Strain identifier
BacDive ID: 5701
Type strain:
Species: Chryseobacterium ureilyticum
Strain Designation: F-Fue-04IIIaaaa
Strain history: CIP <- 2010, CCUG <- 2006, A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain F-Fue-04IIIaaaa
NCBI tax ID(s): 373668 (species)
General
@ref: 7345
BacDive-ID: 5701
DSM-Number: 18017
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Chryseobacterium ureilyticum F-Fue-04IIIaaaa is an aerobe, mesophilic, Gram-negative bacterium that was isolated from steel surface of a beer-bottling plant.
NCBI tax id
- NCBI tax id: 373668
- Matching level: species
strain history
@ref | history |
---|---|
7345 | <- A. Lipski, School of Biology/Chemistry, Univ. Osnabrück, Germany; F-Fue-04IIIaaaa <- P. Herzog |
123745 | CIP <- 2010, CCUG <- 2006, A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain F-Fue-04IIIaaaa |
doi: 10.13145/bacdive5701.20230509.8.1
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 ureilyticum
- full scientific name: Chryseobacterium ureilyticum Herzog et al. 2008
@ref: 7345
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium ureilyticum
full scientific name: Chryseobacterium ureilyticum Herzog et al. 2008 emend. Montero-Calasanz et al. 2014
strain designation: F-Fue-04IIIaaaa
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | motility | cell shape | confidence |
---|---|---|---|---|---|---|
31941 | negative | 1.4 µm | 0.7 µm | no | ||
32348 | negative | 2 µm | 0.7 µm | no | rod-shaped | |
69480 | no | 91.998 | ||||
69480 | negative | 99.989 | ||||
123745 | negative | no | rod-shaped |
pigmentation
@ref | production |
---|---|
32348 | yes |
31941 | yes |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7345 | TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) | yes | https://mediadive.dsmz.de/medium/545 | 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 |
39840 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123745 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7345 | positive | growth | 28 | mesophilic |
31941 | positive | growth | 15-42 | |
32348 | positive | growth | 25-30 | mesophilic |
31941 | positive | optimum | 28.5 | mesophilic |
39840 | positive | growth | 30 | mesophilic |
59589 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31941 | positive | growth | 5.5-8.5 | alkaliphile |
31941 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
32348 | aerobe |
31941 | aerobe |
59589 | aerobe |
123745 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
31941 | no | |
32348 | no | |
69481 | no | 100 |
69480 | no | 99.998 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32348 | NaCl | positive | growth | <2 % |
31941 | NaCl | positive | growth | 0-0.9 % |
31941 | NaCl | positive | optimum | 0.45 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31941 | 58143 | 5-dehydro-D-gluconate | + | carbon source |
31941 | 22599 | arabinose | + | carbon source |
31941 | 33984 | fucose | + | carbon source |
31941 | 24265 | gluconate | + | carbon source |
31941 | 17234 | glucose | + | carbon source |
31941 | 17306 | maltose | + | carbon source |
31941 | 37684 | mannose | + | carbon source |
31941 | 28053 | melibiose | + | carbon source |
31941 | 506227 | N-acetylglucosamine | + | carbon source |
31941 | 26271 | proline | + | carbon source |
31941 | 26546 | rhamnose | + | carbon source |
31941 | 17814 | salicin | + | carbon source |
31941 | 30911 | sorbitol | + | carbon source |
32348 | 17234 | glucose | + | carbon source |
32348 | 17306 | maltose | + | carbon source |
32348 | 4853 | esculin | + | hydrolysis |
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | 24265 | gluconate | - | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | - | builds acid from |
68371 | 28066 | gentiobiose | + | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | - | builds acid from |
68371 | 28017 | starch | - | builds acid from |
68371 | 16634 | raffinose | - | builds acid from |
68371 | 6731 | melezitose | - | builds acid from |
68371 | 15443 | inulin | - | builds acid from |
68371 | 27082 | trehalose | + | builds acid from |
68371 | 17992 | sucrose | - | builds acid from |
68371 | 28053 | melibiose | - | builds acid from |
68371 | 17716 | lactose | - | builds acid from |
68371 | 17306 | maltose | + | builds acid from |
68371 | 17814 | salicin | - | builds acid from |
68371 | 18305 | arbutin | - | builds acid from |
68371 | 59640 | N-acetylglucosamine | - | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | - | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | - | builds acid from |
68371 | 17266 | L-sorbose | - | builds acid from |
68371 | 16024 | D-mannose | + | builds acid from |
68371 | 15824 | D-fructose | - | builds acid from |
68371 | 17634 | D-glucose | + | builds acid from |
68371 | 12936 | D-galactose | - | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | - | builds acid from |
68371 | 16988 | D-ribose | - | builds acid from |
68371 | 30849 | L-arabinose | - | builds acid from |
68371 | 17108 | D-arabinose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
123745 | 17632 | nitrate | - | reduction |
123745 | 16301 | nitrite | - | reduction |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
32348 | 35581 | indole | yes |
123745 | 35581 | indole | no |
metabolite tests
- @ref: 32348
- Chebi-ID: 35581
- metabolite: indole
- indole test: +
enzymes
@ref | value | activity | ec |
---|---|---|---|
31941 | catalase | + | 1.11.1.6 |
31941 | cytochrome oxidase | + | 1.9.3.1 |
31941 | urease | + | 3.5.1.5 |
32348 | catalase | + | 1.11.1.6 |
32348 | gelatinase | + | |
32348 | cytochrome oxidase | + | 1.9.3.1 |
32348 | urease | + | 3.5.1.5 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | + | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | - | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
