Strain identifier

BacDive ID: 13690

Type strain: No

Species: Pannonibacter phragmitetus

Strain Designation: C6/8

Strain history: <- A. K. Borsodi; C6/8

NCBI tax ID(s): 121719 (species)

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General

@ref: 5534

BacDive-ID: 13690

DSM-Number: 14780

keywords: rod-shaped, motile, Gram-negative, mesophilic, chemoorganotroph, facultative anaerobe, Bacteria, 16S sequence, colony-forming

description: Pannonibacter phragmitetus C6/8 is a facultative anaerobe, chemoorganotroph, mesophilic Proteobacterium that forms circular colonies and was isolated from surface of decomposing reed rhizomes.

NCBI tax id

  • NCBI tax id: 121719
  • Matching level: species

strain history: <- A. K. Borsodi; C6/8

doi: 10.13145/bacdive13690.20211221.6

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/proteobacteria
  • domain: Bacteria
  • phylum: Proteobacteria
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Stappiaceae
  • genus: Pannonibacter
  • species: Pannonibacter phragmitetus
  • full scientific name: Pannonibacter phragmitetus Borsodi et al. 2003

@ref: 5534

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Stappiaceae

genus: Pannonibacter

species: Pannonibacter phragmitetus

full scientific name: Pannonibacter phragmitetus Borsodi et al. 2003

strain designation: C6/8

type strain: no

Morphology

cell morphology

  • @ref: 43385
  • gram stain: negative
  • cell length: 2-4 µm
  • cell width: 0.3-0.6 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

colony morphology

  • @ref: 43385
  • colony size: 2-4 mm
  • colony color: whitish-beige
  • colony shape: circular
  • medium used: Horikoshi alkaline agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5534HORIKOSHI ALKALINE (DSMZ Medium 940)yeshttps://bacmedia.dsmz.de/medium/940Name: HORIKOSHI ALKALINE (DSMZ Medium 940) Composition: Agar 15.0 g/l D-Glucose 10.0 g/l Na2CO3 5.0 g/l Yeast extract 5.0 g/l Peptone 5.0 g/l KH2PO4 1.0 g/l MgSO4 x 7 H2O 0.2 g/l Distilled water
43385Horikoshi alkaline agaryes

culture temp

@refgrowthtypetemperaturerange
5534positivegrowth28mesophilic
43385positivegrowth10-37
43385positiveoptimum22-28

culture pH

@refabilitytypepH
43385positivegrowth7-11
43385positiveoptimum9-10

Physiology and metabolism

oxygen tolerance

  • @ref: 43385
  • oxygen tolerance: facultative anaerobe

nutrition type

  • @ref: 43385
  • type: chemoorganotroph

spore formation

  • @ref: 43385
  • spore formation: no

halophily

  • @ref: 43385
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
43385167632-oxobutanoate+oxidation
43385309162-oxoglutarate+oxidation
4338517925alpha-D-glucose+oxidation
4338529016arginine+hydrolysis
433858295beta-hydroxybutyrate+oxidation
4338573706bromosuccinate+oxidation
43385casein-hydrolysis
4338517057cellobiose+oxidation
4338562968cellulose-hydrolysis
4338516383cis-aconitate+oxidation
4338516947citrate+carbon source
4338516947citrate+oxidation
4338515824D-fructose+oxidation
4338528847D-fucose+builds acid from
4338512936D-galactose+oxidation
4338515748D-glucuronate+oxidation
4338528053melibiose+oxidation
4338516551D-trehalose+oxidation
4338565327D-xylose+builds acid from
4338523652dextrin+oxidation
4338524996lactate+oxidation
433854853esculin-hydrolysis
433854853esculin+builds acid from
4338515740formate+oxidation
43385167244-hydroxybutyrate+oxidation
433855291gelatin-hydrolysis
4338528066gentiobiose+oxidation
4338517234glucose-fermentation
4338517754glycerol+oxidation
4338528087glycogen+oxidation
43385606565hippurate-hydrolysis
4338530849L-arabinose+oxidation
4338530849L-arabinose+builds acid from
4338517196L-asparagine+oxidation
4338518287L-fucose+oxidation
4338518287L-fucose+builds acid from
4338529985L-glutamate+oxidation
4338518183L-pyroglutamic acid+oxidation
4338562345L-rhamnose+oxidation
433856359lactulose+oxidation
4338517306maltose+oxidation
4338575146monomethyl succinate+oxidation
4338517268myo-inositol+oxidation
4338526490quinate+oxidation
4338528017starch-hydrolysis
4338530031succinate+oxidation
4338517992sucrose+oxidation
4338532528turanose+oxidation
4338553426tween 80-
4338527248urocanic acid+oxidation

metabolite production

@refChebi-IDmetaboliteproduction
4338515688acetoinno
4338516136hydrogen sulfideno
4338535581indoleno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
4338517234glucose-
4338515688acetoin-

enzymes

@refvalueactivityec
43385phenylalanine deaminase-4.3.1.5
43385urease+3.5.1.5
43385phosphatase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5534surface of decomposing reed rhizomesLake FertóHungaryHUNEurope
43385surface of decomposing reed rhizomes from Lake FertöLake FertöHungaryHUNEurope

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Decomposing plant
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root (Rhizome)

Sequence information

16S sequences

  • @ref: 5534
  • description: Pannonibacter phragmitetus partial 16S rRNA gene, strain C6/8
  • accession: AJ314748
  • length: 1454
  • database: ena
  • NCBI tax ID: 121719

External links

@ref: 5534

culture collection no.: DSM 14780, NCAIM B02027

straininfo link

@refpassport
20218http://www.straininfo.net/strains/340515
20218http://www.straininfo.net/strains/340516

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5534Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14780)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14780
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
43385Andrea K. Borsodi, Adrienn Micsinai, Gábor Kovács, Erika Tóth, Peter Schumann, Attila L. Kovács, Béla Böddi and Károly Márialigeti10.1099/ijs.0.02356-0Pannonibacter phragmitetus gen. nov., sp. nov., a novel alkalitolerant bacterium isolated from decomposing reed rhizomes in a Hungarian soda lakeIJSEM 53: 555-561 200312710626
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