Strain identifier
BacDive ID: 1904
Type strain:
Species: Daeguia caeni
Strain Designation: K107
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 439612 (species)
General
@ref: 15944
BacDive-ID: 1904
DSM-Number: 21779
keywords: 16S sequence, Bacteria, facultative aerobe, mesophilic, Gram-negative, rod-shaped, colony-forming
description: Daeguia caeni K107 is a facultative aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from sludge from a textile dye works.
NCBI tax id
- NCBI tax id: 439612
- Matching level: species
strain history
@ref | history |
---|---|
15944 | <- KCTC <- J.-H. Yoon, KRIBB |
67771 | <- JH Yoon, KRIBB |
doi: 10.13145/bacdive1904.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Brucellaceae
- genus: Daeguia
- species: Daeguia caeni
- full scientific name: Daeguia caeni Yoon et al. 2008
@ref: 15944
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Brucellaceae
genus: Daeguia
species: Daeguia caeni
full scientific name: Daeguia caeni Yoon et al. 2008
strain designation: K107
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape |
---|---|---|---|---|
23349 | negative | 0.7-2.0 µm | 0.4-0.6 µm | rod-shaped |
67771 | negative |
colony morphology
@ref | colony size | colony color | colony shape | incubation period | medium used |
---|---|---|---|---|---|
23349 | 1.0-1.5 mm | greyish yellow | circular | 2 days | TSA |
60210 | 2 days |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
15944 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
23349 | Trypticase Soy Agar (TSA) | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
15944 | positive | growth | 37 | mesophilic |
23349 | positive | growth | 15-55 | |
23349 | no | growth | 10 | psychrophilic |
23349 | no | growth | 56 | thermophilic |
23349 | positive | growth | 45 | thermophilic |
23349 | positive | optimum | 30-37 | mesophilic |
60210 | positive | growth | 30-42 | |
67771 | positive | growth | 37 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
23349 | positive | optimum | 7.0-8.0 | |
23349 | positive | growth | 5.0-9.0 | alkaliphile |
23349 | no | growth | 4.5 | |
23349 | no | growth | 9.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
23349 | facultative aerobe |
23349 | aerobe |
60210 | aerobe |
67771 | aerobe |
spore formation
- @ref: 23349
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
23349 | NaCl | positive | growth | 0-4 % |
23349 | NaCl | positive | optimum | 0.5-1.0 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23349 | 16808 | 2-dehydro-D-gluconate | - | assimilation |
23349 | 17426 | 5-dehydro-D-gluconate | - | assimilation |
23349 | 27613 | amygdalin | - | assimilation |
23349 | 18305 | arbutin | - | assimilation |
23349 | 27689 | decanoate | - | assimilation |
23349 | 17057 | cellobiose | - | assimilation |
23349 | 16947 | citrate | - | assimilation |
23349 | 17108 | D-arabinose | - | assimilation |
23349 | 18333 | D-arabitol | - | assimilation |
23349 | 15824 | D-fructose | - | assimilation |
23349 | 28847 | D-fucose | - | assimilation |
23349 | 12936 | D-galactose | - | assimilation |
23349 | 62318 | D-lyxose | - | assimilation |
23349 | 16899 | D-mannitol | - | assimilation |
23349 | 17924 | D-sorbitol | - | assimilation |
23349 | 16443 | D-tagatose | - | assimilation |
23349 | 65327 | D-xylose | - | assimilation |
23349 | 16813 | galactitol | - | assimilation |
23349 | 17113 | erythritol | - | assimilation |
23349 | 4853 | esculin | - | assimilation |
23349 | 28066 | gentiobiose | - | assimilation |
23349 | 24265 | gluconate | - | assimilation |
23349 | 17754 | glycerol | - | assimilation |
23349 | 28087 | glycogen | - | assimilation |
23349 | 15443 | inulin | - | assimilation |
23349 | 30849 | L-arabinose | - | assimilation |
23349 | 18403 | L-arabitol | - | assimilation |
23349 | 18287 | L-fucose | - | assimilation |
23349 | 65328 | L-xylose | - | assimilation |
23349 | 17716 | lactose | - | assimilation |
23349 | 25115 | malate | - | assimilation |
23349 | 17306 | maltose | - | assimilation |
23349 | 6731 | melezitose | - | assimilation |
23349 | 28053 | melibiose | - | assimilation |
23349 | 43943 | methyl alpha-D-mannoside | - | assimilation |
23349 | 320055 | methyl beta-D-glucopyranoside | - | assimilation |
23349 | 74863 | methyl beta-D-xylopyranoside | - | assimilation |
23349 | 16634 | raffinose | - | assimilation |
23349 | 26546 | rhamnose | - | assimilation |
23349 | 33942 | ribose | - | assimilation |
23349 | 17814 | salicin | - | assimilation |
23349 | 27922 | sorbose | - | assimilation |
23349 | 28017 | starch | - | assimilation |
23349 | 17992 | sucrose | - | assimilation |
23349 | 27082 | trehalose | - | assimilation |
23349 | 32528 | turanose | - | assimilation |
23349 | 17151 | xylitol | - | assimilation |
23349 | casein | - | hydrolysis | |
23349 | 4853 | esculin | - | hydrolysis |
23349 | 5291 | gelatin | - | hydrolysis |
23349 | 28017 | starch | - | hydrolysis |
