Strain identifier
BacDive ID: 24498
Type strain:
Species: Aliiroseovarius halocynthiae
Strain Designation: MA1-10
Strain history: <- KCTC
NCBI tax ID(s): 985055 (species)
General
@ref: 20780
BacDive-ID: 24498
DSM-Number: 27840
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, ovoid-shaped
description: Aliiroseovarius halocynthiae MA1-10 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea squirt Halocynthia roretzi.
NCBI tax id
- NCBI tax id: 985055
- Matching level: species
strain history
- @ref: 20780
- history: <- KCTC
doi: 10.13145/bacdive24498.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Aliiroseovarius
- species: Aliiroseovarius halocynthiae
- full scientific name: Aliiroseovarius halocynthiae (Kim et al. 2012) Park et al. 2015
synonyms
@ref synonym 20215 Pseudoroseovarius halocynthiae 20215 Roseovarius halocynthiae
@ref: 20780
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Aliiroseovarius
species: Aliiroseovarius halocynthiae
full scientific name: Aliiroseovarius halocynthiae (Kim et al. 2012) Park et al. 2015
strain designation: MA1-10
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30249 | negative | 0.9-6.5 µm | 0.4-0.7 µm | ovoid-shaped | yes | |
69480 | negative | 99.999 |
colony morphology
@ref | incubation period |
---|---|
20780 | 2-3 days |
62427 | 2 days |
pigmentation
- @ref: 30249
- production: yes
Culture and growth conditions
culture medium
- @ref: 20780
- 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 |
---|---|---|---|---|
20780 | positive | growth | 30 | mesophilic |
30249 | positive | growth | 10-37 | |
30249 | positive | optimum | 30 | mesophilic |
62427 | positive | growth | 30 | mesophilic |
culture pH
- @ref: 30249
- ability: positive
- type: optimum
- pH: 07-08
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
30249 | aerobe |
62427 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 99 |
69480 | no | 99.997 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30249 | NaCl | positive | growth | 0-6 % |
30249 | NaCl | positive | optimum | 2 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30249 | 4853 | esculin | + | hydrolysis |
30249 | 17632 | nitrate | + | reduction |
68369 | 25115 | malate | - | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | - | assimilation |
68369 | 24265 | gluconate | - | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16024 | D-mannose | - | assimilation |
68369 | 30849 | L-arabinose | - | assimilation |
68369 | 17634 | D-glucose | - | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
20780 | catalase | + | 1.11.1.6 |
20780 | cytochrome-c oxidase | + | 1.9.3.1 |
30249 | acid phosphatase | + | 3.1.3.2 |
30249 | alkaline phosphatase | + | 3.1.3.1 |
30249 | catalase | + | 1.11.1.6 |
30249 | cytochrome oxidase | + | 1.9.3.1 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
20780 | - | - | - | - | - | - | - | + | - | - | - | +/- | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|---|
20780 | sea squirt Halocynthia roretzi | Halocynthia roretzi | Namhae | Republic of Korea | KOR | Asia | |
62427 | Sea squirt (Halocynthia roretzi) | South Sea | Republic of Korea | KOR | Asia | 2009 |
isolation source categories
- Cat1: #Host
- Cat2: #Invertebrates (Other)
- Cat3: #Tunicata
taxonmaps
- @ref: 69479
- File name: preview.99_118433.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_46;97_9204;98_11285;99_118433&stattab=map
- Last taxonomy: Aliiroseovarius halocynthiae
- 16S sequence: HQ852039
- Sequence Identity:
- Total samples: 1459
- soil counts: 1
- aquatic counts: 1414
- animal counts: 40
- plant counts: 4
Safety information
risk assessment
- @ref: 20780
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20780
- description: Roseovarius halocynthiae strain MA1-10 16S ribosomal RNA gene, partial sequence
- accession: HQ852039
- length: 1388
- database: ena
- NCBI tax ID: 985055
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Aliiroseovarius halocynthiae MA1-10 | GCA_007004645 | scaffold | ncbi | 985055 |
66792 | Aliiroseovarius halocynthiae DSM 27840 | 2617270828 | draft | img | 985055 |
GC content
@ref | GC-content | method |
---|---|---|
20780 | 55.4 | high performance liquid chromatography (HPLC) |
30249 | 55.4 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 99 | no |
flagellated | no | 76.658 | no |
gram-positive | no | 97.532 | yes |
anaerobic | no | 98.39 | yes |
aerobic | yes | 85.856 | yes |
halophile | yes | 52.998 | no |
spore-forming | no | 96.885 | no |
thermophile | no | 89.503 | yes |
glucose-util | no | 50 | yes |
motile | no | 60.484 | no |
glucose-ferment | no | 90.059 | yes |
External links
@ref: 20780
culture collection no.: DSM 27840, CCUG 60745, KCTC 23462
straininfo link
- @ref: 88356
- straininfo: 397538
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 21669917 | Roseovarius halocynthiae sp. nov., isolated from the sea squirt Halocynthia roretzi. | Kim YO, Kong HJ, Park S, Kang SJ, Kim WJ, Kim KK, Oh TK, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.031674-0 | 2011 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA, Ubiquinone/chemistry, Urochordata/*microbiology | Genetics |
Phylogeny | 22941298 | Roseovarius sediminilitoris sp. nov., isolated from seashore sediment. | Park S, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.043737-0 | 2012 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analysis | Genetics |
Phylogeny | 25964517 | Aliiroseovarius pelagivivens gen. nov., sp. nov., isolated from seawater, and reclassification of three species of the genus Roseovarius as Aliiroseovarius crassostreae comb. nov., Aliiroseovarius halocynthiae comb. nov. and Aliiroseovarius sediminilitoris comb. nov. | Park S, Park JM, Kang CH, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.000315 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry | Genetics |
Phylogeny | 26066711 | Pseudoroseovarius zhejiangensis gen. nov., sp. nov., a novel alpha-proteobacterium isolated from the chemical wastewater, and reclassification of Roseovarius crassostreae as Pseudoroseovarius crassostreae comb. nov., Roseovarius sediminilitoris as Pseudoroseovarius sediminilitoris comb. nov. and Roseovarius halocynthiae as Pseudoroseovarius halocynthiae comb. nov. | Sun C, Pan J, Zhang XQ, Su Y, Wu M | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0480-9 | 2015 | Aerobiosis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Waste Water/*microbiology | Genetics |
Phylogeny | 31622234 | Aliiroseovarius marinus sp. nov., isolated from seawater. | Wang Y, Zhang Y, Guo C, Liu T, Dai Y, Lin M, Cui C, Zhang Y, Zhou C, Zhu W | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003757 | 2020 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry, *Water Microbiology | Transcriptome |
Reference
@id | authors | title | doi/url | catalogue | 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 | |||
20780 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27840 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27840) | |||
30249 | 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 | 26591 | 28776041 | |
62427 | Curators of the CCUG | https://www.ccug.se/strain?id=60745 | Culture Collection University of Gothenburg (CCUG) (CCUG 60745) | |||
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 | |||
68369 | Automatically annotated from API 20NE | |||||
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 | |||
88356 | 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-ID397538.1 |