Strain identifier
BacDive ID: 11243
Type strain: 
Species: Nocardiopsis terrae
Strain history: <- YG Chen, Yunnan Inst., China
NCBI tax ID(s): 372655 (species)
version 8.1 (current version)
General
@ref: 15450
BacDive-ID: 11243
DSM-Number: 45157
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Nocardiopsis terrae DSM 45157 is an aerobe, spore-forming, mesophilic bacterium that was isolated from saline soil.
NCBI tax id
- NCBI tax id: 372655
- Matching level: species
strain history
| @ref | history |
|---|---|
| 15450 | <- S.-K. Tang, YIM; YIM 90022 <- Y.-G. Chen et al. |
| 67771 | <- YG Chen, Yunnan Inst., China |
doi: 10.13145/bacdive11243.20230509.8.1
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 terrae
- full scientific name: Nocardiopsis terrae Chen et al. 2012
@ref: 15450
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardiopsaceae
genus: Nocardiopsis
species: Nocardiopsis terrae
full scientific name: Nocardiopsis terrae Chen et al. 2012
type strain: yes
Morphology
cell morphology
| @ref | gram stain | motility | confidence |
|---|---|---|---|
| 67771 | positive | ||
| 69480 | no | 90.081 | |
| 69480 | positive | 100 |
multimedia
- @ref: 15450
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45157.jpg
- caption: Medium 514 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 15450 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: 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 |
| 15450 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
| 15450 | M1-NOCARDIOPSIS ARABIA MEDIUM (DSMZ Medium 1065) | yes | https://mediadive.dsmz.de/medium/1065 | Name: M1-NOCARDIOPSIS ARABIA MEDIUM (DSMZ Medium 1065) Composition: NaCl 20.0 g/l Agar 18.0 g/l Starch 10.0 g/l Yeast extract 4.0 g/l Peptone 2.0 g/l Sea water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15450 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 99.447 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 15450 | saline soil | Qinghai Province | China | CHN | Asia |
| 67771 | From saline soil | Guangdong province | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_34648.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_152;96_659;97_762;98_1213;99_34648&stattab=map
- Last taxonomy: Nocardiopsis
- 16S sequence: DQ387958
- Sequence Identity:
- Total samples: 1
- animal counts: 1
Safety information
risk assessment
- @ref: 15450
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15450
- description: Nocardiopsis terrae strain YIM 90022 16S ribosomal RNA gene, partial sequence
- accession: DQ387958
- length: 1467
- database: ena
- NCBI tax ID: 372655
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Nocardiopsis terrae DSM 45157 | GCA_014874035 | contig | ncbi | 372655 |
| 66792 | Nocardiopsis terrae KCTC 19431 | GCA_014651695 | scaffold | ncbi | 372655 |
| 66792 | Nocardiopsis terrae strain DSM 45157 | 372655.4 | wgs | patric | 372655 |
| 66792 | Nocardiopsis terrae strain KCTC 19431 | 372655.3 | wgs | patric | 372655 |
| 66792 | Nocardiopsis terrae DSM 45157 | 2870806736 | draft | img | 372655 |
GC content
- @ref: 15450
- GC-content: 71.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | no | 94.02 | no |
| flagellated | no | 97.997 | no |
| gram-positive | yes | 91.83 | no |
| anaerobic | no | 99.262 | yes |
| aerobic | yes | 93.939 | yes |
| halophile | yes | 74.88 | no |
| spore-forming | yes | 94.454 | no |
| thermophile | no | 98.347 | no |
| glucose-util | yes | 89.09 | no |
| glucose-ferment | no | 91.42 | no |
External links
@ref: 15450
culture collection no.: DSM 45157, CCTCC AA 208011, KCTC 19431, YIM 90022
straininfo link
- @ref: 80478
- straininfo: 398235
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20232249 | Nocardiopsis terrae sp. nov., a halophilic actinomycete isolated from saline soil. | Chen YG, Zhang YQ, Tang SK, Liu ZX, Xu LH, Zhang LX, Li WJ | Antonie Van Leeuwenhoek | 10.1007/s10482-010-9425-5 | 2010 | Actinomycetales/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, *Soil Microbiology | Genetics |
| Phylogeny | 24236566 | Antimicrobial metabolites from a novel halophilic actinomycete Nocardiopsis terrae YIM 90022. | Tian S, Yang Y, Liu K, Xiong Z, Xu L, Zhao L | Nat Prod Res | 10.1080/14786419.2013.858341 | 2013 | Actinobacteria, Actinomycetales/*chemistry, Alkaloids/chemistry/*isolation & purification/*pharmacology, Anti-Bacterial Agents/chemistry/*isolation & purification/*pharmacology, Antifungal Agents/chemistry/*isolation & purification/*pharmacology, Bacillus subtilis/drug effects, DNA, Bacterial, Dipeptides, Escherichia coli/drug effects, Fusarium/drug effects, Microbial Sensitivity Tests, Nuclear Magnetic Resonance, Biomolecular, Phylogeny, Quinolines/chemistry/*isolation & purification/*pharmacology, RNA, Ribosomal, 16S/genetics, Soil Microbiology, Staphylococcus aureus/drug effects, ortho-Aminobenzoates/chemistry/isolation & purification/pharmacology | Enzymology |
| Phylogeny | 26297579 | Nocardiopsis oceani sp. nov. and Nocardiopsis nanhaiensis sp. nov., actinomycetes isolated from marine sediment of the South China Sea. | Pan HQ, Zhang DF, Li L, Jiang Z, Cheng J, Zhang YG, Wang HF, Hu JC, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000425 | 2015 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistry | Genetics |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 15450 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45157) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45157 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
| 69479 | João 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 | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
| 80478 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID398235.1 | StrainInfo: A central database for resolving microbial strain identifiers |