Strain identifier

BacDive ID: 5680

Type strain: Yes

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)

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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

@refhistory
6993<- P. Kämpfer, Univ. Giessen, Germany <- A. B. Arun; CC-TWGS1-8
123414CIP <- 2004, P. Kämpfer, Giessen, Germany: strain CC-TWGS1-8

doi: 10.13145/bacdive5680.20250331.9.3

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

@refgram staincell shapemotilityconfidence
31426negativerod-shapedno
123414negativerod-shapedno
125438negative98.5
125439negative99.9

colony morphology

  • @ref: 123414

pigmentation

@refproductionname
31426yes
123414yesFlexirubin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6993NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
36996MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123414CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
6993positivegrowth28
31426positivegrowth11-36
31426positiveoptimum23.5
36996positivegrowth30
58714positivegrowth26-37
123414positivegrowth15-37
123414nogrowth5
123414nogrowth41
123414nogrowth45

culture pH

@refabilitytypepHPH range
31426positivegrowth6.0-9.0alkaliphile
31426positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
31426aerobe
58714aerobe
123414obligate aerobe
125439obligate aerobe90.1

spore formation

@refspore formationconfidence
31426no
125438no92.416
125439no97.9

halophily

@refsaltgrowthtested relationconcentration
123414NaClpositivegrowth0-2 %
123414NaClnogrowth4 %
123414NaClnogrowth6 %
123414NaClnogrowth8 %
123414NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3142615963ribitol+carbon source
3142617234glucose+carbon source
3142617306maltose+carbon source
3142626546rhamnose+carbon source
3142627082trehalose+carbon source
3142618222xylose+carbon source
314264853esculin+hydrolysis
12341416947citrate-carbon source
1234144853esculin+hydrolysis
123414606565hippurate+hydrolysis
12341417632nitrate-builds gas from
12341417632nitrate-reduction
12341416301nitrite-builds gas from
12341416301nitrite-reduction
12341415792malonate-assimilation
12341417632nitrate-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

@refChebi-IDmetaboliteproduction
3142635581indoleyes
12341435581indoleyes

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
3142635581indole+
12341415688acetoin-
12341417234glucose-

enzymes

@refvalueactivityec
31426acid phosphatase+3.1.3.2
31426alkaline phosphatase+3.1.3.1
31426cytochrome 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
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
123414oxidase+
123414beta-galactosidase+3.2.1.23
123414alcohol dehydrogenase-1.1.1.1
123414gelatinase+
123414amylase+
123414DNase-
123414caseinase+3.4.21.50
123414catalase+1.11.1.6
123414tween esterase-
123414lecithinase+
123414lipase-
123414lysine decarboxylase-4.1.1.18
123414ornithine decarboxylase-4.1.1.17
123414phenylalanine ammonia-lyase+4.3.1.24
123414tryptophan deaminase-
123414urease-3.5.1.5
68382lipase (C 14)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123414-+++-++-++++---+++--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123414++-++--+-++-----+++--+--------------------------------------------------------------------+--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
6993tar-contaminated soilTaichungTaiwan, Province of ChinaTWNAsia
58714Soil,tar contaminatedTaiwan, Province of ChinaTWNAsia
123414Environment, Oil contaminated soilTaiwan, Province of ChinaTWNAsia2004

isolation source categories

Cat1Cat2Cat3
#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

@refbiosafety levelbiosafety level comment
69931Risk group (German classification)
1234141Risk 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: nuccore
  • NCBI tax ID: 295069

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium taichungense DSM 17453GCA_900109935scaffoldncbi295069
66792Chryseobacterium taichungense strain DSM 17453295069.10wgspatric295069
66792Chryseobacterium taichungense DSM 174532675903154draftimg295069

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno98.5yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.05no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.603yes
125438spore-formingspore-formingAbility to form endo- or exosporesno92.416no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.5no
125438motile2+flagellatedAbility to perform flagellated movementno89yes
125439BacteriaNetspore_formationAbility to form endo- or exosporesno97.9
125439BacteriaNetmotilityAbility to perform movementno75.4
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.9
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe90.1

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

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6993Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17453)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17453
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
31426Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2773328776041
36996Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6150
58714Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50001)https://www.ccug.se/strain?id=50001
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)
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
75162Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID138975.1StrainInfo: A central database for resolving microbial strain identifiers
123414Curators of the CIPCollection of Institut Pasteur (CIP 108519)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108519
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1