Strain identifier
BacDive ID: 133748
Type strain: 
Species: Aurantiacibacter marinus
Strain Designation: HWDM-33
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 874156 (species)
version 8.1 (current version)
General
@ref: 30381
BacDive-ID: 133748
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Aurantiacibacter marinus HWDM-33 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from seawater.
NCBI tax id
- NCBI tax id: 874156
- Matching level: species
strain history
- @ref: 67771
- history: <- JH Yoon, KRIBB
doi: 10.13145/bacdive133748.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Erythrobacteraceae
- genus: Aurantiacibacter
- species: Aurantiacibacter marinus
- full scientific name: Aurantiacibacter marinus (Jung et al. 2012) Xu et al. 2020
synonyms
- @ref: 20215
- synonym: Erythrobacter marinus
@ref: 30381
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Sphingomonadales
family: Erythrobacteraceae
genus: Erythrobacter
species: Erythrobacter marinus
strain designation: HWDM-33
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility |
|---|---|---|---|---|---|
| 30381 | negative | 0.75 µm | 0.4 µm | rod-shaped | no |
| 67771 | negative |
colony morphology
- @ref: 62344
- incubation period: 2 days
pigmentation
- @ref: 30381
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30381 | positive | growth | 04-34 | |
| 30381 | positive | optimum | 25 | mesophilic |
| 62344 | positive | growth | 30 | mesophilic |
| 67771 | positive | growth | 25 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30381 | positive | growth | 5.5-8 |
| 30381 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 30381 | aerobe |
| 62344 | aerobe |
| 67771 | aerobe |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30381 | NaCl | positive | growth | <5 % |
| 30381 | NaCl | positive | optimum | 2.50 % |
observation
- @ref: 67771
- observation: quinones: Q-10
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30381 | 17057 | cellobiose | + | carbon source |
| 30381 | 17234 | glucose | + | carbon source |
| 30381 | 15361 | pyruvate | + | carbon source |
| 30381 | 18222 | xylose | + | carbon source |
| 30381 | 4853 | esculin | + | hydrolysis |
Isolation, sampling and environmental information
isolation
| @ref | sample type | sampling date | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|---|
| 30381 | seawater | |||||
| 62344 | Sea water,Yellow sea | 2007 | Yellow Sea,Hwang-do | Republic of Korea | KOR | Asia |
| 67771 | From sea water | Yellow Sea | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_3620.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_1871;97_2248;98_2759;99_3620&stattab=map
- Last taxonomy: Aurantiacibacter marinus
- 16S sequence: HQ117934
- Sequence Identity:
- Total samples: 546
- soil counts: 84
- aquatic counts: 409
- animal counts: 39
- plant counts: 14
Sequence information
16S sequences
- @ref: 30381
- description: Erythrobacter marinus strain HWDM-33 16S ribosomal RNA gene, partial sequence
- accession: HQ117934
- length: 1442
- database: nuccore
- NCBI tax ID: 874156
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aurantiacibacter marinus KCTC 23554 | GCA_001021555 | contig | ncbi | 874156 |
| 66792 | Aurantiacibacter marinus HWDM-33 | GCA_001013305 | contig | ncbi | 874156 |
| 66792 | Erythrobacter marinus strain KCTC 23554 | 874156.11 | wgs | patric | 874156 |
| 66792 | Erythrobacter marinus KCTC 23554 | 2648501438 | draft | img | 874156 |
GC content
- @ref: 30381
- GC-content: 66.1
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 89.037 | yes |
| flagellated | no | 96.205 | no |
| gram-positive | no | 98.172 | yes |
| anaerobic | no | 98.971 | no |
| halophile | no | 87.367 | no |
| spore-forming | no | 96.371 | no |
| thermophile | no | 93.996 | yes |
| glucose-util | yes | 86.534 | no |
| aerobic | yes | 91.614 | yes |
| glucose-ferment | no | 90.057 | no |
External links
@ref: 30381
culture collection no.: KCTC 23554, CCUG 60528
straininfo link
- @ref: 91582
- straininfo: 410475
literature
- topic: Phylogeny
- Pubmed-ID: 33095131
- title: Aurantiacibacter rhizosphaerae sp. nov., isolated from a rhizosphere mudflat of a halophyte and proposal to reclassify Erythrobacter suaedae Lee et al. 2019. and Erythrobacter flavus Yoon et al. 2003 as Aurantiacibacter suaedae comb. nov. and Qipengyuania flava comb. nov., respectively.
- authors: Lee SD, Kim IS
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.004524
- year: 2020
- mesh: Alphaproteobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Islands, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhizosphere, Salt-Tolerant Plants/microbiology, Sequence Analysis, DNA, Sphingomonadaceae/*classification/isolation & purification, Ubiquinone/analogs & derivatives/chemistry
- topic2: Enzymology
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed | catalogue | journal |
|---|---|---|---|---|---|---|---|
| 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 | ||||
| 30381 | 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 | 26720 | 28776041 | ||
| 62344 | Curators of the CCUG | https://www.ccug.se/strain?id=60528 | Culture Collection University of Gothenburg (CCUG) (CCUG 60528) | ||||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | ||||
| 91582 | 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-ID410475.1 |