Strain identifier

BacDive ID: 16988

Type strain: Yes

Species: Actinomadura catellatispora

Strain Designation: 3.24

Strain history: CIP <- 2003, JCM <- 1999, Z. Liu: strain 3.24

NCBI tax ID(s): 95160 (species)

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General

@ref: 12077

BacDive-ID: 16988

DSM-Number: 44772

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

description: Actinomadura catellatispora 3.24 is an obligate aerobe, spore-forming, mesophilic bacterium that was isolated from mud sample taken from a sewage ditch.

NCBI tax id

  • NCBI tax id: 95160
  • Matching level: species

strain history

@refhistory
12077<- CGMCC
67770Z. Liu 3.24.
117213CIP <- 2003, JCM <- 1999, Z. Liu: strain 3.24

doi: 10.13145/bacdive16988.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Thermomonosporaceae
  • genus: Actinomadura
  • species: Actinomadura catellatispora
  • full scientific name: Actinomadura catellatispora Lu et al. 2003

@ref: 12077

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Thermomonosporaceae

genus: Actinomadura

species: Actinomadura catellatispora

full scientific name: Actinomadura catellatispora Lu et al. 2003

strain designation: 3.24

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
117213positivefilament-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12077GYM 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
33179MEDIUM 275 - for Actinomadura rugatobispora and Actinomadura verrucososporayesDistilled water make up to (1000.000 ml);Sodium chloride (1.000 g);Magnesium sulphate heptahydrate (1.000 g);Agar (20.000 g);Ammonium sulphate (2.000 g);Starch maize (10.000 g);Calcium carbonate (2.000 g);Trace salt solution - M00447 (1.000 ml)
12077N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://mediadive.dsmz.de/medium/554Name: 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
117213CIP Medium 275yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=275

culture temp

@refgrowthtypetemperaturerange
12077positivegrowth28mesophilic
33179positivegrowth30mesophilic
67770positivegrowth28mesophilic
117213positivegrowth30-41
117213nogrowth5psychrophilic
117213nogrowth15psychrophilic
117213nogrowth22psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 117213
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
117213NaClpositivegrowth0 %
117213NaClnogrowth2 %
117213NaClnogrowth4 %
117213NaClnogrowth6 %
117213NaClnogrowth8 %
117213NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H4), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1172134853esculin+hydrolysis
11721317632nitrate+reduction
11721316301nitrite-reduction
11721317632nitrate-respiration

metabolite production

  • @ref: 117213
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11721315688acetoin+
11721317234glucose-

enzymes

@refvalueactivityec
117213oxidase-
117213beta-galactosidase-3.2.1.23
117213alcohol dehydrogenase-1.1.1.1
117213gelatinase+/-
117213amylase-
117213DNase-
117213caseinase-3.4.21.50
117213catalase+1.11.1.6
117213tween esterase-
117213gamma-glutamyltransferase-2.3.2.2
117213lecithinase-
117213lipase-
117213lysine decarboxylase-4.1.1.18
117213ornithine decarboxylase-4.1.1.17
117213phenylalanine ammonia-lyase-4.3.1.24
117213protease-
117213tryptophan deaminase-
117213urease-3.5.1.5
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-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117213--++-+---+-+--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12077mud sample taken from a sewage ditchCanton Province, Zhanjiang CityChinaCHNAsia
67770Mud from a sewage ditchZhanjiang City, Canton ProvinceChinaCHNAsia
117213Environment, Mud from a sewage ditchZhanjiangChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Wastewater
#Environmental#Terrestrial#Mud (Sludge)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
120771Risk group (German classification)
1172131Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Actinomadura catellatospora 16S ribosomal RNA, partial sequence
  • accession: AF154127
  • length: 1452
  • database: ena
  • NCBI tax ID: 95160

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinomadura catellatispora DSM 44772GCA_014205085contigncbi95160
66792Actinomadura catellatispora strain DSM 4477295160.4wgspatric95160
66792Actinomadura catellatispora DSM 447722870794168draftimg95160

GC content

  • @ref: 67770
  • GC-content: 70.8
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno92.735no
flagellatedno98.426no
gram-positiveyes91.402no
anaerobicno98.159no
halophileno81.012no
spore-formingyes89.847no
thermophileno95.422yes
glucose-utilyes88.134no
aerobicyes86.119no
glucose-fermentno90.79no

External links

@ref: 12077

culture collection no.: DSM 44772, AS 4.1522, IFO 16341, NBRC 16341, JCM 10667, CGMCC 4.1522, CIP 107903

straininfo link

  • @ref: 85991
  • straininfo: 100473

literature

  • topic: Phylogeny
  • Pubmed-ID: 12656165
  • title: Actinomadura catellatispora sp. nov. and Actinomadura glauciflava sp. nov., from a sewage ditch and soil in southern China.
  • authors: Lu Z, Wang L, Zhang Y, Shi Y, Liu Z, Quintana ET, Goodfellow M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02243-0
  • year: 2003
  • mesh: Actinomycetales/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12077Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44772)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44772
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
33179Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5466
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/
68382Automatically annotated from API zym
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
85991Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100473.1StrainInfo: A central database for resolving microbial strain identifiers
117213Curators of the CIPCollection of Institut Pasteur (CIP 107903)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107903