Strain identifier
BacDive ID: 16506
Type strain: 
Species: Acrocarpospora pleiomorpha
Strain Designation: R-31
Strain history: IFO 16267 <-- T. Tamura <-- S. Suzuki R-31.
NCBI tax ID(s): 90975 (species)
version 9.1 (current version)
General
@ref: 11897
BacDive-ID: 16506
DSM-Number: 44706
keywords: genome sequence, 16S sequence, Bacteria, spore-forming
description: Acrocarpospora pleiomorpha R-31 is a spore-forming bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 90975
- Matching level: species
strain history
| @ref | history |
|---|---|
| 11897 | <- NBRC <- M. Suzuki, Tanabe Seiyaku Co.; R-31 |
| 67770 | IFO 16267 <-- T. Tamura <-- S. Suzuki R-31. |
doi: 10.13145/bacdive16506.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Streptosporangiaceae
- genus: Acrocarpospora
- species: Acrocarpospora pleiomorpha
- full scientific name: Acrocarpospora pleiomorpha Tamura et al. 2000
@ref: 11897
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptosporangiaceae
genus: Acrocarpospora
species: Acrocarpospora pleiomorpha
full scientific name: Acrocarpospora pleiomorpha Tamura et al. 2000
strain designation: R-31
type strain: yes
Morphology
colony morphology
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 20099 | Ochre yellow (1024) | 10-14 days | ISP 2 |
| 20099 | Ochre yellow (1024) | 10-14 days | ISP 3 |
| 20099 | Ochre yellow (1024) | 10-14 days | ISP 4 |
| 20099 | Ochre yellow (1024) | 10-14 days | ISP 5 |
| 20099 | Ochre yellow (1024) | 10-14 days | ISP 6 |
| 20099 | Ochre yellow (1024) | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | medium name |
|---|---|---|
| 20099 | yes | ISP 2 |
| 20099 | no | ISP 3 |
| 20099 | no | ISP 4 |
| 20099 | no | ISP 5 |
| 20099 | no | ISP 6 |
| 20099 | no | ISP 7 |
multimedia
- @ref: 11897
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_44706.jpg
- caption: Medium 84 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 11897 | ISP 5 MEDIUM (DSMZ Medium 993) | yes | https://mediadive.dsmz.de/medium/993 | Name: ISP 5 MEDIUM (DSMZ Medium 993) Composition: Agar 20.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l L-Asparagine 1.0 g/l FeSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water |
| 11897 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://mediadive.dsmz.de/medium/84 | Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water |
| 20099 | ISP 2 | yes | Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes | |
| 20099 | ISP 3 | yes | Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms: | |
| 20099 | ISP 4 | yes | Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml | |
| 20099 | ISP 5 | yes | Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes | |
| 20099 | ISP 6 | yes | Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes | |
| 20099 | ISP 7 | yes | Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 11897 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: yes
- confidence: 100
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H2), MK-9(H6)
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity |
|---|---|---|---|
| 20099 | 17234 | glucose | - |
| 20099 | 22599 | arabinose | + |
| 20099 | 17992 | sucrose | + |
| 20099 | 18222 | xylose | + |
| 20099 | 17268 | myo-inositol | + |
| 20099 | 29864 | mannitol | + |
| 20099 | 28757 | fructose | + |
| 20099 | 26546 | rhamnose | + |
| 20099 | 16634 | raffinose | + |
| 20099 | 62968 | cellulose | + |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68382 | alkaline phosphatase | + | 3.1.3.1 |
| 68382 | esterase (C 4) | + | |
| 68382 | esterase lipase (C 8) | + | |
| 68382 | lipase (C 14) | - | |
| 68382 | leucine arylamidase | + | 3.4.11.1 |
| 68382 | valine arylamidase | + | |
| 68382 | cystine arylamidase | + | 3.4.11.3 |
| 68382 | trypsin | + | 3.4.21.4 |
| 68382 | alpha-chymotrypsin | + | 3.4.21.1 |
| 68382 | acid phosphatase | + | 3.1.3.2 |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | |
| 68382 | alpha-galactosidase | - | 3.2.1.22 |
| 68382 | beta-galactosidase | - | 3.2.1.23 |
| 68382 | beta-glucuronidase | - | 3.2.1.31 |
| 68382 | alpha-glucosidase | + | 3.2.1.20 |
| 68382 | beta-glucosidase | + | 3.2.1.21 |
| 68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
| 68382 | alpha-mannosidase | - | 3.2.1.24 |
| 68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
| @ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 20099 | + | + | + | - | + | + | + | + | + | + | + | - | - | - | + | + | + | - | - |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 11897 | soil | Louisiana | USA | USA | North America |
| 67770 | Soil | LA | USA | USA | North America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 11897 | 1 | Risk group (German classification) |
| 20099 | 1 | German classification |
Sequence information
16S sequences
- @ref: 11897
- description: Acrocarpospora pleiomorpha gene for 16S rRNA, partial sequence
- accession: AB006174
- length: 1477
- database: nuccore
- NCBI tax ID: 90975
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acrocarpospora pleiomorpha NBRC 16267 | GCA_009687885 | scaffold | ncbi | 90975 |
| 66792 | Acrocarpospora pleiomorpha strain NBRC 16267 | 90975.3 | wgs | patric | 90975 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 11897 | 69 | |
| 67770 | 68.6 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 88.424 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 92.969 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 86.879 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 87.213 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 92.5 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 86.5 | no |
External links
@ref: 11897
culture collection no.: DSM 44706, IFO 16267, JCM 10983, NBRC 16267, BCRC 16801
straininfo link
- @ref: 85539
- straininfo: 62210
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 10843059 | Acrocarpospora gen. nov., a new genus of the order Actinomycetales. | Tamura T, Suzuki S, Hatano K | Int J Syst Evol Microbiol | 10.1099/00207713-50-3-1163 | 2000 | Actinomycetales/chemistry/*classification/genetics/ultrastructure, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Genetics |
| Phylogeny | 23125318 | Acrocarpospora phusangensis sp. nov., isolated from a temperate peat swamp forest soil. | Niemhom N, Suriyachadkun C, Tamura T, Thawai C | Int J Syst Evol Microbiol | 10.1099/ijs.0.046227-0 | 2012 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/analysis, *Wetlands | Genetics |
| Genetics | 32801283 | Diversity of nonribosomal peptide synthetase and polyketide synthase gene clusters in the genus Acrocarpospora. | Komaki H, Oguchi A, Tamura T, Hamada M, Ichikawa N | J Gen Appl Microbiol | 10.2323/jgam.2020.01.001 | 2020 | Actinobacteria/*genetics, Base Sequence, Genome, Bacterial/*genetics, Multigene Family/genetics, Peptide Biosynthesis, Nucleic Acid-Independent/genetics, Peptide Synthases/*genetics, Polyketide Synthases/*genetics, Sequence Analysis, DNA, Whole Genome Sequencing | Transcriptome |
| Phylogeny | 36129751 | Acrocarpospora catenulata sp. nov., a novel actinobacterium isolated from lake sediment. | Liu C, Guo Y, Li L, Li J, Wang L, Lin J, Wang X, Chu Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005526 | 2022 | *Actinomycetales, Bacterial Typing Techniques, Base Composition, Cardiolipins, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glucose, Lakes/analysis, Nucleotides, *Phosphatidylethanolamines, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Ribose, Sequence Analysis, DNA, Soil Microbiology, Vitamin K 2/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 11897 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44706) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44706 | |
| 20099 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM44706.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |
| 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) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 68382 | Automatically annotated from API zym | |||
| 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 | |
| 85539 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID62210.1 | StrainInfo: A central database for resolving microbial strain identifiers |