23349 | 53424 | tween 20 | - | hydrolysis |
23349 | 53423 | tween 40 | - | hydrolysis |
23349 | 53425 | tween 60 | - | hydrolysis |
23349 | 53426 | tween 80 | - | hydrolysis |
23349 | 18186 | tyrosine | - | hydrolysis |
23349 | 16199 | urea | - | hydrolysis |
23349 | 15318 | xanthine | - | hydrolysis |
23349 | 17632 | nitrate | - | reduction |
23349 | 15963 | ribitol | + | assimilation |
23349 | 17634 | D-glucose | + | assimilation |
23349 | 17268 | myo-inositol | + | assimilation |
23349 | 37684 | mannose | + | assimilation |
23349 | 506227 | N-acetylglucosamine | + | assimilation |
23349 | 18401 | phenylacetate | + | assimilation |
23349 | 17368 | hypoxanthine | + | hydrolysis |
23349 | 17128 | adipate | +/- | assimilation |
antibiotic resistance
@ref | ChEBI | metabolite | is antibiotic | is resistant | is sensitive |
---|---|---|---|---|---|
23349 | 28971 | ampicillin | yes | yes | |
23349 | 6472 | lincomycin | yes | yes | |
23349 | 16869 | oleandomycin | yes | yes | |
23349 | 18208 | penicillin g | yes | yes | |
23349 | 8309 | polymyxin b | yes | yes | |
23349 | 3393 | carbenicillin | yes | yes | |
23349 | 3542 | cephalothin | yes | yes | |
23349 | 17698 | chloramphenicol | yes | yes | |
23349 | 17833 | gentamicin | yes | yes | |
23349 | 6104 | kanamycin | yes | yes | |
23349 | 7507 | neomycin | yes | yes | |
23349 | 28368 | novobiocin | yes | yes | |
23349 | 17076 | streptomycin | yes | yes | |
23349 | 27902 | tetracycline | yes | yes |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
23349 | 35581 | indole | no |
23349 | 16136 | hydrogen sulfide | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
23349 | 6-phospho-beta-galactosidase | - | 3.2.1.85 |
23349 | acid phosphatase | + | 3.1.3.2 |
23349 | alkaline phosphatase | + | 3.1.3.1 |
23349 | alpha-chymotrypsin | - | 3.4.21.1 |
23349 | alpha-fucosidase | - | 3.2.1.51 |
23349 | alpha-galactosidase | - | 3.2.1.22 |
23349 | alpha-glucosidase | - | 3.2.1.20 |
23349 | alpha-mannosidase | - | 3.2.1.24 |
23349 | arginine dihydrolase | - | 3.5.3.6 |
23349 | beta-glucosidase | - | 3.2.1.21 |
23349 | beta-glucuronidase | - | 3.2.1.31 |
23349 | cystine arylamidase | - | 3.4.11.3 |
23349 | esterase (C 4) | + | |
23349 | esterase lipase (C 8) | + | |
23349 | leucine arylamidase | + | 3.4.11.1 |
23349 | lipase (C 14) | - | |
23349 | lysine decarboxylase | - | 4.1.1.18 |
23349 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
23349 | naphthol-AS-BI-phosphohydrolase | + | |
23349 | ornithine decarboxylase | - | 4.1.1.17 |
23349 | trypsin | - | 3.4.21.4 |
23349 | tryptophan deaminase | - | 4.1.99.1 |
23349 | urease | - | 3.5.1.5 |
23349 | valine arylamidase | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
15944 | sludge from a textile dye works | Daegu | Republic of Korea | KOR | Asia | |
60210 | Sludge of a dye-works | Daegu | Republic of Korea | KOR | Asia | 2004-04-01 |
67771 | From wastewater | Daegu | Republic of Korea | KOR | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Industrial | #Industrial production |
#Environmental | #Terrestrial | #Mud (Sludge) |
Safety information
risk assessment
- @ref: 15944
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15944
- description: Daeguia caeni strain K107 16S ribosomal RNA gene, partial sequence
- accession: EF532794
- length: 1441
- database: ena
- NCBI tax ID: 439612
GC content
@ref | GC-content | method |
---|---|---|
15944 | 57 | high performance liquid chromatography (HPLC) |
23349 | 57.0 | high performance liquid chromatography (HPLC) |
External links
@ref: 15944
culture collection no.: DSM 21779, CCUG 54520, KCTC 12981
straininfo link
- @ref: 71548
- straininfo: 404684
literature
- topic: Phylogeny
- Pubmed-ID: 18175704
- title: Daeguia caeni gen. nov., sp. nov., isolated from sludge of a textile dye works.
- authors: Yoon JH, Kang SJ, Park S, Oh TK
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65483-0
- year: 2008
- mesh: Bacterial Typing Techniques, Brucellaceae/chemistry/*classification/genetics/*isolation & purification, Coloring Agents, Fatty Acids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Species Specificity, *Textile Industry
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
15944 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21779) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21779 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
23349 | Jung-Hoon Yoon, So-Jung Kang, Sooyeon Park, Tae-Kwang Oh | 10.1099/ijs.0.65483-0 | Daeguia caeni gen. nov., sp. nov., isolated from sludge of a textile dye works | IJSEM 58: 168-172 2008 | 18175704 | |
60210 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 54520) | https://www.ccug.se/strain?id=54520 | |||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
71548 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404684.1 | StrainInfo: A central database for resolving microbial strain identifiers |