Strain identifier

BacDive ID: 7795

Type strain: Yes

Species: Actinocatenispora thailandica

Strain Designation: TT2-10

Strain history: CIP <- 2006, JCM <- 2004, C. Thawai, Scien. Fac., Bangkok, Thailand: strain TT2-10

NCBI tax ID(s): 227318 (species)

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General

@ref: 12100

BacDive-ID: 7795

DSM-Number: 44816

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

description: Actinocatenispora thailandica TT2-10 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 227318
  • Matching level: species

strain history

@refhistory
12100<- Ch. Thawai; TT2-10
67770C. Thawai TT2-10.
123496CIP <- 2006, JCM <- 2004, C. Thawai, Scien. Fac., Bangkok, Thailand: strain TT2-10

doi: 10.13145/bacdive7795.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Actinocatenispora
  • species: Actinocatenispora thailandica
  • full scientific name: Actinocatenispora thailandica Thawai et al. 2006

@ref: 12100

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Actinocatenispora

species: Actinocatenispora thailandica

full scientific name: Actinocatenispora thailandica Thawai et al. 2006

strain designation: TT2-10

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31699positive0.5-1 µm0.3-0.4 µmrod-shapedno
69480positive100
123496positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium used
20127Melon yellow (1028)10-14 daysISP 2
20127Melon yellow (1028)10-14 daysISP 3
20127Melon yellow (1028)10-14 daysISP 4
20127Melon yellow (1028)10-14 daysISP 5
20127Melon yellow (1028)10-14 daysISP 6
20127Melon yellow (1028)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
20127noISP 2
20127noISP 3
20127noISP 4
20127noISP 5
20127noISP 6
20127noISP 7

pigmentation

  • @ref: 31699
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12100ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: 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
12100ISP2 MEDIUM (DSMZ Medium 987)yeshttps://mediadive.dsmz.de/medium/987Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water
20127ISP 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
20127ISP 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:
20127ISP 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
20127ISP 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
20127ISP 6yesName: 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
20127ISP 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
37520MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicumyesDistilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g)
12100GPHF-MEDIUM (DSMZ Medium 553)yeshttps://mediadive.dsmz.de/medium/553Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
123496CIP Medium 116yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116

culture temp

@refgrowthtypetemperaturerange
20127positiveoptimum28mesophilic
12100positivegrowth28mesophilic
31699positivegrowth25-40
31699positiveoptimum25-30mesophilic
37520positivegrowth30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepH
31699positivegrowth4.5-7
31699positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31699aerobe
123496obligate aerobe

spore formation

@refspore formationconfidence
31699yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
31699NaClpositivegrowth0-7 %
31699NaClpositiveoptimum0-7 %

observation

@refobservation
31699aggregates in chains
67770quinones: MK-9(H4), MK-9(H6)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3169917057cellobiose+carbon source
3169917234glucose+carbon source
3169917754glycerol+carbon source
3169929864mannitol+carbon source
3169928053melibiose+carbon source
3169916634raffinose+carbon source
3169917814salicin+carbon source
3169917632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin+builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12349617632nitrate-reduction
12349616301nitrite+reduction

metabolite production

  • @ref: 123496
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31699cytochrome oxidase+1.9.3.1
123496oxidase-
123496gelatinase+
123496catalase+1.11.1.6
123496urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382cystine arylamidase-3.4.11.3
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
20127++++++-++++++-++++-
123496++-------++-+-++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123496------------------------+------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12100soilPattalung PrefectureThailandTHAAsia
67770Peat swamp forest soilPattaloong ProvinceThailandTHAAsia
123496Environment, Soil, peat swamp forrestPattaloongThailandTHAAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_5573.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_2691;97_3305;98_4159;99_5573&stattab=map
  • Last taxonomy: Actinocatenispora
  • 16S sequence: AB107233
  • Sequence Identity:
  • Total samples: 5356
  • soil counts: 2874
  • aquatic counts: 438
  • animal counts: 1016
  • plant counts: 1028

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
121001Risk group (German classification)
201271German classification
1234961Risk group (French classification)

Sequence information

16S sequences

  • @ref: 12100
  • description: Actinocatenispora thailandica gene for 16S rRNA, partial sequence, strain: TT2-10
  • accession: AB107233
  • length: 1444
  • database: ena
  • NCBI tax ID: 227318

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinocatenispora thailandica NBRC 105041GCA_016865425completencbi227318
66792Actinocatenispora thailandica strain NBRC 105041227318.3completepatric227318

GC content

@refGC-contentmethod
1210072
6777072.2high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno98.719no
gram-positiveyes90.396yes
anaerobicno98.438yes
aerobicyes90.555no
halophileno87.891no
spore-formingyes91.009yes
thermophileno97.353yes
glucose-utilyes88.922yes
motileno92.143yes
glucose-fermentno89.602no

External links

@ref: 12100

culture collection no.: DSM 44816, JCM 12343, PCU 235, BCRC 16831, CGMCC 4.5560, CIP 109347, NBRC 105041, NCIMB 14320

straininfo link

  • @ref: 77237
  • straininfo: 143339

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16902009Actinocatenispora thailandica gen. nov., sp. nov., a new member of the family Micromonosporaceae.Thawai C, Tanasupawat S, Itoh T, Kudo TInt J Syst Evol Microbiol10.1099/ijs.0.64081-02006Carbohydrates/analysis, Micromonosporaceae/chemistry/*classification/isolation & purification/physiology, Molecular Sequence Data, Muramic Acids/analysis, Phenotype, Phospholipids/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Soil Microbiology, Species Specificity, Spores, Bacterial, Thailand, TreesGenetics
Phylogeny17978234Actinocatenispora sera sp. nov., isolated by long-term culturing.Matsumoto A, Takahashi Y, Fukumoto M, Omura SInt J Syst Evol Microbiol10.1099/ijs.0.65270-02007Bacterial Typing Techniques, Base Composition, Culture Media, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Micromonosporaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Time FactorsCultivation
Phylogeny19643893Actinocatenispora rupis sp. nov., isolated from cliff soil, and emended description of the genus Actinocatenispora.Seo SH, Lee SDInt J Syst Evol Microbiol10.1099/ijs.0.012922-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Micromonosporaceae/*classification/genetics/*isolation & purification, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Soil MicrobiologyGenetics
Phylogeny34242158Actinocatenispora comari sp. nov., an endophytic actinomycete isolated from aerial parts of Comarum salesowianum.Oyunbileg N, Iizaka Y, Hamada M, Davaapurev BO, Fukumoto A, Tsetseg B, Kato F, Tamura T, Batkhuu J, Anzai YInt J Syst Evol Microbiol10.1099/ijsem.0.0048612021Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Endophytes/classification/isolation & purification, Fatty Acids/chemistry, Micromonosporaceae/*classification/isolation & purification, Mongolia, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Components, Aerial/*microbiology, RNA, Ribosomal, 16S/genetics, Rosacea/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12100Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44816)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44816
20127Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44816.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
31699Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2797628776041
37520Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7078
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/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
77237Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID143339.1StrainInfo: A central database for resolving microbial strain identifiers
123496Curators of the CIPCollection of Institut Pasteur (CIP 109347)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109347