Strain identifier

BacDive ID: 5700

Type strain: Yes

Species: Chryseobacterium pallidum

Strain Designation: 26-3St2b

Strain history: <- A. Lipski, School of Biology/Chemistry, Univ. Osnabrück, Germany; 26-3St2b <- I. Winkler

NCBI tax ID(s): 373671 (species)

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General

@ref: 7334

BacDive-ID: 5700

DSM-Number: 18015

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

description: Chryseobacterium pallidum 26-3St2b is an aerobe, mesophilic, Gram-negative bacterium that was isolated from steel surface of a beer-bottling plant.

NCBI tax id

  • NCBI tax id: 373671
  • Matching level: species

strain history

  • @ref: 7334
  • history: <- A. Lipski, School of Biology/Chemistry, Univ. Osnabrück, Germany; 26-3St2b <- I. Winkler

doi: 10.13145/bacdive5700.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium pallidum
  • full scientific name: Chryseobacterium pallidum Herzog et al. 2008

  • synonyms

    • @ref: 20215
    • synonym: Epilithonimonas pallida

@ref: 7334

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium pallidum

full scientific name: Chryseobacterium pallidum Herzog et al. 2008

strain designation: 26-3St2b

type strain: yes

Morphology

cell morphology

  • @ref: 32348
  • gram stain: negative
  • cell length: 1.3 µm
  • cell width: 0.8 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 32348
  • production: no

Culture and growth conditions

culture medium

  • @ref: 7334
  • name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/545
  • composition: Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
7334positivegrowth28mesophilic
32348positivegrowth25-37mesophilic
59591positivegrowth30-37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32348aerobe
59591aerobe

spore formation

  • @ref: 32348
  • spore formation: no

halophily

  • @ref: 32348
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <1 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3234817128adipate+carbon source
3234822599arabinose+carbon source
3234817234glucose+carbon source
3234825115malate+carbon source
3234817306maltose+carbon source
3234837684mannose+carbon source
323484853esculin+hydrolysis
3234817632nitrate+reduction

metabolite production

  • @ref: 32348
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 32348
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
32348catalase+1.11.1.6
32348gelatinase+
32348cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
7334steel surface of a beer-bottling plantGermanyDEUEurope
59591Steel surface of a beer bottling plantGermanyDEUEurope2002-08-01

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Bottled, canned, packed food
#Engineered#Food production#Fermented
#Engineered#Industrial#Engineered product
#Engineered#Industrial#Plant (Factory)
#Engineered#Food production#Beverage

taxonmaps

  • @ref: 69479
  • File name: preview.99_98122.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_497;97_2176;98_2670;99_98122&stattab=map
  • Last taxonomy: Epilithonimonas
  • 16S sequence: AM232809
  • Sequence Identity:
  • Total samples: 262
  • soil counts: 16
  • aquatic counts: 79
  • animal counts: 136
  • plant counts: 31

Safety information

risk assessment

  • @ref: 7334
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7334
  • description: Chryseobacterium pallidum partial 16S rRNA gene, type strain 26-3St2bT
  • accession: AM232809
  • length: 1468
  • database: ena
  • NCBI tax ID: 373671

Genome sequences

  • @ref: 66792
  • description: Epilithonimonas pallida DSM 18015
  • accession: 2681813503
  • assembly level: draft
  • database: img
  • NCBI tax ID: 373671

GC content

  • @ref: 32348
  • GC-content: 38.1

External links

@ref: 7334

culture collection no.: DSM 18015, CCUG 52548

straininfo link

  • @ref: 75182
  • straininfo: 323957

literature

  • topic: Phylogeny
  • Pubmed-ID: 18175677
  • title: Chryseobacterium ureilyticum sp. nov., Chryseobacterium gambrini sp. nov., Chryseobacterium pallidum sp. nov. and Chryseobacterium molle sp. nov., isolated from beer-bottling plants.
  • authors: Herzog P, Winkler I, Wolking D, Kampfer P, Lipski A
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65362-0
  • year: 2008
  • mesh: Bacterial Typing Techniques, *Beer, Biofilms/growth & development, Chryseobacterium/chemistry/classification/genetics/*isolation & purification, Fatty Acids/analysis, Genotype, *Industrial Microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Steel
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7334Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18015)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18015
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
32348Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2857928776041
59591Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52548)https://www.ccug.se/strain?id=52548
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
75182Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID323957.1StrainInfo: A central database for resolving microbial strain identifiers