Strain identifier
BacDive ID: 161015
Type strain: 
Species: Actinomadura oligospora
Strain history: NRRL 15878 <-- F. P. Mertz and R. C. Yao A80190.1.
NCBI tax ID(s): 1399798 (strain), 111804 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 161015
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic
description: Actinomadura oligospora JCM 10648 is an aerobe, spore-forming, mesophilic bacterium that was isolated from Soil.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1399798 | strain |
| 111804 | species |
strain history
- @ref: 67770
- history: NRRL 15878 <-- F. P. Mertz and R. C. Yao A80190.1.
doi: 10.13145/bacdive161015.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Thermomonosporaceae
- genus: Actinomadura
- species: Actinomadura oligospora
- full scientific name: Actinomadura oligospora Mertz and Yao 1986
@ref: 67770
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Streptosporangiales
family: Thermomonosporaceae
genus: Actinomadura
species: Actinomadura oligospora
full scientific name: Actinomadura oligospora Mertz and Yao 1986
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 125439 | positive | 99.8 | |
| 125439 | 91.7 | no |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 125438 | aerobe | 90.251 |
| 125439 | obligate aerobe | 98.1 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125438 | yes | 90.141 |
| 125439 | yes | 96.9 |
compound production
- @ref: 67770
- compound: Polyene antibiotic A80190 (US Pat. 4,683,201)
observation
- @ref: 67770
- observation: quinones: MK-9(H6), MK-9(H8), MK-9(H4)
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Soil
- country: India
- origin.country: IND
- continent: Asia
taxonmaps
- @ref: 69479
- File name: preview.99_165759.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_27998;97_35262;98_45543;99_165759&stattab=map
- Last taxonomy: Actinomadura
- 16S sequence: AF163118
- Sequence Identity:
- Total samples: 99
- soil counts: 72
- aquatic counts: 9
- animal counts: 11
- plant counts: 7
Sequence information
16S sequences
- @ref: 67770
- description: Actinomadura oligospora 16S ribosomal RNA gene, partial sequence
- accession: AF163118
- length: 1462
- database: nuccore
- NCBI tax ID: 111804
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Actinomadura oligospora ATCC 43269 | 1399798.3 | wgs | patric | 1399798 |
| 66792 | Actinomadura oligospora ATCC 43269 | 2540341222 | draft | img | 1399798 |
| 67770 | Actinomadura oligospora ATCC 43269 | GCA_000518265 | scaffold | ncbi | 1399798 |
GC content
- @ref: 67770
- GC-content: 72
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 88.513 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.3 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 90.141 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 90.251 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 94.329 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 88.6 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 96.9 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 91.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 99.8 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 98.1 |
External links
@ref: 67770
culture collection no.: JCM 10648, ATCC 43269, BCRC 16818, NBRC 104149, NRRL 15878
straininfo link
- @ref: 113148
- straininfo: 41745
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21685258 | Actinomadura rupiterrae sp. nov., isolated from cliff soil. | Lee SD | Int J Syst Evol Microbiol | 10.1099/ijs.0.035121-0 | 2011 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Islands, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 27010208 | Actinomadura gamaensis sp. nov., a novel actinomycete isolated from soil in Gama, Chad. | Abagana AY, Sun P, Liu C, Cao T, Zheng W, Zhao S, Xiang W, Wang X | Antonie Van Leeuwenhoek | 10.1007/s10482-016-0683-8 | 2016 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Cell Wall/metabolism, Chad, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Diaminopimelic Acid/metabolism, Fatty Acids/analysis, Nucleic Acid Hybridization, Peptidoglycan/metabolism, Phospholipids/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil/chemistry, *Soil Microbiology, Spores, Bacterial, Vitamin K 2/metabolism | Metabolism |
| Phylogeny | 30063200 | Actinomadura rhizosphaerae sp. nov., isolated from rhizosphere soil of the plant Azadirachta indica. | Malisorn K, Kanchanasin P, Phongsopitanun W, Tanasupawat S | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002940 | 2018 | Actinomycetales/*classification/genetics/isolation & purification, Azadirachta/*microbiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Muramic Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 31287395 | Actinomadura logoneensis sp. nov., a novel actinomycete isolated from the soil. | Shi L, Han L, Guo X, Zhao J, Wang J, Wang H, Jiang S, Xiang W, Wang X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003579 | 2019 | Actinobacteria/*classification, Bacterial Typing Techniques, Base Composition, Chad, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 31671050 | Actinomadura harenae sp. nov., a novel actinomycete isolated from sea sand in Sanya. | Hu J, Han C, Yu B, Zhao J, Guo X, Shen Y, Wang X, Xiang W | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003819 | 2020 | Actinomycetales/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sand/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ |
| 113148 | 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-ID41745.1 |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |