Strain identifier
BacDive ID: 11158
Type strain:
Species: Actinopolymorpha singaporensis
Strain Designation: IM 7744
Strain history: CIP <- 2002, Y. Wang, Singapore: strain IM 7744
NCBI tax ID(s): 117157 (species)
General
@ref: 16040
BacDive-ID: 11158
DSM-Number: 22024
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Actinopolymorpha singaporensis IM 7744 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil sample collected from the surface to about 10 cm deep in the primary rainforest.
NCBI tax id
- NCBI tax id: 117157
- Matching level: species
strain history
@ref | history |
---|---|
16040 | <- JCM/RIKEN <- Y. Wang, Microbial Collection and Screening Lab., Inst. of Molecular and Cell Biology, Singapore; IM 7744 |
33113 | 2002, Y. Wang, Singapore: strain IM 7744 |
67770 | Y. Wang IM7744. |
67771 | <- JCM |
122631 | CIP <- 2002, Y. Wang, Singapore: strain IM 7744 |
doi: 10.13145/bacdive11158.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Propionibacteriales
- family: Actinopolymorphaceae
- genus: Actinopolymorpha
- species: Actinopolymorpha singaporensis
- full scientific name: Actinopolymorpha singaporensis Wang et al. 2001
@ref: 16040
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Actinopolymorphaceae
genus: Actinopolymorpha
species: Actinopolymorpha singaporensis
full scientific name: Actinopolymorpha singaporensis Wang et al. 2001 emend. Nouioui et al. 2018
strain designation: IM 7744
type strain: yes
Morphology
cell morphology
@ref | gram stain | motility | confidence | cell shape |
---|---|---|---|---|
67771 | positive | |||
69480 | no | 90.866 | ||
69480 | positive | 100 | ||
122631 | positive | no | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16040 | 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 |
33113 | MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum | yes | Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g) | |
16040 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | 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 |
122631 | CIP Medium 57 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16040 | positive | growth | 28 | mesophilic |
33113 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
67771 | positive | growth | 42 | thermophilic |
122631 | positive | growth | 22-37 | |
122631 | no | growth | 5 | psychrophilic |
122631 | no | growth | 15 | psychrophilic |
122631 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
67771 | aerobe |
122631 | obligate aerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
122631 | NaCl | positive | growth | 0-4 % |
122631 | NaCl | no | growth | 6 % |
122631 | NaCl | no | growth | 8 % |
122631 | NaCl | no | growth | 10 % |
observation
@ref | observation |
---|---|
67770 | quinones: MK-9(H6), MK-9(H4) |
67771 | quinones: MK-9(H(6)) |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | D-fucose | + | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | - | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | + | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | - | builds acid from | 16024 |
68371 | D-fructose | - | builds acid from | 15824 |
68371 | D-glucose | - | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
122631 | citrate | - | carbon source | 16947 |
122631 | esculin | + | hydrolysis | 4853 |
122631 | nitrate | - | reduction | 17632 |
122631 | nitrite | - | reduction | 16301 |
122631 | glucose | - | degradation | 17234 |
122631 | nitrate | - | respiration | 17632 |
antibiotic resistance
- @ref: 122631
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
- @ref: 122631
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
122631 | 15688 | acetoin | - | |
122631 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
122631 | oxidase | - | |
122631 | alcohol dehydrogenase | - | 1.1.1.1 |
122631 | gelatinase | + | |
122631 | amylase | - | |
122631 | DNase | - | |
122631 | caseinase | + | 3.4.21.50 |
122631 | catalase | + | 1.11.1.6 |
122631 | tween esterase | - | |
122631 | gamma-glutamyltransferase | + | 2.3.2.2 |
122631 | lecithinase | - | |
122631 | lipase | - | |
122631 | lysine decarboxylase | - | 4.1.1.18 |
122631 | ornithine decarboxylase | - | 4.1.1.17 |
122631 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
122631 | protease | - | |
122631 | tryptophan deaminase | - | |
122631 | urease | - | 3.5.1.5 |
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 | Control | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122631 | - | + | + | + | - | + | - | - | + | + | + | + | - | + | - | + | + | + | + | + |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122631 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | + | +/- | - | - | - | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122631 | + | + | + | + | + | - | + | + | + | + | + | + | - | - | - | + | + | - | + | - | + | - | + | + | - | + | + | - | + | - | - | - | - | - | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
