Strain identifier

BacDive ID: 3034

Type strain: Yes

Species: Limnohabitans parvus

Strain Designation: II-B4

Culture col. no.: DSM 21592, CIP 109845, CCUG 56787

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 15832

BacDive-ID: 3034

DSM-Number: 21592

keywords: mesophilic, chemoorganotroph, aerobe, Bacteria, 16S sequence, genome sequence, gram-negative, rod-shaped

description: Limnohabitans parvus II-B4 is an aerobe, chemoorganotroph, mesophilic bacterium that was isolated from meso-eutrophic freshwater reservoir.

strain history: <- V. Kasalický, Inst. of Hydrobiology, Ceské Budéjovice

doi: 10.13145/bacdive3034.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/proteobacteria
  • domain: Bacteria
  • phylum: Proteobacteria
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Limnohabitans
  • species: Limnohabitans parvus
  • full scientific name: Limnohabitans parvus Kasalicky et al. 2010

@ref: 15832

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Limnohabitans

species: Limnohabitans parvus

full scientific name: Limnohabitans parvus Kasalický et al. 2010

strain designation: II-B4

type strain: yes

Morphology

cell morphology

  • @ref: 23094
  • gram stain: negative
  • cell length: 0.46-0.74 µm
  • cell width: 0.25-0.35 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony sizeincubation period
230941.0-2.0 mm2-5 days
610902 days

Culture and growth conditions

culture medium

@refnamegrowthlink
15832R2A MEDIUM (DSMZ Medium 830)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium830.pdf
23094Brain Heart Infusion agaryes
23094Casitone agaryes
23094lysogeny broth agaryes
23094nutrient broth soyotone yeast extract mediumyes
23094peptone agaryes
23094Reasoner's 2A agar (R2A)yes
23094standards method agaryes
23094tryptic soy broth agaryes
40072MEDIUM 701 - for -Limnicolayes

culture temp

@refgrowthtypetemperaturerange
15832positivegrowth28mesophilic
23094positivegrowth4.0-34.0
40072positivegrowth21psychrophilic
61090positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23094aerobe
23094facultative anaerobe
61090aerobe

nutrition type

  • @ref: 23094
  • type: chemoorganotroph

halophily

@refsaltgrowthtested relationconcentration
23094NaClnogrowth>0.5 %
23094NaClpositivegrowth0.0-0.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2309430089acetate-assimilation
2309417750betaine-assimilation
2309412936D-galactose-assimilation
230948391D-gluconate-assimilation
2309416988D-ribose-assimilation
2309424996lactate-assimilation
2309416236ethanol-assimilation
2309429805glycolate-assimilation
2309436655glyoxylate-assimilation
2309416467L-arginine-assimilation
2309416347L-carnitine-assimilation
2309415971L-histidine-assimilation
2309417295L-phenylalanine-assimilation
2309417115L-serine-assimilation
2309417266L-sorbose-assimilation
2309415792malonate-assimilation
23094506227N-acetylglucosamine-assimilation
2309430623oxalate-assimilation
2309416452oxaloacetate-assimilation
2309417272propionate-assimilation
2309416610spermidine-assimilation
2309417992sucrose-assimilation
23094309162-oxoglutarate+assimilation
2309417968butyrate+assimilation
2309416947citrate+assimilation
2309417634D-glucose+assimilation
2309416024D-mannose+assimilation
2309433871glycerate+assimilation
2309425115malate+assimilation
2309429806fumarate+assimilation
2309428300glutamine+assimilation
2309417754glycerol+assimilation
2309429985L-glutamate+assimilation
2309417203L-proline+assimilation
2309416828L-tryptophan+assimilation
2309415361pyruvate+assimilation
2309430031succinate+assimilation

enzymes

@refvalueactivityec
23094catalase+1.11.1.6
23094cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment culturesampling date
15832meso-eutrophic freshwater reservoirRimovCzech RepublicCZEEurope
23094Nutrient broth soyotone yeast extract (NSY) medium
61090FreshwaterRimov reservoirCzech RepublicCZEEurope2006-10-09

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Water reservoir (Aquarium/pool)
#Environmental#Aquatic#Freshwater

Safety information

risk assessment

  • @ref: 15832
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15832
  • description: Limnohabitans parvus partial 16S rRNA, IGS, tRNA-Ile, tRNA-Ala and 23S rRNA genes, type strain II-B4T
  • accession: FM165536
  • length: 2324
  • database: ena
  • NCBI tax ID: 1293052

Genome sequences

  • @ref: 66792
  • description: Limnohabitans parvus II-B4
  • accession: 1293052.5
  • assembly level: wgs
  • database: patric
  • NCBI tax ID: 1293052

GC content

@refGC-contentmethod
1583259.9high performance liquid chromatography (HPLC)
2309459.9

External links

@ref: 15832

culture collection no.: DSM 21592, CIP 109845, CCUG 56787

straininfo link

@refpassport
20218http://www.straininfo.net/strains/857593
20218http://www.straininfo.net/strains/857592

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15832Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21592)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21592
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
23094Vojtech Kasalick?,Jan Jezbera,Karel ?imek,Martin W. Hahn10.1099/ijs.0.018952-0Limnohabitans planktonicus sp. nov. and Limnohabitans parvus sp. nov., planktonic betaproteobacteria isolated from a freshwater reservoir, and emended description of the genus LimnohabitansIJSEM 60: 2710-2714 2010
40072Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7636
61090Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 56787)https://www.ccug.se/strain?id=56787
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)