <- T.P. Preobrazhenskaya, INA
67770IFO 14348 <-- INA 3344.
123697CIP <- 2001, JCM <- IFO <- INA : strain 3344

doi: 10.13145/bacdive16550.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Streptosporangiaceae
  • genus: Nonomuraea
  • species: Nonomuraea turkmeniaca
  • full scientific name: Nonomuraea turkmeniaca corrig. (Terekhova et al. 1987) Zhang et al. 1998

  • synonyms

    @refsynonym
    20215Actinomadura turkmeniaca
    20215Nonomuria turkmeniaca
    20215Microtetraspora turkmeniaca

@ref: 11275

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Nonomuraea

species: Nonomuraea turkmeniaca

full scientific name: Nonomuraea turkmeniaca (Terekhova et al. 1987) Zhang et al. 1998

strain designation: 3344

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
123697positivefilament-shapedno

colony morphology

@refcolony colorincubation periodmedium used
19983Wine red (3005)10-14 daysISP 2
19983Wine red (3005)10-14 daysISP 3
19983Wine red (3005)10-14 daysISP 4
19983Oxide red (3009)10-14 daysISP 5
19983Yellow10-14 daysISP 6
19983Oxide red (3009)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium namecomplex namecomplex color
19983noISP 2
19983yesISP 3Aerial MyceliumWhite
19983yesISP 4Aerial MyceliumWhite
19983noISP 5
19983noISP 6
19983noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11275GYM 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
19983ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19983ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19983ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19983ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19983ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19983ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
37281MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
11275GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf
123697CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
11275positivegrowth37mesophilic
19983positiveoptimum28mesophilic
37281positivegrowth30mesophilic
67770positivegrowth28mesophilic
123697positivegrowth30-37mesophilic
123697nogrowth5psychrophilic
123697nogrowth15psychrophilic
123697nogrowth22psychrophilic
123697nogrowth41thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes99
69480yes100

halophily

@refsaltgrowthtested relationconcentration
19983NaClpositivemaximum2.5 %
123697NaClnogrowth0 %
123697NaClnogrowth2 %
123697NaClnogrowth4 %
123697NaClnogrowth6 %
123697NaClnogrowth8 %
123697NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2), MK-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1998317234glucose+
1998322599arabinose+/-
1998317992sucrose+/-
1998318222xylose+/-
1998317268myo-inositol+/-
1998329864mannitol+/-
1998328757fructose+/-
1998326546rhamnose+/-
1998316634raffinose+/-
1998362968cellulose+/-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
12369716947citrate-carbon source
1236974853esculin+hydrolysis
12369717632nitrate-reduction
12369716301nitrite-reduction
12369717234glucose-degradation

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12369735581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
12369715688acetoin-
12369717234glucose-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23
123697oxidase-
123697alcohol dehydrogenase-1.1.1.1
123697gelatinase+
123697catalase+1.11.1.6
123697gamma-glutamyltransferase+2.3.2.2
123697lysine decarboxylase-4.1.1.18
123697ornithine decarboxylase-4.1.1.17
123697phenylalanine ammonia-lyase-4.3.1.24
123697tryptophan deaminase-
123697urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382alpha-mannosidase+3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19983+++-+++++-+++-++++-
123697+++-+--+--+-+-+--+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19983+++-+-+--++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
11275soilTurkmenistanTKMAsia
67770SoilTurkmenistanTKMAsia
123697Environment, SoilRussian FederationRUSEurope

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
112751Risk group (German classification)
199831German classification
1236971Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Nonomuraea turkmeniaca 16S ribosomal RNA gene, partial sequence
  • accession: AF277201
  • length: 1448
  • database: ena
  • NCBI tax ID: 103838

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nonomuraea turkmeniaca DSM 43926GCA_005889735contigncbi103838
66792Nonomuraea turkmeniaca strain DSM 43926103838.3wgspatric103838

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes99no
motileno90.466no
flagellatedno97.455no
gram-positiveyes85.199no
anaerobicno98.68no
aerobicyes91.913no
halophileno92.636no
spore-formingyes94.295no
thermophileno98.094no
glucose-utilyes88.433yes
glucose-fermentno89.705no

