Strain identifier

BacDive ID: 136737

Type strain: Yes

Species: Chryseobacterium lathyri

Strain Designation: RBA2-6

Strain history: CIP <- 2012, KCTC <- S.B. Kim, Chungnam Natl. Univ., Korea: strain RBA2-6

NCBI tax ID(s): 395933 (species)

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General

@ref: 36268

BacDive-ID: 136737

keywords: genome sequence, Bacteria, mesophilic

description: Chryseobacterium lathyri RBA2-6 is a mesophilic bacterium of the family Weeksellaceae.

NCBI tax id

  • NCBI tax id: 395933
  • Matching level: species

strain history

  • @ref: 36268
  • history: CIP <- 2012, KCTC <- S.B. Kim, Chungnam Natl. Univ., Korea: strain RBA2-6

doi: 10.13145/bacdive136737.20230509.8.1

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 lathyri
  • full scientific name: Chryseobacterium lathyri Cho et al. 2011

@ref: 36268

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Chryseobacterium

species: Chryseobacterium lathyri

strain designation: RBA2-6

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no91.966
6948099.997negative
36268nonegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36268MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
36268CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

  • @ref: 36268
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.998

enzymes

@refvalueactivityec
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
36268--------------------

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample typegeographic location
36268Republic of KoreaKORAsia
36268Republic of KoreaKORAsiaEnvironment, Soil, rhizosphere of wild pea (Lathyrus japonica) growing in a coastal sand dune areaThe Tae-An area, Chungnam Province

Safety information

risk assessment

  • @ref: 36268
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium lathyri NBRC 105250GCA_007991435contigncbi395933
66792Chryseobacterium lathyri KCTC 22544GCA_003290185contigncbi395933
66792Chryseobacterium lathyri strain KCTC 22544395933.8wgspatric395933
66792Chryseobacterium lathyri strain NBRC 105250395933.12wgspatric395933
66792Chryseobacterium lathyri KCTC 225442842083920draftimg395933

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.081no
anaerobicno99.644no
halophileno94.205no
spore-formingno94.936no
glucose-utilyes85.498no
aerobicyes92.285no
flagellatedno96.093no
thermophileno99.696no
motileno89.572no
glucose-fermentno92.774no

External links

@ref: 36268

culture collection no.: CIP 110402, KCTC 22544, NBRC 105250

straininfo link

  • @ref: 93806
  • straininfo: 412735

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20185262Four new species of Chryseobacterium from the rhizosphere of coastal sand dune plants, Chryseobacterium elymi sp. nov., Chryseobacterium hagamense sp. nov., Chryseobacterium lathyri sp. nov. and Chryseobacterium rhizosphaerae sp. nov.Cho SH, Lee KS, Shin DS, Han JH, Park KS, Lee CH, Park KH, Kim SBSyst Appl Microbiol10.1016/j.syapm.2009.12.0042010Bacterial Typing Techniques, Chryseobacterium/chemistry/*classification/genetics/*isolation & purification, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysisGenetics
Genetics30637405Draft Genome Sequences of Seven Chryseobacterium Type Strains.Matu A, Lum Nde A, Oosthuizen L, Hitzeroth A, Badenhorst M, Duba L, Gidaga M, Klinck J, Kriek IM, Lekoma PJ, Nel L, Dos Ramos SM, Rossouw J, Salomane N, Segone N, Serobe S, Tiyani T, Hugo CJ, Newman JDMicrobiol Resour Announc10.1128/MRA.01518-182019

Reference

@idauthorstitledoi/urlcatalogue
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
36268Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110402Collection of Institut Pasteur (CIP 110402)
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
68382Automatically annotated from API zym
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
93806Reimer, 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-ID412735.1