Strain identifier

BacDive ID: 133773

Type strain: Yes

Species: Chryseobacterium viscerum

Strain Designation: 687B-08

NCBI tax ID(s): 1037377 (species)

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General

@ref: 30464

BacDive-ID: 133773

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

description: Chryseobacterium viscerum 687B-08 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Diseased fish.

NCBI tax id

  • NCBI tax id: 1037377
  • Matching level: species

doi: 10.13145/bacdive133773.20230509.8.1

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 viscerum
  • full scientific name: Chryseobacterium viscerum Zamora et al. 2012

@ref: 30464

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Chryseobacterium

species: Chryseobacterium viscerum

strain designation: 687B-08

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30464negative2.4 µm0.8 µmrod-shapedno
69480negative99.993

pigmentation

  • @ref: 30464
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30464positivegrowth15-30
30464positiveoptimum25mesophilic
62202positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30464aerobe
62202aerobe

spore formation

@refspore formationconfidence
30464no
69481no100
69480no99.996

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3046416947citrate+carbon source
3046417234glucose+carbon source
3046417306maltose+carbon source
3046429864mannitol+carbon source
3046437684mannose+carbon source
304644853esculin+hydrolysis

metabolite production

  • @ref: 30464
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 30464
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
30464acid phosphatase+3.1.3.2
30464alkaline phosphatase+3.1.3.1
30464catalase+1.11.1.6
30464gelatinase+
30464cytochrome oxidase+1.9.3.1
30464urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinent
30464Diseased fish
62202Gills of diseased trout (Oncorhynchus mykiss)2008-03-25MadridSpainESPEurope

isolation source categories

Cat1Cat2
#Host#Fishes
#Infection#Disease

Sequence information

16S sequences

  • @ref: 30464
  • description: Chryseobacterium viscerum partial 16S rRNA gene, type strain 687B-08T
  • accession: FR871426
  • length: 1333
  • database: nuccore
  • NCBI tax ID: 1037377

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium viscerum 687B-08GCA_002899945scaffoldncbi1037377
66792Chryseobacterium viscerum 687B-082871710237draftimg1037377

GC content

  • @ref: 30464
  • GC-content: 38.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno95.086yes
flagellatedno95.086yes
gram-positiveno97.492yes
gram-positiveno97.492yes
anaerobicno99.458yes
anaerobicno99.458yes
aerobicyes92.774yes
aerobicyes92.774yes
halophileno94.771no
halophileno94.771no
spore-formingno93.175yes
spore-formingno93.175yes
glucose-utilyes84.913yes
glucose-utilyes84.913yes
thermophileno99.799no
thermophileno99.799no
motileno91.243no
motileno91.243no
glucose-fermentno91.723no
glucose-fermentno91.723no

External links

@ref: 30464

culture collection no.: CECT 7793, CCUG 60103

straininfo link

  • @ref: 91591
  • straininfo: 382383

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22268076Chryseobacterium 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 JFInt J Syst Evol Microbiol10.1099/ijs.0.036699-02012Animals, 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/analysisGenetics
Phylogeny24958763Chryseobacterium artocarpi sp. nov., isolated from the rhizosphere soil of Artocarpus integer.Venil CK, Nordin N, Zakaria ZA, Ahmad WAInt J Syst Evol Microbiol10.1099/ijs.0.063594-02014Artocarpus/*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/chemistryGenetics
Genetics29954917Draft Genome Sequences of Chryseobacterium lactis NCTC11390(T) Isolated from Milk, Chryseobacterium oncorhynchi 701B-08(T) from Rainbow Trout, and Chryseobacterium viscerum 687B-08(T) from Diseased Fish.Jeong JJ, Lee YJ, Pathiraja D, Park B, Choi IG, Kim KDGenome Announc10.1128/genomeA.00628-182018Phylogeny
Phylogeny30372407Chryseobacterium phosphatilyticum sp. nov., a phosphate-solubilizing endophyte isolated from cucumber (Cucumis sativus L.) root.Jeong JJ, Sang MK, Lee DW, Choi IG, Kim KDInt J Syst Evol Microbiol10.1099/ijsem.0.0030912018Bacterial 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/chemistryEnzymology
Phylogeny34748473Chryseobacterium panacisoli sp. nov., isolated from ginseng-cultivation soil with ginsenoside-converting activity.Keum DH, Yeon JM, Yun CS, Lee SY, Im WTInt J Syst Evol Microbiol10.1099/ijsem.0.0050862021Bacterial Typing Techniques, Base Composition, *Chryseobacterium/classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Ginsenosides/metabolism, Glycolipids/chemistry, Nucleic Acid Hybridization, *Panax/microbiology, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny34878376Chryseobacterium lecithinasegens sp. nov., a siderophore-producing bacterium isolated from soil at the bottom of a pond.Kutsuna R, Mashima I, Miyoshi-Akiyama T, Muramatsu Y, Tomida J, Kawamura YInt J Syst Evol Microbiol10.1099/ijsem.0.0051352021Bacterial Typing Techniques, Base Composition, *Chryseobacterium/classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Geologic Sediments/*microbiology, Japan, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, SiderophoresTranscriptome

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
30464Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172679928776041
62202Curators of the CCUGhttps://www.ccug.se/strain?id=60103Culture Collection University of Gothenburg (CCUG) (CCUG 60103)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
91591Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID382383.1