Strain identifier

BacDive ID: 130741

Type strain: Yes

Species: Thermomonospora amylolytica

Strain history: W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 77502.

NCBI tax ID(s): 1411117 (species)

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General

@ref: 22033

BacDive-ID: 130741

DSM-Number: 45822

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, thermophilic

description: Thermomonospora amylolytica DSM 45822 is a spore-forming, thermophilic bacterium that builds an aerial mycelium and was isolated from geothermally heated soil.

NCBI tax id

  • NCBI tax id: 1411117
  • Matching level: species

strain history

@refhistory
22033<- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM 77502 <- E.-M. Zhou, Yunnan Inst. of Microbiology
67770W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 77502.

doi: 10.13145/bacdive130741.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Thermomonosporaceae
  • genus: Thermomonospora
  • species: Thermomonospora amylolytica
  • full scientific name: Thermomonospora amylolytica (Jiao et al. 2015) Nouioui et al. 2018

  • synonyms

    • @ref: 20215
    • synonym: Actinomadura amylolytica

@ref: 22033

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Thermomonosporaceae

genus: Thermomonospora

species: Thermomonospora amylolytica

full scientific name: Thermomonospora amylolytica (Jiao et al. 2015) Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.818
69480100positive

colony morphology

@refcolony colormedium used
69444Grey beige (1019)ISP 7
69444Beige (1001)ISP 2
69444Grey beige (1019), stone grey (7030)suter with tyrosine
69444Ivory (1014)suter without tyrosine
69444Light ivory (1015)ISP 3
69444Light ivory (1015)ISP 4
69444Light ivory (1015)ISP 5
69444Sand yellow (1002)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69444yesAerial myceliumTraffic white (9016)ISP 2
69444yesAerial myceliumOyster white (1013)ISP 3
69444noAerial myceliumISP 4
69444noAerial myceliumISP 5
69444noAerial myceliumISP 6
69444noAerial myceliumISP 7
69444noAerial myceliumsuter with tyrosine
69444noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69444yesMelanin
69444yessoluble pigmentSand yellow (1002), ocher brown (8001), clay brown (8003) , copper brown (8004)

multimedia

@refmultimedia contentcaptionintellectual property rights
69444DSM_45822_image3.jpegPlates 45°C (553, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69444DSM_45822_image4.jpegPlates 45°C (553, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22033GPHF-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
22033GYM 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
22033TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22033positivegrowth45thermophilic
67770positivegrowth45thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

  • @ref: 69444
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6944422599arabinose+growth
6944462968cellulose-growth
6944428757fructose+/-growth
6944417234glucose+growth
6944417268inositol+/-growth
6944437684mannose+/-growth
6944416634raffinose-growth
6944426546rhamnose+growth
6944417992sucrose+/-growth
6944418222xylose+growth
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
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
68379alkaline phosphatase+3.1.3.1
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
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69444---+----+-++-----+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69444++++++++++/-+/-----+/----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22033geothermally heated soilYunnan Province, Tengchong countyChinaCHNAsia
67770Geothermally heated soilTengchong, Yunnan Province, south-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Thermophilic (>45°C)
#Environmental#Aquatic

Safety information

risk assessment

  • @ref: 22033
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22033
  • description: Actinomadura amylolytica gene for 16S ribosomal RNA, partial sequence
  • accession: AB859253
  • length: 1540
  • database: ena
  • NCBI tax ID: 1411117

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermomonospora amylolytica YIM 77502GCA_003589885completencbi1411117
66792Actinomadura amylolytica strain YIM 775021411117.3completepatric1411117
66792Actinomadura amylolytica YIM 775022856830813completeimg1411117

GC content

  • @ref: 22033
  • GC-content: 71.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno92.957no
flagellatedno98.103no
gram-positiveyes88.946no
anaerobicno97.934no
aerobicyes84.761no
halophileno92.115no
spore-formingyes92.793no
glucose-utilyes87.2no
thermophileno82.801yes
glucose-fermentno91.144no

External links

@ref: 22033

culture collection no.: DSM 45822, CCTCC AA 2012024, YIM 77502, JCM 30324

straininfo link

  • @ref: 89241
  • straininfo: 402203

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25944084Actinomadura amylolytica sp. nov. and Actinomadura cellulosilytica sp. nov., isolated from geothermally heated soil.Jiao JY, Liu L, Zhou EM, Wei DQ, Ming H, Xian WD, Yuan CG, Zhong JM, Li WJAntonie Van Leeuwenhoek10.1007/s10482-015-0465-82015Actinobacteria/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Geothermal Energy, Hot Temperature, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytologyStress
Metabolism30619214Expression and Characteristics of Two Glucose-Tolerant GH1 beta-glucosidases From Actinomadura amylolytica YIM 77502(T) for Promoting Cellulose Degradation.Yin YR, Sang P, Xian WD, Li X, Jiao JY, Liu L, Hozzein WN, Xiao M, Li WJFront Microbiol10.3389/fmicb.2018.031492018

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22033Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45822Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45822)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69444Wink, J.Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweighttps://cdn.dsmz.de/wink/DSM%2045822.pdf
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
89241Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID402203.1