Strain identifier
BacDive ID: 131400
Type strain: 
Species: Phytoactinopolyspora endophytica
Strain history: <- Wenjun Li
NCBI tax ID(s): 1642495 (species)
version 8.1 (current version)
General
@ref: 22627
BacDive-ID: 131400
DSM-Number: 46804
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic
description: Phytoactinopolyspora endophytica DSM 46804 is an aerobe, mesophilic bacterium that was isolated from surface-sterilized healthy root of Glycyrrhiza uralensis F..
NCBI tax id
- NCBI tax id: 1642495
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22627 | <- W.-J. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; EGI 60009 <- L. Li, Chinese Academy of Sciences |
| 67770 | KCTC 29657 <-- W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; EGI 60009. |
| 67771 | <- Wenjun Li |
doi: 10.13145/bacdive131400.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Jiangellales
- family: Jiangellaceae
- genus: Phytoactinopolyspora
- species: Phytoactinopolyspora endophytica
- full scientific name: Phytoactinopolyspora endophytica Li et al. 2015
@ref: 22627
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Jiangellaceae
genus: Phytoactinopolyspora
species: Phytoactinopolyspora endophytica
full scientific name: Phytoactinopolyspora endophytica Li et al. 2015
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 95.909 | |
| 69480 | 100 | positive |
multimedia
- @ref: 22627
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46804.jpg
- caption: Medium 830 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 22627
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 22627 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
observation
- @ref: 67770
- observation: quinones: MK-9(H4)
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|---|
| 22627 | surface-sterilized healthy root of Glycyrrhiza uralensis F. | Glycyrrhiza uralensis | Xinjiang Province, Yili County | China | CHN | Asia |
| 67770 | Roots of Glycyrrhiza uralensis (Chinese licorice) from Xinjiang Province | Glycyrrhiza uralensis | China | CHN | Asia | |
| 67771 | from the roots of Glycyrrhiza uralensis F | collected from Xinjiang Province | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
| #Host Body-Site | #Plant | #Sterilized plant part |
Safety information
risk assessment
- @ref: 22627
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22627
- description: Phytoactinopolyspora endophytica strain EGI 60009 16S ribosomal RNA gene, partial sequence
- accession: KP271925
- length: 1514
- database: ena
- NCBI tax ID: 1642495
Genome sequences
- @ref: 67770
- description: Phytoactinopolyspora endophytica EGI 60009
- accession: GCA_004138495
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 1642495
GC content
- @ref: 22627
- GC-content: 70.4
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 70 | no |
| motile | no | 84.463 | no |
| flagellated | no | 97.916 | no |
| gram-positive | yes | 94.306 | no |
| anaerobic | no | 98.761 | yes |
| aerobic | yes | 91.593 | yes |
| halophile | no | 50 | no |
| spore-forming | yes | 62.338 | no |
| glucose-util | yes | 89.043 | no |
| thermophile | no | 96.042 | yes |
| glucose-ferment | no | 86.645 | no |
External links
@ref: 22627
culture collection no.: DSM 46804, CPCC 204078, KCTC 29657, EGI 60009, JCM 31493
straininfo link
- @ref: 89833
- straininfo: 401679
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25964514 | Phytoactinopolyspora endophytica gen. nov., sp. nov., a halotolerant filamentous actinomycete isolated from the roots of Glycyrrhiza uralensis F. | Li L, Ma JB, Abdalla Mohamad O, Li SH, Osman G, Li YQ, Guo JW, Hozzein WN, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.000322 | 2015 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycyrrhiza uralensis/*microbiology, Molecular Sequence Data, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 26920762 | Phytoactinopolyspora alkaliphila sp. nov., an alkaliphilic actinomycete isolated from a saline-alkaline soil. | Zhang YG, Lu XH, Ding YB, Zhou XK, Li L, Guo JW, Wang HF, Duan YQ, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000992 | 2016 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 28825140 | Phytoactinopolyspora halotolerans sp. nov., a halotolerant actinobacterium isolated from a saline soil in Xinjiang, northwest of China. | Ji Y, Chunyu WX, Li EY, Ding ZG, Yin M, Zhao YR, Wang Y, Tang SK | Antonie Van Leeuwenhoek | 10.1007/s10482-017-0923-6 | 2017 | Actinobacteria/chemistry/*classification/genetics/isolation & purification, China, Metabolomics/methods, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Soil/*chemistry, *Soil Microbiology | Phenotype |
| Phylogeny | 30543502 | Phytoactinopolyspora halophila sp. nov., a halophilic actinomycete isolated from a saline soil. | Ding ZG, Ji Y, Yin M, Zhao YR, Feng YZ, Chunyu WX, Tang SK | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003153 | 2018 | Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 32558636 | Phytoactinopolyspora mesophila sp. nov., isolated from a saline-alkaline soil. | Feng XM, Zhai XH, Liu SW, Wang CM, Sun CH, Zhou X, Zhang YJ, Li XJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004274 | 2020 | Actinobacteria/*classification/isolation & purification, *Alkalies, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Soil/chemistry, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |
| 22627 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-46804 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46804) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |
| 89833 | Reimer, 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 identifiers | 10.60712/SI-ID401679.1 |