Strain identifier
BacDive ID: 16912
Type strain:
Species: Actinocorallia glomerata
Strain Designation: I-226
Strain history: T. Itoh I-226.
NCBI tax ID(s): 46203 (species)
General
@ref: 11703
BacDive-ID: 16912
DSM-Number: 44360
keywords: 16S sequence, Bacteria, mesophilic
description: Actinocorallia glomerata I-226 is a mesophilic bacterium that builds an aerial mycelium and was isolated from decayed leaf of a deciduous tree from a pond.
NCBI tax id
- NCBI tax id: 46203
- Matching level: species
strain history
@ref | history |
---|---|
11703 | <- JCM <- T. Itoh, Kitasato Inst., Tokyo, I-226 |
67770 | T. Itoh I-226. |
doi: 10.13145/bacdive16912.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Thermomonosporaceae
- genus: Actinocorallia
- species: Actinocorallia glomerata
- full scientific name: Actinocorallia glomerata (Itoh et al. 1996) Zhang et al. 2001
synonyms
- @ref: 20215
- synonym: Actinomadura glomerata
@ref: 11703
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Thermomonosporaceae
genus: Actinocorallia
species: Actinocorallia glomerata
full scientific name: Actinocorallia glomerata (Itoh et al. 1996) Zhang et al. 2001
strain designation: I-226
type strain: yes
Morphology
colony morphology
@ref | incubation period | medium used |
---|---|---|
19653 | 10-14 days | ISP 2 |
19653 | 10-14 days | ISP 3 |
19653 | 10-14 days | ISP 4 |
19653 | 10-14 days | ISP 5 |
19653 | 10-14 days | ISP 6 |
19653 | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | complex color | medium name |
---|---|---|---|---|
19653 | yes | Aerial Mycelium | Oyster white | ISP 2 |
19653 | yes | Aerial Mycelium | Oyster white | ISP 3 |
19653 | no | ISP 4 | ||
19653 | no | ISP 5 | ||
19653 | no | ISP 6 | ||
19653 | no | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
11703 | N-Z-AMINE-MEDIUM (DSMZ Medium 554) | yes | https://mediadive.dsmz.de/medium/554 | Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water |
11703 | 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 |
19653 | 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 | |
19653 | 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: | |
19653 | 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 | |
19653 | 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 | |
19653 | 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 | |
19653 | 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 | range |
---|---|---|---|---|
11703 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
halophily
- @ref: 19653
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0 %
observation
- @ref: 67770
- observation: quinones: MK-9(H6), MK-9(H4), MK-9(H8)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19653 | 17234 | glucose | + | |
19653 | 22599 | arabinose | + | |
19653 | 17992 | sucrose | + | |
19653 | 18222 | xylose | + | |
19653 | 17268 | myo-inositol | + | |
19653 | 29864 | mannitol | + | |
19653 | 28757 | fructose | + | |
19653 | 26546 | rhamnose | + | |
19653 | 16634 | raffinose | + | |
19653 | 62968 | cellulose | + | |
68368 | 5291 | gelatin | + | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | + | hydrolysis |
68368 | 16947 | citrate | + | assimilation |
68368 | 18257 | ornithine | - | degradation |
68368 | 25094 | lysine | - | degradation |
68368 | 29016 | arginine | - | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | no |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68368 | 15688 | acetoin | - | |
68368 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | gelatinase | + | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | + | 3.5.1.5 |
68368 | ornithine decarboxylase | - | 4.1.1.17 |
68368 | lysine decarboxylase | - | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | - | 3.2.1.23 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19653 | + | + | + | + | + | + | + | + | + | + | + | + | - | - | - | + | + | + | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
19653 | - | - | - | - | + | - | + | - | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
11703 | decayed leaf of a deciduous tree from a pond | Saitamo | Japan | JPN | Asia |
67770 | Decayed leaf of deciduous tree | Saitama Pref. | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Pond (small) |
#Host | #Plants | #Decomposing plant |
#Host | #Plants | #Tree |
#Host Body-Site | #Plant | #Leaf (Phyllosphere) |
taxonmaps
- @ref: 69479
- File name: preview.99_67782.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_29278;97_36909;98_47765;99_67782&stattab=map
- Last taxonomy: Actinocorallia glomerata
- 16S sequence: AF134068
- Sequence Identity:
- Total samples: 221
- soil counts: 132
- aquatic counts: 3
- animal counts: 3
- plant counts: 83
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
11703 | 1 | Risk group (German classification) |
19653 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Actinomadura glomerata partial 16S rRNA gene, strain IMSNU 22179T | AJ293704 | 1509 | ena | 46203 |
20218 | Actinomadura glomerata 16S ribosomal RNA gene, partial sequence | AF134068 | 1454 | ena | 46203 |
20218 | Actinomadura glomerata 16S-23S ribosomal RNA intergenic spacer region, partial sequence | AF134098 | 381 | ena | 46203 |
20218 | Actinocorallia glomerata gene for 16S rRNA, partial sequence | D50660 | 1350 | ena | 46203 |
20218 | Actinocorallia glomerata gene for 16S rRNA, partial sequence, strain: NBRC 15960 | AB364591 | 1464 | ena | 46203 |
GC content
@ref | GC-content | method |
---|---|---|
11703 | 71.7 | |
67770 | 70.9 | high performance liquid chromatography (HPLC) |
External links
@ref: 11703
culture collection no.: DSM 44360, IFO 15960, JCM 9376, NBRC 15960, IMSNU 22179
straininfo link
- @ref: 85917
- straininfo: 50589
literature
- topic: Phylogeny
- Pubmed-ID: 26944933
- title: Actinocorallia lasiicapitis sp. nov., an actinomycete isolated from the head of an ant (Lasius fuliginosus L.).
- authors: Liu C, Li Y, Ye L, Zhao J, Piao C, Li Z, Li J, Xiang W, Wang X
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001005
- year: 2016
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Animals, Ants/*microbiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
11703 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44360) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44360 | |||
19653 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM44360.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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68368 | Automatically annotated from API 20E | |||||
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 | |||
85917 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID50589.1 | StrainInfo: A central database for resolving microbial strain identifiers |