External links

@ref: 11275

culture collection no.: DSM 43926, ATCC 49501, IFO 14348, IMET 9747, INA 3344, NBRC 14348, JCM 6836, BCRC 16339, CGMCC 4.2106, CGMCC 4.5709, CIP 107010, IMSNU 22186, KCTC 9287, NRRL B-16246, VKM Ac-852

straininfo link

  • @ref: 85580
  • straininfo: 42518

literature

topicPubmed-IDtitleauthorsjournalyearmeshtopic2DOI
Phylogeny6461291[New species, Actinomadura fulvescens sp. nov. and Actinomadura turkmeniaca sp. nov. and their antagonistic properties].Terekhova LP, Galatenko OA, Preobrazhenskaia TPAntibiotiki1982Actinomycetales/*classification/physiology, *Antibiosis, Culture Media/metabolism, Soil Microbiology, TurkmenistanCultivation
Phylogeny17636376Nonomuraea candida sp. nov., a new species from South African soil.Roes Ml, Meyers PRAntonie Van Leeuwenhoek2007Actinomycetales/classification/*genetics/ultrastructure, Microscopy, Electron, Scanning, Phylogeny, RNA, Ribosomal, 16S/*genetics, Sequence Analysis, DNA, *Soil Microbiology, South AfricaTranscriptome10.1007/s10482-007-9187-x
Phylogeny19625420Nonomuraea antimicrobica sp. nov., an endophytic actinomycete isolated from a leaf of Maytenus austroyunnanensis.Qin S, Zhao GZ, Klenk HP, Li J, Zhu WY, Xu LH, Li WJInt J Syst Evol Microbiol2009Actinobacteria/classification/genetics/*isolation & purification/physiology, Amino Acids/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Maytenus/*microbiology/physiology, Molecular Sequence Data, Phylogeny, Plant Leaves/microbiology/physiology, RNA, Ribosomal, 16S/genetics, SymbiosisGenetics10.1099/ijs.0.010660-0
Phylogeny21828009Nonomuraea jiangxiensis sp. nov., isolated from acidic soil.Li X, Zhang L, Ding Y, Gao Y, Ruan J, Huang YInt J Syst Evol Microbiol2011Acids/*metabolism, Actinomycetales/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil/analysis, *Soil MicrobiologyMetabolism10.1099/ijs.0.034520-0
Phylogeny22389281Nonomuraea jabiensis sp. nov., isolated from arid soil.Camas M, Sazak A, Sproer C, Klenk HP, Cetin D, Guven K, Sahin NInt J Syst Evol Microbiol2012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nigeria, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics10.1099/ijs.0.039362-0
Phylogeny26289724Nonomuraea flavida sp. nov., a novel species of soil actinomycete isolated from Aconitum napellus rhizosphere.Chen S, Shi J, Li D, Wu Y, Huang YInt J Syst Evol Microbiol2015Aconitum/*microbiology, Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryTranscriptome10.1099/ijsem.0.000538
Phylogeny32236722Nonomuraea basaltis sp. nov., a siderophore-producing actinobacteria isolated from surface soil of basaltic parent material.Saricaoglu S, Saygin H, Topkara AR, Gencbay T, Guven K, Cetin D, Sahin N, Isik KArch Microbiol2020*Actinobacteria/classification/genetics/isolation & purification, Actinomycetales/genetics, Bacterial Typing Techniques, Base Composition/genetics, DNA, Bacterial/genetics, Fatty Acids/analysis, Genome, Bacterial/genetics, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Siderophores/analysis/metabolism, Soil, Soil Microbiology, TurkeyGenetics10.1007/s00203-020-01866-3
Phylogeny32790600Nonomuraea nitratireducens sp. nov., a new actinobacterium isolated from Suaeda australis Moq. rhizosphere.Ou Y, Sheng Y, Hu X, Leng D, Huang J, Hu Z, Bai L, Deng Z, Kang Q, Wu YInt J Syst Evol Microbiol2020Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome10.1099/ijsem.0.004377

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11275Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43926)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43926
19983Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43926.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
37281Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19204
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
68382Automatically annotated from API zym
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
85580Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42518.1StrainInfo: A central database for resolving microbial strain identifiers
123697Curators of the CIPCollection of Institut Pasteur (CIP 107010)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107010