Strain identifier

BacDive ID: 12632

Type strain: Yes

Species: Micropruina glycogenica

Strain Designation: Lg2

Strain history: T. Shintani Lg2.

NCBI tax ID(s): 75385 (species)

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General

@ref: 6182

BacDive-ID: 12632

DSM-Number: 15918

keywords: 16S sequence, Bacteria, mesophilic

description: Micropruina glycogenica Lg2 is a mesophilic bacterium that was isolated from activated sludge reactor showing enhanced biological phosphorous removal activity.

NCBI tax id

  • NCBI tax id: 75385
  • Matching level: species

strain history

@refhistory
6182<- JCM <- T. Shintani; Lg2
67770T. Shintani Lg2.

doi: 10.13145/bacdive12632.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Micropruina
  • species: Micropruina glycogenica
  • full scientific name: Micropruina glycogenica Shintani et al. 2000

@ref: 6182

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Micropruina

species: Micropruina glycogenica

full scientific name: Micropruina glycogenica Shintani et al. 2000

strain designation: Lg2

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19737Broom yellow (1032)10-14 daysISP 2
19737Broom yellow (1032)10-14 daysISP 3
19737Light ivory (1015)10-14 daysISP 4
19737Pastel yellow (1034)10-14 daysISP 5
19737Pastel yellow (1034)10-14 daysISP 6
19737Pastel yellow (1034)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19737noISP 2
19737noISP 3
19737noISP 4
19737noISP 5
19737noISP 6
19737noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6182MICROLUNATUS MEDIUM (DSMZ Medium 776)yeshttps://mediadive.dsmz.de/medium/776Name: MICROLUNATUS MEDIUM (DSMZ Medium 776) Composition: KH2PO4 0.5 g/l Na glutamate 0.5 g/l Yeast extract 0.5 g/l Peptone 0.5 g/l Glucose 0.5 g/l (NH4)2SO4 0.1 g/l MgSO4 x 7 H2O 0.1 g/l Distilled water
19737ISP 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
19737ISP 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:
19737ISP 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
19737ISP 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
19737ISP 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
19737ISP 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

culture temp

@refgrowthtypetemperaturerange
6182positivegrowth30mesophilic
19737positiveoptimum28mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

observation

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

enzymes

@refvalueactivityec
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19737----++--------++---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6182activated sludge reactor showing enhanced biological phosphorous removal activityJapanJPNAsia
67770Activated sludge reactor showing enhanced biological phosphorous removal activity

isolation source categories

Cat1Cat2Cat3
#Engineered#Bioreactor
#Engineered#Waste#Activated sludge

taxonmaps

  • @ref: 69479
  • File name: preview.99_53817.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_72;96_24068;97_30115;98_38506;99_53817&stattab=map
  • Last taxonomy: Micropruina glycogenica subclade
  • 16S sequence: LC076549
  • Sequence Identity:
  • Total samples: 962
  • soil counts: 29
  • aquatic counts: 789
  • animal counts: 139
  • plant counts: 5

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
61821Risk group (German classification)
197371Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
6182Micropruina glycogenica gene for 16S rRNA, partial sequenceAB0126071438ena75385
67770Micropruina glycogenica gene for 16S ribosomal RNA, partial sequence, strain: JCM 10248LC0765491476ena75385

GC content

  • @ref: 6182
  • GC-content: 70.5
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 6182

culture collection no.: DSM 15918, JCM 10248, NBRC 105859

straininfo link

  • @ref: 81845
  • straininfo: 100779

literature

  • topic: Phylogeny
  • Pubmed-ID: 10826805
  • title: Micropruina glycogenica gen. nov., sp. nov., a new Gram-positive glycogen-accumulating bacterium isolated from activated sludge.
  • authors: Shintani T, Liu WT, Hanada S, Kamagata Y, Miyaoka S, Suzuki T, Nakamura K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-50-1-201
  • year: 2000
  • mesh: Base Composition, Culture Media, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Glycogen/metabolism, Gram-Positive Cocci/chemistry/*classification/isolation & purification/physiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology
  • topic2: Cultivation

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6182Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15918)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15918
19737Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM15918.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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
81845Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100779.1StrainInfo: A central database for resolving microbial strain identifiers