Strain identifier
BacDive ID: 133727
Type strain: 
Species: Actinomadura sediminis
Strain history: DSM 45500 <-- S.-K. Tang; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM M 10931.
NCBI tax ID(s): 1038904 (species)
version 8.1 (current version)
General
@ref: 30300
BacDive-ID: 133727
DSM-Number: 45500
keywords: 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive
description: Actinomadura sediminis CCTCC AA 2010009 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1038904
- Matching level: species
strain history
- @ref: 67770
- history: DSM 45500 <-- S.-K. Tang; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM M 10931.
doi: 10.13145/bacdive133727.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Thermomonosporaceae
- genus: Actinomadura
- species: Actinomadura sediminis
- full scientific name: Actinomadura sediminis He et al. 2012
@ref: 30300
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Streptosporangiales
family: Thermomonosporaceae
genus: Actinomadura
species: Actinomadura sediminis
type strain: yes
Morphology
cell morphology
- @ref: 30300
- gram stain: positive
- motility: no
pigmentation
- @ref: 30300
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30300 | positive | growth | 28-45 | |
| 67770 | positive | growth | 28 | mesophilic |
culture pH
- @ref: 30300
- ability: positive
- type: growth
- pH: 07-08
Physiology and metabolism
oxygen tolerance
- @ref: 30300
- oxygen tolerance: aerobe
spore formation
- @ref: 30300
- spore formation: yes
halophily
- @ref: 30300
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <7 %
observation
- @ref: 67770
- observation: quinones: MK-9(H8), MK-9(H6)
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30300 | 22599 | arabinose | + | carbon source |
| 30300 | 28757 | fructose | + | carbon source |
| 30300 | 28260 | galactose | + | carbon source |
| 30300 | 29864 | mannitol | + | carbon source |
| 30300 | 26546 | rhamnose | + | carbon source |
| 30300 | 33942 | ribose | + | carbon source |
| 30300 | 18222 | xylose | + | carbon source |
| 30300 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 30300
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30300 | catalase | + | 1.11.1.6 |
| 30300 | cytochrome oxidase | + | 1.9.3.1 |
| 30300 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 30300 | soil | ||||
| 67770 | Mangrove sediment from Dugong Creek | Little Andaman | India | IND | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_15418.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_1053;97_9509;98_11673;99_15418&stattab=map
- Last taxonomy: Actinomadura sediminis subclade
- 16S sequence: JF272484
- Sequence Identity:
- Total samples: 62
- soil counts: 31
- aquatic counts: 9
- animal counts: 18
- plant counts: 4
Sequence information
16S sequences
- @ref: 30300
- description: Actinomadura sediminis strain YIM M 10931 16S ribosomal RNA gene, partial sequence
- accession: JF272484
- length: 1537
- database: nuccore
- NCBI tax ID: 1038904
GC content
| @ref | GC-content | method |
|---|---|---|
| 30300 | 69.7 | |
| 67770 | 69.7 | high performance liquid chromatography (HPLC) |
External links
@ref: 30300
culture collection no.: CCTCC AA 2010009, DSM 45500, YIM M 10931, JCM 31202
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21705447 | Actinomadura sediminis sp. nov., a marine actinomycete isolated from mangrove sediment. | He J, Xu Y, Sahu MK, Tian XP, Nie GX, Xie Q, Zhang S, Sivakumar K, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.032979-0 | 2011 | Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Carbohydrates/analysis, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, *Environmental Microbiology, Fatty Acids/analysis, India, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spores, Bacterial/cytology | Genetics |
| Phylogeny | 26542839 | Actinomadura algeriensis sp. nov., an actinobacterium isolated from Saharan soil. | Lahoum A, Bouras N, Mathieu F, Schumann P, Sproer C, Klenk HP, Sabaou N | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0617-x | 2015 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Algeria, Cell Wall/metabolism, Cluster Analysis, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Diaminopimelic Acid/metabolism, Fatty Acids/analysis, Molecular Sequence Data, Mycelium/cytology, Nucleic Acid Hybridization, Phospholipids/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology, Vitamin K 2/metabolism | Metabolism |
| Phylogeny | 26996355 | Antifungal activity of a Saharan strain of Actinomadura sp. ACD1 against toxigenic fungi and other pathogenic microorganisms. | Lahoum A, Aouiche A, Bouras N, Verheecke C, Klenk HP, Sabaou N, Mathieu F | J Mycol Med | 10.1016/j.mycmed.2016.02.017 | 2016 | Actinomycetales/genetics/*isolation & purification/*metabolism, Africa, Northern, Algeria, Antifungal Agents/*metabolism/*pharmacology, Bacterial Typing Techniques, DNA, Ribosomal/analysis, Fungi/*drug effects/growth & development/pathogenicity, Microbial Sensitivity Tests, *Soil Microbiology | Metabolism |
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 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 | ||
| 30300 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 26641 | 28776041 |
| 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/ |