Strain identifier

BacDive ID: 5699

Type strain: Yes

Species: Chryseobacterium molle

Strain Designation: DW3

Strain history: CIP <- 2010, DSMZ <- A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain DW3

NCBI tax ID(s): 216903 (species)

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General

@ref: 7335

BacDive-ID: 5699

DSM-Number: 18016

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

description: Chryseobacterium molle DW3 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from biofilm of a beer-bottling plant.

NCBI tax id

  • NCBI tax id: 216903
  • Matching level: species

strain history

@refhistory
7335<- A. Lipski, School of Biology/Chemistry, Univ. Osnabrück, Germany; DW3 <- D. Wolking
121004CIP <- 2010, DSMZ <- A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain DW3

doi: 10.13145/bacdive5699.20230509.8.1

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 molle
  • full scientific name: Chryseobacterium molle Herzog et al. 2008

  • synonyms

    • @ref: 20215
    • synonym: Epilithonimonas mollis

@ref: 7335

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium molle

full scientific name: Chryseobacterium molle Herzog et al. 2008

strain designation: DW3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32348negative1.3 µm0.9 µmrod-shapedno
69480no94.663
69480negative99.947
121004negativerod-shapedno

pigmentation

  • @ref: 32348
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7335TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yeshttps://mediadive.dsmz.de/medium/545Name: 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
34714MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121004CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7335positivegrowth28mesophilic
32348positivegrowth25-37mesophilic
34714positivegrowth30mesophilic
59590positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32348aerobe
59590aerobe
121004facultative anaerobe

spore formation

@refspore formationconfidence
32348no
69481no100
69480no99.994

halophily

  • @ref: 32348
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3234822599arabinose+carbon source
3234817234glucose+carbon source
3234825115malate+carbon source
3234817306maltose+carbon source
3234837684mannose+carbon source
323484853esculin+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837117151xylitol-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12100417632nitrate-reduction
12100416301nitrite+reduction

metabolite production

@refChebi-IDmetaboliteproduction
3234835581indoleyes
12100435581indoleyes

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
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)+
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
121004oxidase+
121004catalase+1.11.1.6
121004urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121004-+++++++++++---++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121004-----+/-----+/-+/-+/----------+/--+/--+/-+/--------+/-+/--+/-----------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
7335biofilm of a beer-bottling plantGermanyDEUEurope
59590Steel surface of a beer bottling plantGermanyDEUEurope2002-08-01
121004Biofilm of a beer-bottling plantGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Plant (Factory)
#Environmental#Biofilm

taxonmaps

  • @ref: 69479
  • File name: preview.99_3487.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_497;97_2176;98_2670;99_3487&stattab=map
  • Last taxonomy: Chryseobacterium molle
  • 16S sequence: AJ534853
  • Sequence Identity:
  • Total samples: 480
  • soil counts: 26
  • aquatic counts: 164
  • animal counts: 254
  • plant counts: 36

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
73351Risk group (German classification)
1210041Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7335
  • description: Chryseobacterium molle partial 16S rRNA gene, type strain DW3T
  • accession: AJ534853
  • length: 1421
  • database: ena
  • NCBI tax ID: 216903

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Epilithonimonas mollis DSM 18016GCA_900142325contigncbi216903
66792Chryseobacterium molle strain DSM 18016216903.4wgspatric216903
66792Epilithonimonas mollis DSM 180162698536696draftimg216903

GC content

  • @ref: 32348
  • GC-content: 39.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.377yes
gram-positiveno97.919yes
anaerobicno99.14yes
aerobicyes85.154yes
halophileno95.417no
spore-formingno95.722yes
glucose-utilyes88.439yes
thermophileno99.635yes
flagellatedno96.686no
glucose-fermentno89.383no

External links

@ref: 7335

culture collection no.: DSM 18016, CCUG 52547, CIP 110177

straininfo link

  • @ref: 75181
  • straininfo: 323956

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
7335Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18016)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18016
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
34714Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8007
59590Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52547)https://www.ccug.se/strain?id=52547
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)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75181Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID323956.1StrainInfo: A central database for resolving microbial strain identifiers
121004Curators of the CIPCollection of Institut Pasteur (CIP 110177)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110177