Strain identifier
BacDive ID: 16568
Type strain: 
Species: Nonomuraea endophytica
Strain history: DSM 45385 <-- S.-K. Tang; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 65601.
NCBI tax ID(s): 714136 (species)
version 8.1 (current version)
General
@ref: 16484
BacDive-ID: 16568
DSM-Number: 45385
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Nonomuraea endophytica DSM 45385 is a spore-forming, mesophilic bacterium that was isolated from surface-sterilized sample of Artemisia annua L..
NCBI tax id
- NCBI tax id: 714136
- Matching level: species
strain history
| @ref | history |
|---|---|
| 16484 | <- S.-K. Tang, Yunnan Univ., Kunming, Yunnan Inst. Microbiol. (YIM), China; YIM 65601 <- J. Li |
| 67770 | DSM 45385 <-- S.-K. Tang; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 65601. |
doi: 10.13145/bacdive16568.20230509.8.1
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 endophytica
- full scientific name: Nonomuraea endophytica Li et al. 2011
@ref: 16484
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptosporangiaceae
genus: Nonomuraea
species: Nonomuraea endophytica
full scientific name: Nonomuraea endophytica Li et al. 2011
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 95.703 | |
| 69480 | 100 | positive |
multimedia
- @ref: 16484
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45385.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 16484 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: 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 |
| 16484 | GPHF-MEDIUM (DSMZ Medium 553) | yes | https://mediadive.dsmz.de/medium/553 | Name: 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 |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 16484 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H2)
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|---|
| 16484 | surface-sterilized sample of Artemisia annua L. | Artemisia annua | Yunnan province | China | CHN | Asia |
| 67770 | Surface-sterilized sample of Artemisia annua L. from Yunnan Province | Artemisia annua | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Sterilized plant part |
Safety information
risk assessment
- @ref: 16484
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Nonomuraea endophytica strain YIM 65601 16S ribosomal RNA gene, partial sequence | JQ899209 | 642 | ena | 714136 |
| 20218 | Nonomuraea endophytica strain YIM 65601 16S ribosomal RNA gene, partial sequence | JQ899246 | 649 | ena | 714136 |
| 16484 | Nonomuraea endophytica strain YIM 65601 16S ribosomal RNA gene, partial sequence | GU367158 | 1518 | ena | 714136 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Nonomuraea endophytica DSM 45385 | GCA_014203235 | scaffold | ncbi | 714136 |
| 66792 | Nonomuraea endophytica strain DSM 45385 | 714136.3 | wgs | patric | 714136 |
| 66792 | Nonomuraea endophytica DSM 45385 | 2861736478 | draft | img | 714136 |
GC content
- @ref: 16484
- GC-content: 67.4
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| flagellated | no | 97.513 | no |
| gram-positive | yes | 84.297 | no |
| anaerobic | no | 98.886 | no |
| aerobic | yes | 87.956 | no |
| halophile | no | 87.262 | no |
| spore-forming | yes | 93.968 | no |
| glucose-util | yes | 88.95 | no |
| thermophile | no | 98.257 | yes |
| motile | no | 92.228 | no |
| glucose-ferment | no | 90.926 | no |
External links
@ref: 16484
culture collection no.: DSM 45385, CCTCC AA 209037, JCM 31210, YIM 65601
straininfo link
- @ref: 85595
- straininfo: 402564
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20435751 | Nonomuraea endophytica sp. nov., an endophytic actinomycete isolated from Artemisia annua L. | Li J, Zhao GZ, Huang HY, Zhu WY, Lee JC, Xu LH, Kim CJ, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.022558-0 | 2010 | Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Artemisia annua/*microbiology, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
| Phylogeny | 22389281 | Nonomuraea jabiensis sp. nov., isolated from arid soil. | Camas M, Sazak A, Sproer C, Klenk HP, Cetin D, Guven K, Sahin N | Int J Syst Evol Microbiol | 10.1099/ijs.0.039362-0 | 2012 | Actinomycetales/*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/analysis | Genetics |
| Phylogeny | 24179038 | Nonomuraea guangzhouensis sp. nov., and Nonomuraea harbinensis sp. nov., two novel actinomycetes isolated from soil. | Wang S, Liu C, Zhang Y, Zhao J, Zhang X, Yang L, Wang X, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-013-0058-3 | 2013 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics/metabolism, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology | Metabolism |
| Phylogeny | 28853687 | Nonomuraea stahlianthi sp. nov., an endophytic actinomycete isolated from the stem of Stahlianthus campanulatus. | Niemhom N, Chutrakul C, Suriyachadkun C, Thawai C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002045 | 2017 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Stems/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry, Zingiberaceae/*microbiology | Transcriptome |
| Phylogeny | 30792520 | Nonomuraea suaedae sp. nov., isolated from rhizosphere soil of Suaeda maritima (L.) Dumort. | Lipun K, Teo WFA, Tongpan J, Matsumoto A, Duangmal K | J Antibiot (Tokyo) | 10.1038/s41429-019-0159-y | 2019 | Actinomycetales/classification/isolation & purification/*metabolism, Bacterial Typing Techniques, Chenopodiaceae/*microbiology, Classification, DNA, Bacterial/genetics/isolation & purification, Fatty Acids/metabolism, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Soil Microbiology, Thailand | Enzymology |
| Phylogeny | 32501782 | Nonomuraea typhae sp. nov., an endophytic actinomycete isolated from the root of cattail pollen (Typha angustifolia L.). | Peng C, Zhuang X, Wang Z, Gao C, Zhao J, Song J, Liu C, Shen Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004249 | 2020 | Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Typhaceae/*microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 16484 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45385) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45385 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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 | |||
| 85595 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402564.1 | StrainInfo: A central database for resolving microbial strain identifiers |