Strain identifier

BacDive ID: 7490

Type strain: Yes

Species: Subtercola boreus

Strain Designation: K300

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General

@ref: 4889

BacDive-ID: 7490

DSM-Number: 13056

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

description: Subtercola boreus K300 is an aerobe, psychrophilic bacterium that was isolated from groundwater.

strain history

doi: 10.13145/bacdive7490.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinobacteria
  • domain: Bacteria
  • phylum: Actinobacteria
  • class: Actinobacteria
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Subtercola
  • species: Subtercola boreus
  • full scientific name: Subtercola boreus Männistö et al. 2000

@ref: 4889

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Subtercola

species: Subtercola boreus

full scientific name: Subtercola boreus Männistö et al. 2000

strain designation: K300

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
18504Golden yellow (1004)10-14 daysISP 2
18504Golden yellow (1004)10-14 daysISP 3
18504Golden yellow (1004)10-14 daysISP 4
18504Golden yellow (1004)10-14 daysISP 5
18504Golden yellow (1004)10-14 daysISP 6
18504Golden yellow (1004)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18504noISP 2
18504noISP 3
18504noISP 4
18504noISP 5
18504noISP 6
18504noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4889R2A MEDIUM (DSMZ Medium 830)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium830.pdf
18504ISP 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
18504ISP 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:
18504ISP 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
18504ISP 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
18504ISP 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
18504ISP 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
40666MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)

culture temp

@refgrowthtypetemperaturerange
18504positiveoptimum22psychrophilic
4889positivegrowth24psychrophilic
40666positivegrowth20psychrophilic
55684positivegrowth20psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 55684
  • oxygen tolerance: aerobe

murein

  • @ref: 4889
  • murein short key: B07
  • type: B2gamma {Gly} [L-Dab] D-Glu-D-Dab

metabolite utilization

@refChebi-IDmetaboliteutilization activity
1850462968cellulose+
1850416634raffinose+
1850426546rhamnose+
1850428757fructose+
1850429864mannitol+
1850417268myo-inositol+
1850418222xylose+
1850417992sucrose+
1850422599arabinose+
1850417234glucose+

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18504-+--+-+-+----------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18504+---++---+----++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18504+---+------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
4889groundwaterFinlandFINEurope
55684Groundwater of a shallow aquifer (18m depth)FinlandFINEuropeSouth,glacial gravel ridge

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Groundwater

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
185041German classification
48891Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Subtercola boreus partial 16S rRNA gene, type strain DSM 13056AM4106741467ena120213
4889Subtercola frigoramans 16S ribosomal RNA gene, partial sequenceAF2247231473ena120298

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Subtercola boreus K300GCA_003399685contigncbi120213
66792Subtercola boreus DSM 13056GCA_006716115contigncbi120213
66792Subtercola boreus P28004GCA_003399545contigncbi120213
66792Subtercola boreus P27924GCA_003399605contigncbi120213
66792Subtercola boreus P27979GCA_003399645contigncbi120213
66792Subtercola boreus P27444GCA_003399625contigncbi120213
66792Subtercola boreus P27479GCA_003399635contigncbi120213
66792Subtercola boreus strain DSM 13056120213.9wgspatric120213
66792Subtercola boreus strain K300120213.8wgspatric120213
66792Subtercola boreus strain P27444120213.5wgspatric120213
66792Subtercola boreus strain P27479120213.6wgspatric120213
66792Subtercola boreus strain P27924120213.4wgspatric120213
66792Subtercola boreus strain P27979120213.7wgspatric120213
66792Subtercola boreus strain P28004120213.3wgspatric120213
66792Subtercola boreus DSM 130562814123445permanentimg120213

GC content

  • @ref: 4889
  • GC-content: 68
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 4889

culture collection no.: DSM 13056, ATCC BAA 168, CCUG 43135, JCM 11267

straininfo link

@refpassport
20218http://www.straininfo.net/strains/119004
20218http://www.straininfo.net/strains/119003
20218http://www.straininfo.net/strains/119006
20218http://www.straininfo.net/strains/163463

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4889Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13056)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13056
18504Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM13056.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
20215D.Gleim, M.Kracht, N.Weiss et. al.http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.htmlProkaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since
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
40666Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19134
55684Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43135)https://www.ccug.se/strain?id=43135
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)