Strain identifier
BacDive ID: 5680
Type strain:
Species: Chryseobacterium taichungense
Strain Designation: CC-TWGS1-8
Strain history: CIP <- 2004, P. Kämpfer, Giessen, Germany: strain CC-TWGS1-8
NCBI tax ID(s): 295069 (species)
General
@ref: 6993
BacDive-ID: 5680
DSM-Number: 17453
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Chryseobacterium taichungense CC-TWGS1-8 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from tar-contaminated soil.
NCBI tax id
- NCBI tax id: 295069
- Matching level: species
strain history
@ref | history |
---|---|
6993 | <- P. Kämpfer, Univ. Giessen, Germany <- A. B. Arun; CC-TWGS1-8 |
123414 | CIP <- 2004, P. Kämpfer, Giessen, Germany: strain CC-TWGS1-8 |
doi: 10.13145/bacdive5680.20230509.8.1
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 taichungense
- full scientific name: Chryseobacterium taichungense Shen et al. 2005
@ref: 6993
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium taichungense
full scientific name: Chryseobacterium taichungense Shen et al. 2005
strain designation: CC-TWGS1-8
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility | confidence |
---|---|---|---|---|
31426 | negative | rod-shaped | no | |
69480 | no | 92.001 | ||
69480 | negative | 99.963 | ||
123414 | negative | rod-shaped | no |
colony morphology
- @ref: 123414
pigmentation
@ref | production | name |
---|---|---|
31426 | yes | |
123414 | yes | Flexirubin |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6993 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
36996 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123414 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6993 | positive | growth | 28 | mesophilic |
31426 | positive | growth | 11-36 | |
31426 | positive | optimum | 23.5 | psychrophilic |
36996 | positive | growth | 30 | mesophilic |
58714 | positive | growth | 26-37 | mesophilic |
123414 | positive | growth | 15-37 | |
123414 | no | growth | 5 | psychrophilic |
123414 | no | growth | 41 | thermophilic |
123414 | no | growth | 45 | thermophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31426 | positive | growth | 6.0-9.0 | alkaliphile |
31426 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
31426 | aerobe |
58714 | aerobe |
123414 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
31426 | no | |
69481 | no | 100 |
69480 | no | 99.998 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123414 | NaCl | positive | growth | 0-2 % |
123414 | NaCl | no | growth | 4 % |
123414 | NaCl | no | growth | 6 % |
123414 | NaCl | no | growth | 8 % |
123414 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31426 | 15963 | ribitol | + | carbon source |
31426 | 17234 | glucose | + | carbon source |
31426 | 17306 | maltose | + | carbon source |
31426 | 26546 | rhamnose | + | carbon source |
31426 | 27082 | trehalose | + | carbon source |
31426 | 18222 | xylose | + | carbon source |
31426 | 4853 | esculin | + | hydrolysis |
123414 | 16947 | citrate | - | carbon source |
123414 | 4853 | esculin | + | hydrolysis |
123414 | 606565 | hippurate | + | hydrolysis |
123414 | 17632 | nitrate | - | builds gas from |
123414 | 17632 | nitrate | - | reduction |
123414 | 16301 | nitrite | - | builds gas from |
123414 | 16301 | nitrite | - | reduction |
123414 | 15792 | malonate | - | assimilation |
123414 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 123414
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
31426 | 35581 | indole | yes |
123414 | 35581 | indole | yes |
metabolite tests
@ref | Chebi-ID | metabolite | indole test | voges-proskauer-test | methylred-test |
---|---|---|---|---|---|
31426 | 35581 | indole | + | ||
123414 | 15688 | acetoin | - | ||
123414 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
31426 | acid phosphatase | + | 3.1.3.2 |
31426 | alkaline phosphatase | + | 3.1.3.1 |
31426 | cytochrome oxidase | + | 1.9.3.1 |
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 |
123414 | oxidase | + | |
123414 | beta-galactosidase | + | 3.2.1.23 |
123414 | alcohol dehydrogenase | - | 1.1.1.1 |
123414 | gelatinase | + | |
123414 | amylase | + | |
123414 | DNase | - | |
123414 | caseinase | + | 3.4.21.50 |
123414 | catalase | + | 1.11.1.6 |
123414 | tween esterase | - | |
123414 | lecithinase | + | |
123414 | lipase | - | |
123414 | lysine decarboxylase | - | 4.1.1.18 |
123414 | ornithine decarboxylase | - | 4.1.1.17 |
123414 | phenylalanine ammonia-lyase | + | 4.3.1.24 |
123414 | tryptophan deaminase | - | |
123414 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123414 | - | + | + | + | - | + | + | - | + | + | + | + | - | - | - | + | + | + | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123414 | + | + | - | + | + | - | - | + | - | + | + | - | - | - | - | - | + | + | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
6993 | tar-contaminated soil | Taichung | Taiwan | TWN | Asia | |
58714 | Soil,tar contaminated | Taiwan | TWN | Asia | ||
123414 | Environment, Oil contaminated soil | Taiwan | TWN | Asia | 2004 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Contamination | |
#Engineered | #Industrial | #Engineered product |
#Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_135881.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_869;97_36434;98_89451;99_135881&stattab=map
- Last taxonomy: Chryseobacterium taichungense
- 16S sequence: AJ843132
- Sequence Identity:
- Total samples: 12
- soil counts: 4
- aquatic counts: 2
- animal counts: 4
- plant counts: 2
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6993 | 1 | Risk group (German classification) |
123414 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 6993
- description: Chryseobacterium taichungense partial 16S rRNA gene, type strain CC-TWGS1-8
- accession: AJ843132
- length: 1431
- database: ena
- NCBI tax ID: 295069
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Chryseobacterium taichungense DSM 17453 | GCA_900109935 | scaffold | ncbi | 295069 |
66792 | Chryseobacterium taichungense strain DSM 17453 | 295069.10 | wgs | patric | 295069 |
66792 | Chryseobacterium taichungense DSM 17453 | 2675903154 | draft | img | 295069 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
glucose-ferment | no | 91.64 | no |
motile | no | 90.036 | yes |
flagellated | no | 95.729 | yes |
gram-positive | no | 97.951 | yes |
anaerobic | no | 99.368 | yes |
aerobic | yes | 87.937 | yes |
halophile | no | 95.244 | no |
spore-forming | no | 96.059 | no |
thermophile | no | 98.452 | yes |
glucose-util | yes | 86.266 | yes |
External links
@ref: 6993
culture collection no.: DSM 17453, CCUG 50001, CIP 108519
straininfo link
- @ref: 75162
- straininfo: 138975
literature
- topic: Phylogeny
- Pubmed-ID: 15879271
- title: Chryseobacterium taichungense sp. nov., isolated from contaminated soil.
- authors: Shen FT, Kampfer P, Young CC, Lai WA, Arun AB
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.63514-0
- year: 2005
- mesh: Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/cytology/*isolation & purification/physiology, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Genes, Bacterial, Genes, rRNA, Gentian Violet, Molecular Sequence Data, Nucleic Acid Hybridization, Phenazines, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, *Soil Pollutants, Taiwan
- topic2: Enzymology
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
6993 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17453) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17453 | |||
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 | |||
31426 | 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 | 27733 | 28776041 | |
36996 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6150 | ||||
58714 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 50001) | https://www.ccug.se/strain?id=50001 | |||
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) | |||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
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 | |||
75162 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID138975.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123414 | Curators of the CIP | Collection of Institut Pasteur (CIP 108519) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108519 |