Strain identifier
BacDive ID: 23444
Type strain: 
Species: Demequina aurantiaca
Strain Designation: YM12-102
Strain history: <- A Katsuta, MBIC <- Y Matsuo
NCBI tax ID(s): 676200 (species)
version 8.1 (current version)
General
@ref: 19116
BacDive-ID: 23444
DSM-Number: 27402
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Demequina aurantiaca YM12-102 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from seaweed.
NCBI tax id
- NCBI tax id: 676200
- Matching level: species
strain history
| @ref | history |
|---|---|
| 19116 | <- NBRC <- A. Katsuta, Kitasato Univ., Tokyo, Japan <- Y. Matsuo; YM12-102 |
| 67771 | <- A Katsuta, MBIC <- Y Matsuo |
doi: 10.13145/bacdive23444.20230509.8.1
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 aurantiaca
- full scientific name: Demequina aurantiaca Ue et al. 2011
@ref: 19116
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Demequinaceae
genus: Demequina
species: Demequina aurantiaca
full scientific name: Demequina aurantiaca Ue et al. 2011
strain designation: YM12-102
type strain: yes
Morphology
cell morphology
| @ref | gram stain | motility | confidence |
|---|---|---|---|
| 67771 | positive | ||
| 69480 | no | 96.16 | |
| 69480 | positive | 100 |
Culture and growth conditions
culture medium
- @ref: 19116
- 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 |
|---|---|---|---|---|
| 19116 | positive | growth | 28 | 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 | 99.999 |
observation
- @ref: 67771
- observation: quinones: DMK-9(H4)(major), DMK-8(H4), DMK-9(H6)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 19116 | seaweed | Shizuoka, Lake Hamana | Japan | JPN | Asia |
| 67771 | From seaweed | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Aquatic plant |
| #Environmental | #Aquatic | |
| #Host | #Algae |
taxonmaps
- @ref: 69479
- File name: preview.99_5673.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_657;97_2978;98_4225;99_5673&stattab=map
- Last taxonomy: Demequina
- 16S sequence: AB522641
- Sequence Identity:
- Total samples: 5261
- soil counts: 1298
- aquatic counts: 1680
- animal counts: 2103
- plant counts: 180
Safety information
risk assessment
- @ref: 19116
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Demequina aurantiaca gene for 16S rRNA, partial sequence | AB522641 | 1444 | ena | 676200 |
| 20218 | Demequina aurantiaca gene for 16S rRNA, partial sequence | AB639020 | 1476 | ena | 676200 |
| 19116 | AB52264 | ena |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Demequina aurantiaca NBRC 106265 | GCA_000975135 | scaffold | ncbi | 676200 |
| 66792 | Demequina aurantiaca strain NBRC 106265 | 676200.3 | wgs | patric | 676200 |
| 66792 | Demequina aurantiaca NBRC 106265 | 2660238532 | draft | img | 676200 |
GC content
- @ref: 19116
- GC-content: 65.4
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 88.992 | no |
| flagellated | no | 98.131 | no |
| gram-positive | yes | 94.613 | yes |
| anaerobic | no | 98.921 | no |
| aerobic | yes | 54.647 | no |
| halophile | no | 87.711 | no |
| spore-forming | no | 91.482 | no |
| glucose-util | yes | 84.12 | no |
| thermophile | no | 98.354 | no |
| glucose-ferment | no | 68.182 | no |
External links
@ref: 19116
culture collection no.: DSM 27402, KCTC 19745, MBIC 08347, NBRC 106265
straininfo link
- @ref: 87596
- straininfo: 399697
literature
- topic: Phylogeny
- Pubmed-ID: 20656823
- title: Demequina globuliformis sp. nov., Demequina oxidasica sp. nov. and Demequina aurantiaca sp. nov., actinobacteria isolated from marine environments, and proposal of Demequinaceae fam. nov.
- authors: Ue H, Matsuo Y, Kasai H, Yokota A
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.024299-0
- year: 2010
- mesh: Actinomycetales/*classification/genetics/*isolation & purification/physiology, Amino Acids/analysis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Vitamin K 2/analysis
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 19116 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27402) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27402 | |||
| 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) | |||
| 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 | |||
| 87596 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID399697.1 | StrainInfo: A central database for resolving microbial strain identifiers |