Strain identifier

BacDive ID: 2079

Type strain: Yes

Species: Polynucleobacter acidiphobus

Strain Designation: MWH-PoolGreenA3

Strain history: CIP <- 2009, M. Hahn, Austrian Academy of Sciences, Inst. for Limnology, Mondsee, Austria: strain MWH-PoolGreenA3

NCBI tax ID(s): 556053 (species)

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General

@ref: 16087

BacDive-ID: 2079

DSM-Number: 21994

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

description: Polynucleobacter acidiphobus MWH-PoolGreenA3 is an aerobe, chemoorganotroph, mesophilic bacterium that was isolated from freshwater from a rock pool.

NCBI tax id

  • NCBI tax id: 556053
  • Matching level: species

strain history

@refhistory
16087<- M. W. Hahn, Austrian Academy of Sci., Inst. Limnology; MWH-PoolGreenA3
116004CIP <- 2009, M. Hahn, Austrian Academy of Sciences, Inst. for Limnology, Mondsee, Austria: strain MWH-PoolGreenA3

doi: 10.13145/bacdive2079.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Polynucleobacter
  • species: Polynucleobacter acidiphobus
  • full scientific name: Polynucleobacter acidiphobus Hahn et al. 2011

@ref: 16087

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Polynucleobacter

species: Polynucleobacter acidiphobus

full scientific name: Polynucleobacter acidiphobus Hahn et al. 2011

strain designation: MWH-PoolGreenA3

type strain: yes

Morphology

cell morphology

@refcell lengthcell widthcell shapemotilitygram stain
231640.5-1.4 µm0.4-0.5 µmrod-shapedno
116004rod-shapednonegative

colony morphology

@refincubation periodcolony shapemedium used
160873-7 days
23164circularNSY and R2A

pigmentation

  • @ref: 23164
  • production: no
  • name: no pigments

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16087NSY-MEDIUM FOR POLYNUCLEOBACTER (DSMZ Medium 1167)yeshttps://mediadive.dsmz.de/medium/1167Name: NSY-MEDIUM FOR POLYNUCLEOBACTER (DSMZ Medium 1167) Composition: Soy peptone 1.0 g/l Nutrient broth 1.0 g/l Yeast extract 1.0 g/l MgSO4 x 7 H2O 0.075 g/l Ca(NO3)2 x 4 H2O 0.043 g/l NaHCO3 0.016 g/l KCl 0.005 g/l K2HPO4 x 3 H2O 0.0037 g/l Na2-EDTA 5e-05 g/l H3BO3 3e-05 g/l CoCl2 x 6 H2O 2e-05 g/l FeSO4 x 7 H2O 2e-05 g/l ZnSO4 x 7 H2O 1e-05 g/l MnCl2 x 4 H2O 3e-06 g/l Na2MoO4 x 2 H2O 3e-06 g/l NiCl2 x 6 H2O 2e-06 g/l CuCl2 x 2 H2O 1e-06 g/l Tap water Distilled water
16087R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
23164NSY and R2Ayes
33656MEDIUM718 - for Polynucleobacter rarumyes
116004CIP Medium 751Ayeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=751A

culture temp

@refgrowthtypetemperaturerange
16087positivegrowth25mesophilic
23164nogrowth5psychrophilic
23164positivegrowth35mesophilic
33656positivegrowth25mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23164aerobe
23164facultative anaerobe

