Strain identifier
BacDive ID: 133847
Type strain: 
Species: Aquimarina longa
Strain Designation: SW024
Strain history: X.-H. Zhang sw024.
NCBI tax ID(s): 1080221 (species)
version 8.1 (current version)
General
@ref: 30667
BacDive-ID: 133847
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Aquimarina longa SW024 is an aerobe, Gram-negative, motile bacterium that was isolated from seawater.
NCBI tax id
- NCBI tax id: 1080221
- Matching level: species
strain history
- @ref: 67770
- history: X.-H. Zhang sw024.
doi: 10.13145/bacdive133847.20230509.8.1
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 longa
- full scientific name: Aquimarina longa Yu et al. 2013
@ref: 30667
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Aquimarina
species: Aquimarina longa
strain designation: SW024
type strain: yes
Morphology
cell morphology
- @ref: 30667
- gram stain: negative
- cell length: 34.5 µm
- cell width: 0.3 µm
- cell shape: rod-shaped
- motility: yes
- flagellum arrangement: gliding
pigmentation
- @ref: 30667
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30667 | positive | growth | 04-30 | |
| 30667 | positive | optimum | 22 | psychrophilic |
| 67770 | positive | growth | 28 | mesophilic |
culture pH
- @ref: 30667
- ability: positive
- type: growth
- pH: 07-10
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 30667
- oxygen tolerance: aerobe
halophily
- @ref: 30667
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 03-05 %
observation
| @ref | observation |
|---|---|
| 30667 | aggregates in clumps |
| 67770 | quinones: MK-6 |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30667 | 30089 | acetate | + | carbon source |
| 30667 | 21217 | L-alaninamide | + | carbon source |
| 30667 | 16449 | alanine | + | carbon source |
| 30667 | 35391 | aspartate | + | carbon source |
| 30667 | 29987 | glutamate | + | carbon source |
| 30667 | 15428 | glycine | + | carbon source |
| 30667 | 18240 | 4-hydroxy-L-proline | + | carbon source |
| 30667 | 37684 | mannose | + | carbon source |
| 30667 | 506227 | N-acetylglucosamine | + | carbon source |
| 30667 | 50048 | phenylethylamine | + | carbon source |
| 30667 | 26271 | proline | + | carbon source |
| 30667 | 17272 | propionate | + | carbon source |
| 30667 | 17822 | serine | + | carbon source |
| 30667 | 30031 | succinate | + | carbon source |
| 30667 | 26986 | threonine | + | carbon source |
| 30667 | 53423 | tween 40 | + | carbon source |
| 30667 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30667 | acid phosphatase | + | 3.1.3.2 |
| 30667 | alkaline phosphatase | + | 3.1.3.1 |
| 30667 | catalase | + | 1.11.1.6 |
| 30667 | gelatinase | + | |
| 30667 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | latitude | longitude |
|---|---|---|---|
| 30667 | seawater | ||
| 67770 | Surface seawater of the South Pacific Gyre (26° 29' S 137° 56' W) | -26.4833 | -137.933 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_43780.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_52;96_492;97_25061;98_31772;99_43780&stattab=map
- Last taxonomy: Aquimarina longa subclade
- 16S sequence: JN118549
- Sequence Identity:
- Total samples: 25
- aquatic counts: 24
- animal counts: 1
Sequence information
16S sequences
- @ref: 30667
- description: Aquimarina longa strain SW024 16S ribosomal RNA gene, partial sequence
- accession: JN118549
- length: 1432
- database: nuccore
- NCBI tax ID: 1379258
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aquimarina longa SW024 | 1379258.3 | wgs | patric | 1379258 |
| 66792 | Aquimarina longa SW024 | 2667528136 | draft | img | 1379258 |
| 67770 | Aquimarina longa SW024 | GCA_001401755 | scaffold | ncbi | 1379258 |
GC content
- @ref: 30667
- GC-content: 30.8
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 87.987 | no |
| gram-positive | no | 97.934 | yes |
| anaerobic | no | 99.59 | no |
| halophile | no | 68.706 | no |
| spore-forming | no | 92.198 | no |
| thermophile | no | 99.089 | yes |
| glucose-util | yes | 77.373 | no |
| aerobic | yes | 87.752 | yes |
| flagellated | no | 92.558 | no |
| glucose-ferment | no | 91.86 | no |
External links
@ref: 30667
culture collection no.: CGMCC 1.11007, JCM 17859
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22771683 | Aquimarina longa sp. nov., isolated from seawater, and emended description of Aquimarina muelleri. | Yu T, Yin Q, Song X, Zhao R, Shi X, Zhang XH | Int J Syst Evol Microbiol | 10.1099/ijs.0.041509-0 | 2012 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Pacific Ocean, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Water Microbiology | Genetics |
| Phylogeny | 26459873 | Genomic insight into Aquimarina longa SW024 T: its ultra-oligotrophic adapting mechanisms and biogeochemical functions. | Xu T, Yu M, Lin H, Zhang Z, Liu J, Zhang XH | BMC Genomics | 10.1186/s12864-015-2005-3 | 2015 | Adaptation, Biological/genetics, Base Composition, Flavobacteriaceae/classification/*genetics/isolation & purification/*metabolism, *Genome, Bacterial, *Genomics, Multigene Family, Open Reading Frames, Phylogeny, Seawater/microbiology | Genetics |
Reference
| @id | authors | title | doi/url | ID_cross_reference | 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 | ||
| 30667 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 26998 | 28776041 |
| 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 | ||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||
| 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/ |