Strain identifier
BacDive ID: 5596
Type strain: 
Species: Aquimarina agarilytica
Strain Designation: ZC1
Strain history: <- B. Lin, Shantou University, Dept. Biol., China; ZC1
NCBI tax ID(s): 1087449 (species)
version 8.1 (current version)
General
@ref: 16022
BacDive-ID: 5596
DSM-Number: 21889
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Aquimarina agarilytica ZC1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from surface of the marine red alga Porphyra haitanensis.
NCBI tax id
- NCBI tax id: 1087449
- Matching level: species
strain history
- @ref: 16022
- history: <- B. Lin, Shantou University, Dept. Biol., China; ZC1
doi: 10.13145/bacdive5596.20230509.8.1
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 agarilytica
- full scientific name: Aquimarina agarilytica Lin et al. 2012
@ref: 16022
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Aquimarina
species: Aquimarina agarilytica
full scientific name: Aquimarina agarilytica Lin et al. 2012
strain designation: ZC1
type strain: yes
Morphology
cell morphology
- @ref: 29935
- gram stain: negative
- cell length: 1.8-2 µm
- cell width: 0.5-0.6 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 29935
- production: yes
Culture and growth conditions
culture medium
- @ref: 16022
- 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 |
|---|---|---|---|---|
| 16022 | positive | growth | 28 | mesophilic |
| 29935 | positive | growth | 4-30 | |
| 29935 | positive | optimum | 22-26 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29935 | positive | growth | 06-09 | alkaliphile |
| 29935 | positive | optimum | 07-08 |
Physiology and metabolism
oxygen tolerance
- @ref: 29935
- oxygen tolerance: aerobe
compound production
- @ref: 16022
- compound: agarase
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29935 | NaCl | positive | growth | 1-4 % |
| 29935 | NaCl | positive | optimum | 2-3 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29935 | 17057 | cellobiose | + | carbon source |
| 29935 | 23652 | dextrin | + | carbon source |
| 29935 | 28260 | galactose | + | carbon source |
| 29935 | 17234 | glucose | + | carbon source |
| 29935 | 29987 | glutamate | + | carbon source |
| 29935 | 28087 | glycogen | + | carbon source |
| 29935 | 17716 | lactose | + | carbon source |
| 29935 | 17306 | maltose | + | carbon source |
| 29935 | 37684 | mannose | + | carbon source |
| 29935 | 53423 | tween 40 | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29935 | alkaline phosphatase | + | 3.1.3.1 |
| 29935 | catalase | + | 1.11.1.6 |
| 29935 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 16022
- sample type: surface of the marine red alga Porphyra haitanensis
- host species: Porphyra haitanensis
- geographic location: Southeast China sea, Nan Ao island
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Host | #Algae | #Red algae |
taxonmaps
- @ref: 69479
- File name: preview.99_104222.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_52;96_1382;97_4152;98_5313;99_104222&stattab=map
- Last taxonomy: Aquimarina agarilytica subclade
- 16S sequence: FJ750453
- Sequence Identity:
- Total samples: 219
- soil counts: 4
- aquatic counts: 211
- animal counts: 4
Safety information
risk assessment
- @ref: 16022
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16022
- description: Aquimarina agarilytica ZC1 16S ribosomal RNA gene, partial sequence
- accession: FJ750453
- length: 1482
- database: ena
- NCBI tax ID: 620914
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aquimarina agarilytica ZC1 | GCA_000255455 | scaffold | ncbi | 620914 |
| 66792 | Aquimarina agarilytica ZC1 | 620914.3 | wgs | patric | 620914 |
| 66792 | Aquimarina agarilytica ZC1 | 2551306140 | draft | img | 620914 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 16022 | 32.8 | sequence analysis |
| 29935 | 32.8 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 89.759 | yes |
| flagellated | no | 95.395 | no |
| gram-positive | no | 95.792 | no |
| anaerobic | no | 99.629 | no |
| aerobic | yes | 86.61 | yes |
| halophile | no | 69.476 | no |
| spore-forming | no | 93.956 | no |
| glucose-util | yes | 85.719 | yes |
| thermophile | no | 99.42 | yes |
| glucose-ferment | no | 86.444 | no |
External links
@ref: 16022
culture collection no.: DSM 21889, CCTCC AB 2010229, NBRC 107695
straininfo link
- @ref: 75078
- straininfo: 401036
literature
- topic: Phylogeny
- Pubmed-ID: 21622833
- title: Aquimarina agarilytica sp. nov., an agarolytic species isolated from a red alga.
- authors: Lin B, Lu G, Zheng Y, Xie W, Li S, Hu Z
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.027136-0
- year: 2011
- mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Rhodophyta/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 16022 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21889) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21889 | |||
| 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 | |||
| 29935 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26306 | 28776041 | |
| 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) | |||
| 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 | |||
| 75078 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID401036.1 | StrainInfo: A central database for resolving microbial strain identifiers |