nutrition type

  • @ref: 23164
  • type: chemoorganotroph

halophily

@refsaltgrowthtested relationconcentration
23164NaClpositivemaximum0.3 %(w/v)
23164NaClpositivegrowth0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2316417750betaine-carbon source
2316416947citrate-carbon source
2316415824D-fructose-carbon source
2316428847D-fucose-carbon source
2316412936D-galactose-carbon source
2316418024D-galacturonic acid-carbon source
2316462318D-lyxose-carbon source
2316416024D-mannose-carbon source
2316417924D-sorbitol-carbon source
2316415740formate-carbon source
2316429806fumarate-carbon source
2316429805glycolate-carbon source
2316436655glyoxylate-carbon source
2316416977L-alanine-carbon source
2316417196L-asparagine-carbon source
2316429991L-aspartate-carbon source
2316429985L-glutamate-carbon source
2316417115L-serine-carbon source
23164391504-oxopentanoate-carbon source
2316430623oxalate-carbon source
2316417272propionate-carbon source
23164391504-oxopentanoate-growth
2316417750betaine-growth
2316416947citrate-growth
2316415824D-fructose-growth
2316428847D-fucose-growth
2316412936D-galactose-growth
2316418024D-galacturonic acid-growth
2316462318D-lyxose-growth
2316416024D-mannose-growth
2316417924D-sorbitol-growth
2316415740formate-growth
2316429806fumarate-growth
2316429805glycolate-growth
2316436655glyoxylate-growth
2316416977L-alanine-growth
2316417196L-asparagine-growth
2316429991L-aspartate-growth
2316429985L-glutamate-growth
2316430623oxalate-growth
2316417272propionate-growth
2316416094thiosulfate-growth
2316416199urea-growth
2316430089acetate+carbon source
2316417634D-glucose+carbon source
2316417561L-cysteine+carbon source
2316425115malate+carbon source
2316415792malonate+carbon source
2316416452oxaloacetate+carbon source
2316415361pyruvate+carbon source
2316430031succinate+carbon source
2316430089acetate+growth
2316417634D-glucose+growth
2316417561L-cysteine+growth
2316425115malate+growth
2316415792malonate+growth
2316416452oxaloacetate+growth
2316430031succinate+growth

enzymes

@refvalueactivityec
23164catalase+1.11.1.6
23164cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
16087freshwater from a rock poolCorsica, 42° 10' 21.05'' N 8° 53' 54.54''EFranceFRAEurope42.17258.8983
116004Environment, Freshwater, rock poolCorsicaFranceFRAEurope2005

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Aquatic#Pond (small)
#Environmental#Terrestrial#Geologic

taxonmaps

  • @ref: 69479
  • File name: preview.99_9186.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_74;97_77;98_6750;99_9186&stattab=map
  • Last taxonomy: Polynucleobacter acidiphobus
  • 16S sequence: FM208180
  • Sequence Identity:
  • Total samples: 1577
  • soil counts: 7
  • aquatic counts: 1532
  • animal counts: 34
  • plant counts: 4

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
160871Risk group (German classification)
1160041Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16087
  • description: Polynucleobacter acidiphobus 16S rRNA gene (partial), IGS and 23S rRNA gene (partial), strain MWH-PoolGreenA3
  • accession: FM208180
  • length: 2082
  • database: ena
  • NCBI tax ID: 556053

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Polynucleobacter acidiphobus MWH-PoolGreenA3GCA_003065385chromosomencbi556053
66792Polynucleobacter acidiphobus MWH-PoolGreenA32808606701completeimg556053

GC content

  • @ref: 16087
  • GC-content: 48.3
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 16087

culture collection no.: DSM 21994, CIP 110079

straininfo link

  • @ref: 71726
  • straininfo: 371502

literature

  • topic: Phylogeny
  • Pubmed-ID: 20435747
  • title: Polynucleobacter acidiphobus sp. nov., a representative of an abundant group of planktonic freshwater bacteria.
  • authors: Hahn MW, Lang E, Brandt U, Sproer C
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.023929-0
  • year: 2010
  • mesh: Aerobiosis, Anaerobiosis, Base Composition, Burkholderiaceae/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Culture Media/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16087Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21994)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21994
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
23164Martin W. Hahn, Elke Lang, Ulrike Brandt, Cathrin Spröer10.1099/ijs.0.023929-0Polynucleobacter acidiphobus sp. nov., a representative of an abundant group of planktonic freshwater bacteriaIJSEM 61: 788-794 201120435747
33656Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7896
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)
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
71726Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID371502.1StrainInfo: A central database for resolving microbial strain identifiers
116004Curators of the CIPCollection of Institut Pasteur (CIP 110079)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110079