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Strain identifier

BacDive ID: 24800

Type strain: Yes

Species: Jeongeupia chitinilytica

Strain Designation: Jchi

Strain history: <- KCTC <- S.-Y. Sheu, Dept. of Marine Biotechnology, Kaohsiung, Taiwan; Jchi

NCBI tax ID(s): 1041641 (species)

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General

@ref: 21205

BacDive-ID: 24800

DSM-Number: 28058

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Jeongeupia chitinilytica Jchi is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1041641
  • Matching level: species

strain history: <- KCTC <- S.-Y. Sheu, Dept. of Marine Biotechnology, Kaohsiung, Taiwan; Jchi

doi: 10.13145/bacdive24800.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Chromobacteriaceae
  • genus: Jeongeupia
  • species: Jeongeupia chitinilytica
  • full scientific name: Jeongeupia chitinilytica Chen et al. 2013

@ref: 21205

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Chromobacteriaceae, not assigned to order

family: Chromobacteriaceae

genus: Jeongeupia

species: Jeongeupia chitinilytica

full scientific name: Jeongeupia chitinilytica Chen et al. 2013

strain designation: Jchi

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30726negative1.5 µm0.4 µmrod-shapedyes
69480yes54.565
69480negative99.238

pigmentation

  • @ref: 30726
  • production: yes

multimedia

  • @ref: 21205
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_28058.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 21205
  • name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1a
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21205positivegrowth28mesophilic
30726positivegrowth20-37
30726positiveoptimum27.5mesophilic

culture pH

@refabilitytypepH
30726positivegrowth06-08
30726positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30726
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
30726no
69480no97.458

halophily

@refsaltgrowthtested relationconcentrationhalophily levelconfidence
30726NaClpositivegrowth0-2 %
30726NaClpositiveoptimum0.5 %
69480non-halophilic99.229

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3072630089acetate+carbon source
3072615963ribitol+carbon source
3072616449alanine+carbon source
3072622653asparagine+carbon source
3072635391aspartate+carbon source
3072616947citrate+carbon source
3072623652dextrin+carbon source
3072628757fructose+carbon source
3072624265gluconate+carbon source
307265417glucosamine+carbon source
3072617234glucose+carbon source
3072629987glutamate+carbon source
3072615428glycine+carbon source
3072617306maltose+carbon source
3072637684mannose+carbon source
30726506227N-acetylglucosamine+carbon source
3072626271proline+carbon source
3072651850methyl pyruvate+carbon source
3072630031succinate+carbon source
3072653426tween 80+carbon source
3072617151xylitol+carbon source
3072617632nitrate+reduction

enzymes

@refvalueactivityec
30726acid phosphatase+3.1.3.2
30726catalase+1.11.1.6
30726cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 21205
  • sample type: soil
  • geographic location: Kaohsiung City
  • country: Taiwan
  • origin.country: TWN
  • continent: Asia
  • latitude: 22.7261
  • longitude: 120.312

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_1568.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_168;96_892;97_1041;98_1236;99_1568&stattab=map
  • Last taxonomy: Jeongeupia chitinilytica
  • 16S sequence: JF809864
  • Sequence Identity:
  • Total samples: 824
  • soil counts: 203
  • aquatic counts: 491
  • animal counts: 107
  • plant counts: 23

Safety information

risk assessment

  • @ref: 21205
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21205
  • description: Jeongeupia chitinilytica strain Jchi 16S ribosomal RNA gene, partial sequence
  • accession: JF809864
  • length: 1422
  • database: ena
  • NCBI tax ID: 1041641

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Jeongeupia chitinilytica KCTC 23701GCA_014652315contigncbi1041641
66792Jeongeupia chitinilytica strain KCTC 237011041641.3wgspatric1041641
66792uncultured Ruminococcus sp. RUG13971GCA_902794465scaffoldpatric165186

GC content

  • @ref: 30726
  • GC-content: 66.1

External links

@ref: 21205

culture collection no.: DSM 28058, BCRC 80367, KCTC 23701

straininfo link

@refpassport
20218http://www.straininfo.net/strains/885184
20218http://www.straininfo.net/strains/885185

literature

  • topic: Phylogeny
  • Pubmed-ID: 22659500
  • title: Jeongeupia chitinilytica sp. nov., a chitinolytic bacterium isolated from soil.
  • authors: Chen WM, Chang RC, Cheng CY, Shiau YW, Sheu SY
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.043125-0
  • year: 2012
  • mesh: Bacterial Typing Techniques, Base Composition, Betaproteobacteria/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Hydroxybutyrates/*analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, Polyesters/*analysis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Taiwan
  • topic2: Genetics

Reference

@idauthorstitledoi/urljournalpubmedcatalogueID_cross_reference
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
21205Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28058Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28058)
2705710.1099/ijs.0.043125-022659500
30726Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172877604127057
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
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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