Strain identifier

BacDive ID: 12613

Type strain: Yes

Species: Microlunatus capsulatus

Strain Designation: J47, Ben-108

Strain history: CIP <- 2001, M. Dougall, Victoria, Australia: strain Ben-108

NCBI tax ID(s): 99117 (species)

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General

@ref: 4864

BacDive-ID: 12613

DSM-Number: 12936

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic

description: Microlunatus capsulatus J47 is an aerobe, mesophilic bacterium that was isolated from activated sludge.

NCBI tax id

  • NCBI tax id: 99117
  • Matching level: species

strain history

@refhistory
4864<- A.M. Maszenan <- J.A. Soddell; J47 (= Ben 108)
67770DSM 12936 <-- A. M. Maszenan <-- J. A. Soddell J47 (=Ben 108).
117174CIP <- 2001, M. Dougall, Victoria, Australia: strain Ben-108

doi: 10.13145/bacdive12613.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Microlunatus
  • species: Microlunatus capsulatus
  • full scientific name: Microlunatus capsulatus (Maszenan et al. 1999) Nouioui et al. 2018

  • synonyms

    • @ref: 20215
    • synonym: Friedmanniella capsulata

@ref: 4864

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Microlunatus

species: Microlunatus capsulatus

full scientific name: Microlunatus capsulatus (Maszenan et al. 1999) Nouioui et al. 2018

strain designation: J47, Ben-108

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no96.8
69480100positive
117174nopositivecoccus-shaped

colony morphology

@refcolony colorincubation periodmedium used
18503Dahlia yellow (1033)10-14 daysISP 2
18503Dahlia yellow (1033)10-14 daysISP 3
18503Dahlia yellow (1033)10-14 daysISP 4
18503Dahlia yellow (1033)10-14 daysISP 5
18503Dahlia yellow (1033)10-14 daysISP 6
18503Dahlia yellow (1033)10-14 daysISP 7
117174

multicellular morphology

@refforms multicellular complexmedium name
18503noISP 2
18503noISP 3
18503noISP 4
18503noISP 5
18503noISP 6
18503noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4864TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
18503ISP 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
18503ISP 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:
18503ISP 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
18503ISP 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
18503ISP 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
18503ISP 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
33708MEDIUM 4 - Columbia agar with 20 % sterile defibrinated horse serumyesHorse serum (200.000 ml);Columbia agar (39.000 g);Distilled water make up to (1000.000 ml)
117174CIP Medium 4yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=4
117174CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
4864positivegrowth28mesophilic
18503positiveoptimum28mesophilic
33708positivegrowth25mesophilic
55690positivegrowth37mesophilic
55690positivegrowth28-37mesophilic
67770positivegrowth28mesophilic
117174positivegrowth10-30
117174nogrowth37mesophilic
117174nogrowth41thermophilic
117174nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55690aerobe
55690microaerophile
117174obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.226

halophily

@refsaltgrowthtested relationconcentration
117174NaClpositivegrowth0-4 %
117174NaClnogrowth6 %
117174NaClnogrowth8 %
117174NaClnogrowth10 %

murein

  • @ref: 4864
  • murein short key: A42.01
  • type: A3gamma' LL-Dpm-Gly

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2), MK-7(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1850362968cellulose+
1850316634raffinose+
1850326546rhamnose+
1850328757fructose+
1850329864mannitol+
1850317268myo-inositol+
1850318222xylose+
1850317992sucrose+
1850322599arabinose+
1850317234glucose+
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11717416947citrate-carbon source
1171744853esculin+hydrolysis
117174606565hippurate+hydrolysis
11717417632nitrate-reduction
11717416301nitrite-reduction
11717417632nitrate-respiration
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

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11717435581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
11717415688acetoin-
11717417234glucose-

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
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
117174oxidase-
117174beta-galactosidase+3.2.1.23
117174alcohol dehydrogenase-1.1.1.1
117174gelatinase-
117174amylase+
117174DNase-
117174caseinase-3.4.21.50
117174catalase+1.11.1.6
117174tween esterase-
117174gamma-glutamyltransferase+2.3.2.2
117174lysine decarboxylase-4.1.1.18
117174ornithine decarboxylase-4.1.1.17
117174phenylalanine ammonia-lyase-4.3.1.24
117174tryptophan deaminase-
117174urease+3.5.1.5
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
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+
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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18503--++-++-+--------+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18503+-+-++---++++-+++++
117174-++-+----++---++--+-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18503----+------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
4864activated sludgeQueensland, Hayman IslandAustraliaAUSAustralia and Oceania
55690Activated sludgeAustraliaAUSAustralia and Oceania
67770Activated sludge biomassHayman Island, QueenslandAustraliaAUSAustralia and Oceania
117174Environment, Activated sludgeAustraliaAUSAustralia and Oceania1992

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Activated sludge

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185031
48641Risk group (German classification)
1171741Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
4864Friedmanniella capsulata 16S ribosomal RNA gene, partial sequenceAF0845291477ena99117
67770Friedmanniella capsulata gene for 16S ribosomal RNA, partial sequence, strain: JCM 13522LC1139051461ena99117

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Microlunatus capsulatus DSM 12936GCA_017876495contigncbi99117
66792Microlunatus capsulatus strain DSM 1293699117.3wgspatric99117
66792Friedmanniella capsulata DSM 129362918354206draftimg99117

GC content

@refGC-contentmethod
486474high performance liquid chromatography (HPLC)
6777074thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno82no
motileno94.527no
flagellatedno98.646no
gram-positiveyes89.928no
anaerobicno99.131no
halophileno95.186no
spore-formingno75.824no
thermophileno99.607yes
glucose-utilyes86.88yes
aerobicyes94.212no
glucose-fermentno89.386yes

External links

@ref: 4864

culture collection no.: DSM 12936, ACM 5120, JCM 13522, CCUG 43143, Ben 108, CIP 107259, KACC 14261

straininfo link

  • @ref: 81827
  • straininfo: 49384

literature

  • topic: Phylogeny
  • Pubmed-ID: 10555348
  • title: Friedmanniella spumicola sp. nov. and Friedmanniella capsulata sp. nov. from activated sludge foam: gram-positive cocci that grow in aggregates of repeating groups of cocci.
  • authors: Maszenan AM, Seviour RJ, Patel BK, Schumann P, Burghardt J, Webb RI, Soddell JA, Rees GN
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-49-4-1667
  • year: 1999
  • mesh: Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Microscopy, Electron, Molecular Sequence Data, Phylogeny, Propionibacteriaceae/*chemistry/*classification/cytology/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
4864Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12936)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12936
18503Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM12936.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
33708Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4675
55690Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43143)https://www.ccug.se/strain?id=43143
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/
68368Automatically annotated from API 20E
68379Automatically annotated from API Coryne
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)
81827Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49384.1StrainInfo: A central database for resolving microbial strain identifiers
117174Curators of the CIPCollection of Institut Pasteur (CIP 107259)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107259