Strain identifier

BacDive ID: 11219

Type strain: Yes

Species: Nocardiopsis rosea

Strain history: CIP <- 2006, DSMZ <- W.-J. Li, YIM

NCBI tax ID(s): 280237 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 12023

BacDive-ID: 11219

DSM-Number: 44842

keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, rod-shaped

description: Nocardiopsis rosea DSM 44842 is an aerobe, spore-forming, mesophilic bacterium that was isolated from hypersaline soil.

NCBI tax id

  • NCBI tax id: 280237
  • Matching level: species

strain history

@refhistory
12023<- W.-J. Li, YIM
67770KCTC 19007 <-- W.-J. Li YIM 90094.
67771<- WJ Li, Yunnan Univ.
122253CIP <- 2006, DSMZ <- W.-J. Li, YIM

doi: 10.13145/bacdive11219.20230509.8.1

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 rosea
  • full scientific name: Nocardiopsis rosea Li et al. 2006

@ref: 12023

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiopsaceae

genus: Nocardiopsis

species: Nocardiopsis rosea

full scientific name: Nocardiopsis rosea Li et al. 2006

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
31676positiverod-shapedno
67771positive
122253rod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19879Daffodil yellow10-14 daysISP 2
19879Zinc yellow10-14 daysISP 3
19879Zinc yellow10-14 daysISP 4
19879Zinc yellow10-14 daysISP 5
19879Zinc yellow10-14 daysISP 6
19879Zinc yellow10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19879noISP 2
19879noISP 3
19879noISP 4
19879noISP 5
19879noISP 6
19879noISP 7

pigmentation

  • @ref: 31676
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12023GPHF-MEDIUM (DSMZ Medium 553)yeshttps://mediadive.dsmz.de/medium/553Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
12023TRYPTICASE 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
19879ISP 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
19879ISP 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:
19879ISP 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
19879ISP 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
19879ISP 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
19879ISP 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
12023TCG MEDIUM (DSMZ Medium 1009)yeshttps://mediadive.dsmz.de/medium/1009Name: TCG MEDIUM (DSMZ Medium 1009) Composition: Casitone 5.0 g/l Glucose 4.0 g/l Tryptone 3.0 g/l Sea water
122253CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
12023positivegrowth28mesophilic
19879positiveoptimum28mesophilic
31676positivegrowth20-60
31676positiveoptimum37-40
67770positivegrowth28mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31676positivegrowth06-09alkaliphile
31676positiveoptimum7.2

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31676aerobe
67771aerobe

spore formation

  • @ref: 31676
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
31676NaClpositivegrowth0-18 %
31676NaClpositiveoptimum05-08 %

observation

@refobservation
31676aggregates in chains
67770quinones: MK-11, MK-11(H2), MK-11(H4)
67771quinones: MK-11, MK-11(H2), MK-11(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1987917234glucose+
1987922599arabinose-
1987917992sucrose-
1987918222xylose-
1987917268myo-inositol+
1987929864mannitol-
1987928757fructose+
1987926546rhamnose+
1987916634raffinose-
1987962968cellulose+
3167622599arabinose+carbon source
3167628757fructose+carbon source
3167617234glucose+carbon source
3167617716lactose+carbon source
3167617306maltose+carbon source
3167626546rhamnose+carbon source
3167633942ribose+carbon source
3167617992sucrose+carbon source
3167617632nitrate+reduction

enzymes

@refvalueactivityec
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
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
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- Fucosidase
19879+++-++---++---+-+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12023hypersaline soilXin Jiang ProvinceChinaCHNAsia
67770Saline soilChinaCHNAsia
67771hypersaline soils in Xinjiang provinceChinaCHNAsia
122253Environment, Hypersaline soilXin Jiang ProvinceChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_24630.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_152;96_2754;97_14972;98_18526;99_24630&stattab=map
  • Last taxonomy: Nocardiopsis
  • 16S sequence: AY619713
  • Sequence Identity:
  • Total samples: 2
  • soil counts: 2

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
120231Risk group (German classification)
198791Risk group (German classification)
1222531Risk group (French classification)

Sequence information

16S sequences

  • @ref: 12023
  • description: Nocardiopsis rosea 16S ribosomal RNA gene, partial sequence
  • accession: AY619713
  • length: 1502
  • database: ena
  • NCBI tax ID: 280237

GC content

@refGC-contentmethod
1202367.9
6777067.9thermal denaturation, midpoint method (Tm)

External links

@ref: 12023

culture collection no.: DSM 44842, CCTCC AA 2040013, CIP 109296, KCTC 19007, YIM 90094, JCM 15314

straininfo link

  • @ref: 80462
  • straininfo: 134262

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16627660Five novel species of the genus Nocardiopsis isolated from hypersaline soils and emended description of Nocardiopsis salina Li et al. 2004.Li WJ, Kroppenstedt RM, Wang D, Tang SK, Lee JC, Park DJ, Kim CJ, Xu LH, Jiang CLInt J Syst Evol Microbiol10.1099/ijs.0.64033-02006Actinomycetales/chemistry/*classification/cytology/genetics/*isolation & purification, Amino Acids/analysis, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/isolation & purification, Genes, rRNA, Growth Inhibitors/pharmacology, Lipids/analysis/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sodium Chloride/pharmacology, *Soil Microbiology, Vitamin K 2/analysis/isolation & purificationEnzymology
Phylogeny26297597Streptomonospora halotolerans sp. nov., an actinomycete isolated from soil.Zhao J, Guo L, Liu C, Sun P, Li J, Li W, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0003972015Actinobacteria/genetics, *Actinomycetales/classification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization/genetics, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Soil MicrobiologyGenetics
Phylogeny27565851Nocardiopsis akesuensis sp. nov., an actinomycete isolated from a salt water beach.Gao GB, Luo XX, Xia ZF, Zhang Y, Wan CX, Zhang LLInt J Syst Evol Microbiol10.1099/ijsem.0.0014602016Actinobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12023Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44842)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44842
19879Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44842.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
31676Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2795428776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
80462Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID134262.1StrainInfo: A central database for resolving microbial strain identifiers
122253Curators of the CIPCollection of Institut Pasteur (CIP 109296)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109296