Strain identifier

BacDive ID: 5709

Type strain: Yes

Species: Chryseobacterium culicis

Strain Designation: R4-1A

Strain history: CIP <- 2010, CCM <- 2009, P. Kämpfer, Giessen Univ., Giessen, Germany: strain R4-1A

NCBI tax ID(s): 680127 (species)

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General

@ref: 16661

BacDive-ID: 5709

DSM-Number: 23031

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

description: Chryseobacterium culicis R4-1A is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from midgut of the mosquito Culex quinquefasciatus Say, the vector of lymphatic filariasis.

NCBI tax id

  • NCBI tax id: 680127
  • Matching level: species

strain history

@refhistory
16661<- P. Kämpfer, Univ. Giessen, Germany; R4-1A
118811CIP <- 2010, CCM <- 2009, P. Kämpfer, Giessen Univ., Giessen, Germany: strain R4-1A

doi: 10.13145/bacdive5709.20230509.8.1

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 culicis
  • full scientific name: Chryseobacterium culicis Kämpfer et al. 2010

@ref: 16661

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Chryseobacterium

species: Chryseobacterium culicis

full scientific name: Chryseobacterium culicis Kämpfer et al. 2010

strain designation: R4-1A

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29738negative2 µm1 µmrod-shapedno
118811negativerod-shapedno

pigmentation

  • @ref: 29738
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
37584MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118811CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
29738positivegrowth11-36
29738positiveoptimum30mesophilic
37584positivegrowth30mesophilic
61760positivegrowth37mesophilic

culture pH

@refabilitytypepH
29738positivegrowth7
29738positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29738aerobe
61760aerobe
118811obligate aerobe

spore formation

  • @ref: 29738
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
29738NaClpositivegrowth0.5-3 %
29738NaClpositiveoptimum0.5-3 %

observation

  • @ref: 29738
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2973828757fructose+carbon source
2973817234glucose+carbon source
2973817306maltose+carbon source
2973837684mannose+carbon source
2973827082trehalose+carbon source
11881117632nitrate-reduction
11881116301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
2973835581indoleyes
11881135581indoleyes

metabolite tests

  • @ref: 29738
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
29738catalase+1.11.1.6
29738cytochrome oxidase+1.9.3.1
29738urease+3.5.1.5
118811oxidase+
118811catalase+1.11.1.6
118811urease-3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16661midgut of the mosquito Culex quinquefasciatus Say, the vector of lymphatic filariasisCulex quinquefasciatusChattishgarh province, RaipurIndiaINDAsia
61760Mosquito midgut (Culex quinquefasciatis)IndiaINDAsia
118811Animal, Mosquito, midgut, Culex quinquefasciatusIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
166611Risk group (German classification)
1188111Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16661
  • description: Chryseobacterium sp.R4-1A partial 16S rRNA gene, type strain R4-1AT
  • accession: FN554975
  • length: 1483
  • database: ena
  • NCBI tax ID: 680127

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium culicis DSM 23031GCA_900108365contigncbi680127
66792Chryseobacterium culicis strain DSM 23031680127.5wgspatric680127
66792Chryseobacterium culicis DSM 230312687453786draftimg680127

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno97.834yes
anaerobicno99.592yes
halophileno94.014no
spore-formingno94.131no
glucose-utilyes86.562yes
flagellatedno95.892yes
thermophileno99.567yes
motileno89.863no
aerobicyes92.952no
glucose-fermentno92.183no

External links

@ref: 16661

culture collection no.: DSM 23031, CCM 7716, LMG 25442, CCUG 58784, CIP 110213

straininfo link

  • @ref: 75191
  • straininfo: 364080

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19933582Chryseobacterium culicis sp. nov., isolated from the midgut of the mosquito Culex quinquefasciatus.Kampfer P, Chandel K, Prasad GBKS, Shouche YS, Veer VInt J Syst Evol Microbiol10.1099/ijs.0.019794-02009Animals, Bacterial Typing Techniques, Chryseobacterium/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Culex/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gastrointestinal Tract/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
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
Phylogeny30938667Chryseobacterium aureum sp. nov., isolated from the Han River, Republic of Korea.Lee JE, Hwang EM, Cha CJ, Kim GBInt J Syst Evol Microbiol10.1099/ijsem.0.0033702019Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16661Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23031)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23031
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
29738Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2612028776041
37584Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8048
61760Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58784)https://www.ccug.se/strain?id=58784
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)
75191Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364080.1StrainInfo: A central database for resolving microbial strain identifiers
118811Curators of the CIPCollection of Institut Pasteur (CIP 110213)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110213