16040 | soil sample collected from the surface to about 10 cm deep in the primary rainforest | Bukit Timah nature reserve | Singapore | SGP | Asia | |
67770 | Soil, the primary rainforest of the Bukit Timah Nature Reserve | Singapore | SGP | Asia | ||
67771 | From soil | Singapore | SGP | Asia | ||
122631 | Environment, Soil sample | Singapore | SGP | Asia | 1998 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Forest |
#Environmental | #Terrestrial | #Soil |
#Climate | #Hot | #Tropical |
taxonmaps
- @ref: 69479
- File name: preview.99_85990.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_779;96_20597;97_25630;98_59531;99_85990&stattab=map
- Last taxonomy: Actinopolymorpha
- 16S sequence: AF237815
- Sequence Identity:
- Total samples: 633
- soil counts: 505
- aquatic counts: 38
- animal counts: 37
- plant counts: 53
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
16040 | 1 | Risk group (German classification) |
122631 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 16040
- description: Actinosingapura polymorpha 16S ribosomal RNA gene, partial sequence
- accession: AF237815
- length: 1442
- database: ena
- NCBI tax ID: 117157
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Actinopolymorpha singaporensis DSM 22024 | GCA_900104745 | chromosome | ncbi | 117157 |
66792 | Actinopolymorpha singaporensis strain DSM 22024 | 117157.3 | complete | patric | 117157 |
66792 | Actinopolymorpha singaporensis DSM 22024 | 2636416006 | draft | img | 117157 |
GC content
@ref | GC-content | method |
---|---|---|
16040 | 69.5 | high performance liquid chromatography (HPLC) |
67770 | 70.6 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 68 | no |
motile | no | 90.437 | no |
gram-positive | yes | 87.488 | no |
anaerobic | no | 98.671 | yes |
aerobic | yes | 91.007 | yes |
halophile | no | 88.269 | no |
spore-forming | no | 56.625 | no |
flagellated | no | 98.785 | no |
thermophile | no | 92.312 | no |
glucose-util | yes | 86.54 | no |
glucose-ferment | no | 91.04 | no |
External links
@ref: 16040
culture collection no.: DSM 22024, CIP 107343, JCM 10761, KCTC 19907, NBRC 100040, NRRL B-24113, NCIMB 14324
straininfo link
- @ref: 80407
- straininfo: 100477
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 18842872 | Actinopolymorpha rutila sp. nov., isolated from a forest soil. | Wang YX, Zhang YQ, Xu LH, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.65629-0 | 2008 | Cell Wall/chemistry, China, DNA, Bacterial/genetics, Genes, Bacterial, Genes, rRNA, Genotype, Lipids/chemistry, Molecular Sequence Data, Phenotype, Phylogeny, Propionibacteriaceae/chemistry/*classification/*genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/microbiology, Vitamin K 2/chemistry | Genetics |
Phylogeny | 19605725 | Actinopolymorpha alba sp. nov., isolated from a rhizosphere soil. | Cao YR, Jiang Y, Wu JY, Xu LH, Jiang CL | Int J Syst Evol Microbiol | 10.1099/ijs.0.010280-0 | 2009 | Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Aerobiosis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Maytenus/*microbiology, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysis | Genetics |
Phylogeny | 20889769 | Flindersiella endophytica gen. nov., sp. nov., an endophytic actinobacterium isolated from the root of Grey Box, an endemic eucalyptus tree. | Kaewkla O, Franco CMM | Int J Syst Evol Microbiol | 10.1099/ijs.0.026757-0 | 2010 | Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Eucalyptus/*microbiology, Glucose/analysis, Molecular Sequence Data, Phylogeny, Plant Roots/microbiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhamnose/analysis, Ribose/analysis, Sequence Analysis, DNA | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
16040 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22024) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22024 | |||
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 | |||
33113 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/4768 | ||||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
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) | |||
80407 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100477.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
122631 | Curators of the CIP | Collection of Institut Pasteur (CIP 107343) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107343 |