Strain identifier

BacDive ID: 5509

Type strain: Yes

Species: Chryseobacterium tenax

Strain Designation: EP105

Strain history: <- L. A. O'Sullivan; EP105

NCBI tax ID(s): 191577 (species)

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General

@ref: 6610

BacDive-ID: 5509

DSM-Number: 16811

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

description: Chryseobacterium tenax EP105 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from epilithon-covered stones from River Taff.

NCBI tax id

  • NCBI tax id: 191577
  • Matching level: species

strain history

  • @ref: 6610
  • history: <- L. A. O'Sullivan; EP105

doi: 10.13145/bacdive5509.20230509.8.1

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 tenax
  • full scientific name: Chryseobacterium tenax (O'Sullivan et al. 2006) Hahnke et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Epilithonimonas tenax

@ref: 6610

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium tenax

full scientific name: Chryseobacterium tenax (O'Sullivan et al. 2006) Hahnke et al. 2017

strain designation: EP105

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31634negative1-2.5 µm0.6-0.7 µmrod-shapedno
69480no94.689
69480negative99.987

pigmentation

  • @ref: 31634
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_16811_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16811_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16811_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16811_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16811_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 6610
  • name: OXOID NUTRIENT BROTH (DSMZ Medium 948)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/948
  • composition: Name: OXOID NUTRIENT BROTH (DSMZ Medium 948) Composition: Nutrient broth 13.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
6610positivegrowth20psychrophilic
31634positivegrowth04-30
31634positiveoptimum30mesophilic

culture pH

@refabilitytypepH
31634positivegrowth7
31634positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31634
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31634no
69481no100
69480no99.997

observation

  • @ref: 31634
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3163430089acetate+carbon source
3163423652dextrin+carbon source
3163417234glucose+carbon source
3163429987glutamate+carbon source
3163428087glycogen+carbon source
3163417306maltose+carbon source
3163437684mannose+carbon source
3163418257ornithine+carbon source
3163426271proline+carbon source
3163417822serine+carbon source
3163417992sucrose+carbon source
3163426986threonine+carbon source
3163427082trehalose+carbon source
316344853esculin+hydrolysis

enzymes

@refvalueactivityec
31634catalase+1.11.1.6
31634cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 6610
  • sample type: epilithon-covered stones from River Taff
  • geographic location: Cardiff
  • country: United Kingdom
  • origin.country: GBR
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Geologic
#Host#Plants

taxonmaps

  • @ref: 69479
  • File name: preview.99_7763.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_3036;97_3731;98_4731;99_7763&stattab=map
  • Last taxonomy: Epilithonimonas tenax
  • 16S sequence: AF493696
  • Sequence Identity:
  • Total samples: 583
  • soil counts: 46
  • aquatic counts: 303
  • animal counts: 201
  • plant counts: 33

Safety information

risk assessment

  • @ref: 6610
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6610
  • description: Epilithonimonas tenax strain EP105 16S ribosomal RNA gene, partial sequence
  • accession: AF493696
  • length: 1305
  • database: ena
  • NCBI tax ID: 191577

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Epilithonimonas tenax DSM 16811GCA_000428485scaffoldncbi1121870
66792Epilithonimonas tenax DSM 168111121870.4wgspatric1121870
66792Epilithonimonas tenax DSM 168112524023241draftimg1121870

GC content

  • @ref: 6610
  • GC-content: 37.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.668yes
flagellatedno96.055yes
gram-positiveno98.156no
anaerobicno99.708no
aerobicyes92.048yes
halophileno96.145no
spore-formingno95.645no
glucose-utilyes87.632yes
thermophileno99.387yes
glucose-fermentno91.84no

External links

@ref: 6610

culture collection no.: DSM 16811, NCIMB 14026

straininfo link

  • @ref: 74994
  • straininfo: 237164

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16403883Culturable phylogenetic diversity of the phylum 'Bacteroidetes' from river epilithon and coastal water and description of novel members of the family Flavobacteriaceae: Epilithonimonas tenax gen. nov., sp. nov. and Persicivirga xylanidelens gen. nov., sp. nov.O'Sullivan LA, Rinna J, Humphreys G, Weightman AJ, Fry JCInt J Syst Evol Microbiol10.1099/ijs.0.63941-02006Atlantic Ocean, Base Composition, Flavobacteriaceae/chemistry/*classification/isolation & purification/physiology, Molecular Sequence Data, Oceans and Seas, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rivers, Sequence Homology, Nucleic Acid, Species Specificity, United Kingdom, *Water MicrobiologyGenetics
Phylogeny25298379Epilithonimonas ginsengisoli sp. nov., isolated from soil of a ginseng field.Hoang VA, Kim YJ, Ponnuraj SP, Nguyen NL, Hwang KH, Yang DCInt J Syst Evol Microbiol10.1099/ijs.0.065466-02014Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Panax/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26233482Epilithonimonas psychrotolerans sp. nov., isolated from alpine permafrost.Ge L, Zhao Q, Sheng H, Wu J, An LInt J Syst Evol Microbiol10.1099/ijsem.0.0004892015Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Permafrost/*microbiology, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
6610Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16811)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16811
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
31634Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2791728776041
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
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
74994Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID237164.1StrainInfo: A central database for resolving microbial strain identifiers