Strain identifier
BacDive ID: 17837
Type strain: 
Species: Demequina aestuarii
Strain Designation: JC2054
Strain history: <- J Chon, Seoul Univ.
NCBI tax ID(s): 327095 (species)
version 8.1 (current version)
General
@ref: 7878
BacDive-ID: 17837
DSM-Number: 19086
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Demequina aestuarii JC2054 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from tidal flat sediment.
NCBI tax id
- NCBI tax id: 327095
- Matching level: species
strain history
| @ref | history |
|---|---|
| 7878 | <- JCM <- Jongsik Chun, JC2054 |
| 67770 | J. Chun JC2054. |
| 67771 | <- J Chon, Seoul Univ. |
doi: 10.13145/bacdive17837.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Demequinaceae
- genus: Demequina
- species: Demequina aestuarii
- full scientific name: Demequina aestuarii Yi et al. 2007
@ref: 7878
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Demequinaceae
genus: Demequina
species: Demequina aestuarii
full scientific name: Demequina aestuarii Yi et al. 2007
strain designation: JC2054
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 67771 | positive | |
| 69480 | positive | 100 |
Culture and growth conditions
culture medium
- @ref: 7878
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 7878 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
| 67771 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.994 |
observation
- @ref: 67770
- observation: quinones: DMK-9(H4)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 7878 | tidal flat sediment | Ganghwa Island | Republic of Korea | KOR | Asia |
| 67770 | Tidal flat sediment | Ganghwa Island | Republic of Korea | KOR | Asia |
| 67771 | From a tidal flat sediment sample | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Tidal flat |
| #Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_5885.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_657;97_2978;98_3730;99_5885&stattab=map
- Last taxonomy: Demequina aestuarii
- 16S sequence: DQ010160
- Sequence Identity:
- Total samples: 170
- soil counts: 28
- aquatic counts: 55
- animal counts: 63
- plant counts: 24
Safety information
risk assessment
- @ref: 7878
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Demequina aestuarii strain JC2054 16S ribosomal RNA gene, partial sequence
- accession: DQ010160
- length: 1445
- database: ena
- NCBI tax ID: 327095
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Demequina aestuarii strain NBRC 106260 | 327095.3 | wgs | patric | 327095 |
| 66792 | Demequina aestuarii NBRC 106260 | 2690315957 | draft | img | 327095 |
| 67770 | Demequina aestuarii NBRC 106260 | GCA_000975095 | scaffold | ncbi | 327095 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 7878 | 67 | |
| 67770 | 67 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | yes | 92.582 | no |
| anaerobic | no | 98.681 | yes |
| halophile | no | 78.21 | no |
| spore-forming | no | 92.576 | no |
| glucose-util | yes | 87.784 | no |
| motile | yes | 75.207 | no |
| flagellated | no | 91.124 | no |
| aerobic | yes | 61.942 | yes |
| thermophile | no | 98.871 | yes |
| glucose-ferment | no | 57.101 | no |
External links
@ref: 7878
culture collection no.: DSM 19086, IMSNU 14027, JCM 12123, KCTC 9919, NBRC 106260
straininfo link
- @ref: 86828
- straininfo: 138337
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 17220458 | Demequina aestuarii gen. nov., sp. nov., a novel actinomycete of the suborder Micrococcineae, and reclassification of Cellulomonas fermentans Bagnara et al. 1985 as Actinotalea fermentans gen. nov., comb. nov. | Yi H, Schumann P, Chun J | Int J Syst Evol Microbiol | 10.1099/ijs.0.64525-0 | 2007 | Actinomycetales/chemistry/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cellulomonas/chemistry/*classification/genetics, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity | Genetics |
| Phylogeny | 19329581 | Demequina lutea sp. nov., isolated from a high Arctic permafrost soil. | Finster KW, Herbert RA, Kjeldsen KU, Schumann P, Lomstein BA | Int J Syst Evol Microbiol | 10.1099/ijs.0.004929-0 | 2009 | Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Anaerobiosis, Arctic Regions, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Norway, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phylogeny, Pigments, Biological/biosynthesis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7878 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19086) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19086 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 69479 | João 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 86828 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID138337.1 | StrainInfo: A central database for resolving microbial strain identifiers |