Strain identifier

BacDive ID: 16479

Type strain: Yes

Species: Streptomyces coacervatus

Strain Designation: AS-0823

Strain history: A. Shibazaki AS-0823.

NCBI tax ID(s): 647381 (species)

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General

@ref: 16594

BacDive-ID: 16479

DSM-Number: 41983

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive

description: Streptomyces coacervatus AS-0823 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from intestinal tract of the common pill woodlouse Armadillidium vulgare.

NCBI tax id

  • NCBI tax id: 647381
  • Matching level: species

strain history

@refhistory
16594<- T. Gonoi, Chiba Univ.; AS-0823 <- A. Shibazaki
67770A. Shibazaki AS-0823.

doi: 10.13145/bacdive16479.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces coacervatus
  • full scientific name: Streptomyces coacervatus Shibazaki et al. 2011

@ref: 16594

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces coacervatus

full scientific name: Streptomyces coacervatus Shibazaki et al. 2011

strain designation: AS-0823

type strain: yes

Morphology

cell morphology

  • @ref: 29705
  • gram stain: positive

colony morphology

@refcolony colorincubation periodmedium used
21419Green beige (1000)10-14 daysISP 2
21419Pale brown (8025)/ Sand yellow (1002)10-14 daysISP 3
21419Ivory (1014)10-14 daysISP 4
21419Ivory (1014)/ Pebble grey (7032)10-14 daysISP 5
21419Khaki grey (7008)10-14 daysISP 7
21419Sand yellow (1002)10-14 daysSuter with tyrosine
21419Sand yellow (1002)/ Clay brown (8003)10-14 daysSuter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
21419yesAerial MyceliumSignal white (9003)ISP 2
21419yesAerial MyceliumPure white (9010)ISP 3
21419noISP 4
21419yesAerial MyceliumSignal white (9003)ISP 5
21419yesAerial MyceliumSignal white (9003)ISP 7
21419yesAerial MyceliumSuter with tyrosine
21419yesAerial MyceliumSuter without tyrosine

pigmentation

  • @ref: 29705
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16594GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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
21419ISP 2yesName: 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
21419ISP 3yesName: 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:
21419ISP 4yesName: 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
21419ISP 5yesName: 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
21419ISP 7yesName: 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
21419Suter with tyrosineyesName: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes
21419Suter without tyrosineyesName: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes

culture temp

@refgrowthtypetemperaturerange
16594positivegrowth28mesophilic
29705positivegrowth10-37
29705positiveoptimum23.5psychrophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
29705positivegrowth06-09alkaliphile
29705positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29705
  • oxygen tolerance: aerobe

spore formation

  • @ref: 29705
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
21419NaClpositivemaximum10 %
29705NaClpositivegrowth<4 %

observation

  • @ref: 29705
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2141917234glucose+
2141922599arabinose+
2141917992sucrose+
2141918222xylose+
2141917268myo-inositol+
2141937684mannose+
2141928757fructose+
2141926546rhamnose+
2141916634raffinose+
2141962968cellulose-
2970522599arabinose+carbon source
2970522653asparagine+carbon source
2970528757fructose+carbon source
297055291gelatin+carbon source
2970529864mannitol+carbon source
2970517268myo-inositol+carbon source
2970516634raffinose+carbon source
2970526546rhamnose+carbon source
2970517992sucrose+carbon source
2970518222xylose+carbon source
2970517632nitrate+reduction
6837917632nitrate-reduction
683794853esculin+hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
29705gelatinase+
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase+3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
21419---+/--++-+----------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
21419+++-+----++++-++++/--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16594intestinal tract of the common pill woodlouse Armadillidium vulgareArmadillidium vulgareChiba CityJapanJPNAsia
67770Intestinal tract of Armadillidium vulgareArmadillidium vulgareChiba CityJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Crustacea
#Host Body-Site#Gastrointestinal tract

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
165941Risk group (German classification)
21419L1German classification

Sequence information

16S sequences

  • @ref: 16594
  • description: Streptomyces coacervatus gene for 16S ribosomal RNA, partial sequence
  • accession: AB500703
  • length: 1496
  • database: ena
  • NCBI tax ID: 647381

Genome sequences

  • @ref: 66792
  • description: Streptomyces coacervatus JCM 17138
  • accession: GCA_029223485
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 647381

GC content

@refGC-contentmethod
1659473.5high performance liquid chromatography (HPLC)
2970573.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno91.633no
flagellatedno97.419no
gram-positiveyes92.007yes
anaerobicno97.635yes
aerobicyes78.389no
halophileno69.293no
spore-formingno54.01yes
glucose-fermentno65.53no
thermophileno98.816yes
glucose-utilyes83.189no

External links

@ref: 16594

culture collection no.: DSM 41983, IFM 11055, JCM 17138

straininfo link

  • @ref: 85514
  • straininfo: 407645

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20525817Streptomyces coacervatus sp. nov., isolated from the intestinal tract of Armadillidium vulgare.Shibazaki A, Omoto Y, Kudo T, Yaguchi T, Saito A, Ando A, Mikami Y, Gonoi TInt J Syst Evol Microbiol10.1099/ijs.0.019091-02010Animals, DNA, Bacterial/genetics, Fatty Acids/metabolism, Intestines/microbiology, Isopoda/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Streptomyces/*classification/genetics/*isolation & purification/metabolismMetabolism
Phylogeny30816228Streptomyces monashensis sp. nov., a novel mangrove soil actinobacterium from East Malaysia with antioxidative potential.Law JW, Ser HL, Ab Mutalib NS, Saokaew S, Duangjai A, Khan TM, Chan KG, Goh BH, Lee LHSci Rep10.1038/s41598-019-39592-62019Antineoplastic Agents/isolation & purification/metabolism/*pharmacology, Antioxidants/isolation & purification/metabolism/*pharmacology, Bacterial Typing Techniques, Base Composition, Cell Survival/drug effects, DNA, Bacterial/isolation & purification, HCT116 Cells, Humans, Malaysia, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/genetics/isolation & purification/*metabolism, Superoxides/antagonists & inhibitorsEnzymology
Phylogeny32375929Streptomyces montanus sp. nov., a novel actinomycete isolated from soil.Jiang H, Han L, Li J, Yu M, Zhao J, Guo X, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0041602020Actinobacteria/genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16594Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41983)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41983
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
21419Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41983.pdfCompendium of Actinobacteria . HZI-Helmholtz-Centre for Infection Research, Braunschweig
29705Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2608828776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
85514Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407645.1StrainInfo: A central database for resolving microbial strain identifiers