Strain identifier
BacDive ID: 24028
Type strain: 
Species: Aquimarina amphilecti
Strain Designation: 92V
Strain history: <- J. Kennedy, University College Cork; 92V <- L.M. Margassary
NCBI tax ID(s): 1038014 (species)
version 8.1 (current version)
General
@ref: 20576
BacDive-ID: 24028
DSM-Number: 25232
keywords: genome sequence, 16S sequence, Bacteria, psychrophilic, Gram-negative
description: Aquimarina amphilecti 92V is a psychrophilic, Gram-negative bacterium that was isolated from marine sponge Amphilectus fucorum.
NCBI tax id
- NCBI tax id: 1038014
- Matching level: species
strain history
- @ref: 20576
- history: <- J. Kennedy, University College Cork; 92V <- L.M. Margassary
doi: 10.13145/bacdive24028.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Aquimarina
- species: Aquimarina amphilecti
- full scientific name: Aquimarina amphilecti Kennedy et al. 2014
@ref: 20576
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Aquimarina
species: Aquimarina amphilecti
full scientific name: Aquimarina amphilecti Kennedy et al. 2014
strain designation: 92V
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.982
colony morphology
- @ref: 20576
- incubation period: 2-3 days
Culture and growth conditions
culture medium
- @ref: 20576
- 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: 20576
- growth: positive
- type: growth
- temperature: 20
- range: psychrophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.981 |
Isolation, sampling and environmental information
isolation
- @ref: 20576
- sample type: marine sponge Amphilectus fucorum
- host species: Amphilectus fucorum
- geographic location: County Cork, Lough Hyne (51° 30' N 9° 18' W, at 8 m depth)
- country: Ireland
- origin.country: IRL
- continent: Europe
- latitude: 51.5
- longitude: -9.3
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Host | #Invertebrates (Other) | #Porifera (Sponges) |
taxonmaps
- @ref: 69479
- File name: preview.99_144317.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_52;96_3439;97_4221;98_5394;99_144317&stattab=map
- Last taxonomy: Aquimarina amphilecti
- 16S sequence: JX050189
- Sequence Identity:
- Total samples: 22
- aquatic counts: 16
- plant counts: 6
Safety information
risk assessment
- @ref: 20576
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20576
- description: Aquimarina amphilecti strain 92V 16S ribosomal RNA gene, partial sequence
- accession: JX050189
- length: 1327
- database: ena
- NCBI tax ID: 1038014
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aquimarina amphilecti DSM 25232 | GCA_900109375 | scaffold | ncbi | 1038014 |
| 66792 | Aquimarina amphilecti strain DSM 25232 | 1038014.5 | wgs | patric | 1038014 |
| 66792 | Aquimarina amphilecti DSM 25232 | 2622736580 | draft | img | 1038014 |
GC content
- @ref: 20576
- GC-content: 36.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| glucose-ferment | no | 92.272 | no |
| motile | no | 88.309 | no |
| flagellated | no | 94.314 | no |
| gram-positive | no | 97.893 | no |
| anaerobic | no | 99.63 | no |
| aerobic | yes | 91.506 | no |
| halophile | no | 57.074 | no |
| spore-forming | no | 93.233 | no |
| glucose-util | yes | 79.538 | no |
| thermophile | no | 99.278 | yes |
External links
@ref: 20576
culture collection no.: DSM 25232, NCIMB 14723
straininfo link
- @ref: 88002
- straininfo: 401417
literature
- topic: Phylogeny
- Pubmed-ID: 24108324
- title: Aquimarina amphilecti sp. nov., isolated from the sponge Amphilectus fucorum.
- authors: Kennedy J, Margassery LM, O'Leary ND, O'Gara F, Morrissey J, Dobson ADW
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.049650-0
- year: 2013
- mesh: Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Ireland, Molecular Sequence Data, *Phylogeny, Pigmentation, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
| 20576 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25232 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25232) | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 88002 | Reimer, 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 identifiers | 10.60712/SI-ID401417.1 |