123745 | oxidase | + | |
123745 | catalase | + | 1.11.1.6 |
123745 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123745 | - | + | - | + | - | + | + | - | + | - | + | + | - | - | - | + | - | + | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123745 | +/- | - | - | - | - | - | - | - | - | - | + | - | + | - | - | - | - | - | - | - | - | - | +/- | - | +/- | - | +/- | + | - | - | - | + | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | sampling date | geographic location | isolation date |
---|---|---|---|---|---|---|---|
7345 | steel surface of a beer-bottling plant | Germany | DEU | Europe | |||
59589 | Steel surface of a beer bottling plant | Germany | DEU | Europe | 2004-07-01 | ||
123745 | Steel surface of a beer bottling plant | Germany | DEU | Europe | Osnabrück | 2006 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Bottled, canned, packed food |
#Engineered | #Food production | #Fermented |
#Engineered | #Industrial | #Engineered product |
#Engineered | #Industrial | #Plant (Factory) |
#Engineered | #Food production | #Beverage |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7345 | 1 | Risk group (German classification) |
123745 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 7345
- description: Chryseobacterium ureilyticum partial 16S rRNA gene, type strain F-Fue-04IIIaaaaT
- accession: AM232806
- length: 1472
- database: ena
- NCBI tax ID: 373668
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Chryseobacterium ureilyticum DSM 18017 | GCA_900156735 | contig | ncbi | 373668 |
66792 | Chryseobacterium ureilyticum strain DSM 18017 | 373668.4 | wgs | patric | 373668 |
66792 | Chryseobacterium ureilyticum DSM 18017 | 2681813509 | draft | img | 373668 |
GC content
@ref | GC-content |
---|---|
32348 | 36.4 |
31941 | 48.4 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 97.687 | yes |
anaerobic | no | 99.531 | yes |
halophile | no | 93.879 | yes |
spore-forming | no | 93.491 | yes |
glucose-util | yes | 86.632 | yes |
aerobic | yes | 92.101 | no |
motile | no | 90.474 | no |
flagellated | no | 95.273 | no |
thermophile | no | 99.821 | yes |
glucose-ferment | no | 92.787 | no |
External links
@ref: 7345
culture collection no.: DSM 18017, CCUG 52546, CIP 110146
straininfo link
- @ref: 75183
- straininfo: 377001
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 18175677 | Chryseobacterium ureilyticum sp. nov., Chryseobacterium gambrini sp. nov., Chryseobacterium pallidum sp. nov. and Chryseobacterium molle sp. nov., isolated from beer-bottling plants. | Herzog P, Winkler I, Wolking D, Kampfer P, Lipski A | Int J Syst Evol Microbiol | 10.1099/ijs.0.65362-0 | 2008 | 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 | Genetics |
Phylogeny | 22115847 | Chryseobacterium oncorhynchi sp. nov., isolated from rainbow trout (Oncorhynchus mykiss). | Zamora L, Fernandez-Garayzabal JF, Palacios MA, Sanchez-Porro C, Svensson-Stadler LA, Dominguez L, Moore ER, Ventosa A, Vela AI | Syst Appl Microbiol | 10.1016/j.syapm.2011.10.002 | 2011 | Animals, Bacterial Typing Techniques, Base Composition, Catalase/metabolism, Chryseobacterium/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gills/microbiology, Liver/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oncorhynchus mykiss/*microbiology, Oxidoreductases/metabolism, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Metabolism |
Phylogeny | 22268076 | Chryseobacterium viscerum sp. nov., isolated from diseased fish. | Zamora L, Vela AI, Palacios MA, Sanchez-Porro C, Svensson-Stadler LA, Dominguez L, Moore ERB, Ventosa A, Fernandez-Garayzabal JF | Int J Syst Evol Microbiol | 10.1099/ijs.0.036699-0 | 2012 | Animals, Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Fish Diseases/microbiology, Gills/microbiology, Liver/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oncorhynchus mykiss/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis | Genetics |
Phylogeny | 24958763 | Chryseobacterium artocarpi sp. nov., isolated from the rhizosphere soil of Artocarpus integer. | Venil CK, Nordin N, Zakaria ZA, Ahmad WA | Int J Syst Evol Microbiol | 10.1099/ijs.0.063594-0 | 2014 | Artocarpus/*microbiology, Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Malaysia, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Phylogeny | 30372407 | Chryseobacterium phosphatilyticum sp. nov., a phosphate-solubilizing endophyte isolated from cucumber (Cucumis sativus L.) root. | Jeong JJ, Sang MK, Lee DW, Choi IG, Kim KD | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003091 | 2018 | Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/isolation & purification, Cucumis sativus/*microbiology, DNA, Bacterial/genetics, Endophytes/classification/isolation & purification, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phosphates, Phosphatidylethanolamines/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Enzymology |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7345 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18017) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18017 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
31941 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28197 | 28776041 | |
32348 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28579 | 28776041 | |
39840 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7972 | ||||
59589 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 52546) | https://www.ccug.se/strain?id=52546 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
75183 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID377001.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123745 | Curators of the CIP | Collection of Institut Pasteur (CIP 110146) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110146 |