Strain identifier
BacDive ID: 130625
Type strain:
Species: Aliiroseovarius sediminilitoris
Strain Designation: M-M10
Strain history: <- JH Yoon, Sungkyunkwan Univ.
NCBI tax ID(s): 1173584 (species)
General
@ref: 21770
BacDive-ID: 130625
DSM-Number: 29439
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, ovoid-shaped
description: Aliiroseovarius sediminilitoris M-M10 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seashore sediment.
NCBI tax id
- NCBI tax id: 1173584
- Matching level: species
strain history
@ref | history |
---|---|
21770 | <- KCTC <- J.-H. Yoon, KRIBB; M-M10 |
67771 | <- JH Yoon, Sungkyunkwan Univ. |
doi: 10.13145/bacdive130625.20230509.8.1
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 sediminilitoris
- full scientific name: Aliiroseovarius sediminilitoris (Park and Yoon 2013) Park et al. 2015
synonyms
@ref synonym 20215 Pseudoroseovarius sediminilitoris 20215 Roseovarius sediminilitoris
@ref: 21770
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Aliiroseovarius
species: Aliiroseovarius sediminilitoris
full scientific name: Aliiroseovarius sediminilitoris (Park and Yoon 2013) Park et al. 2015
strain designation: M-M10
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30758 | negative | 1.8 µm | 0.35 µm | ovoid-shaped | yes | |
67771 | negative | |||||
69480 | negative | 99.999 |
colony morphology
- @ref: 21770
- incubation period: 1-2 days
pigmentation
- @ref: 30758
- production: yes
Culture and growth conditions
culture medium
- @ref: 21770
- 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 |
---|---|---|---|---|
21770 | positive | growth | 30 | mesophilic |
30758 | positive | growth | 04-37 | |
30758 | positive | optimum | 30 | mesophilic |
62829 | positive | growth | 30 | mesophilic |
67771 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
30758 | positive | growth | 5.5-8 |
30758 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
30758 | aerobe |
62829 | aerobe |
67771 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 98 |
69480 | no | 99.993 |
halophily
- @ref: 30758
- salt: NaCl
- growth: positive
- tested relation: optimum
- concentration: 2 %
observation
- @ref: 30758
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30758 | 30089 | acetate | + | carbon source |
30758 | 16947 | citrate | + | carbon source |
30758 | 28757 | fructose | + | carbon source |
30758 | 25115 | malate | + | carbon source |
30758 | 15361 | pyruvate | + | carbon source |
30758 | 30031 | succinate | + | carbon source |
30758 | 4853 | esculin | + | hydrolysis |
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 | 16899 | D-mannitol | + | 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 |
---|---|---|---|
21770 | catalase | + | 1.11.1.6 |
21770 | cytochrome-c oxidase | + | 1.9.3.1 |
30758 | alkaline phosphatase | + | 3.1.3.1 |
30758 | catalase | + | 1.11.1.6 |
30758 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
21770 | - | - | - | - | - | + | - | + | + | - | + | + | + | + | - | - | - | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
21770 | seashore sediment | South Sea, Geoje island | Republic of Korea | KOR | Asia |
62829 | Seashore sediment | Geoje Island | Republic of Korea | KOR | Asia |
67771 | From tidal flat | South Sea | Republic of Korea | KOR | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Coast |
#Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_64167.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_46;97_48;98_44338;99_64167&stattab=map
- Last taxonomy: Aliiroseovarius sediminilitoris subclade
- 16S sequence: JQ739459
- Sequence Identity:
- Total samples: 459
- soil counts: 16
- aquatic counts: 428
- animal counts: 10
- plant counts: 5
Safety information
risk assessment
- @ref: 21770
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21770
- description: Roseovarius sediminilitoris strain M-M10 16S ribosomal RNA gene, partial sequence
- accession: JQ739459
- length: 1391
- database: ena
- NCBI tax ID: 1173584
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Aliiroseovarius sediminilitoris DSM 29439 | GCA_900109955 | contig | ncbi | 1173584 |
66792 | Aliiroseovarius sediminilitoris strain DSM 29439 | 1173584.3 | wgs | patric | 1173584 |
66792 | Aliiroseovarius sediminilitoris DSM 29439 | 2687453744 | draft | img | 1173584 |
GC content
@ref | GC-content | method |
---|---|---|
30758 | 63 | |
21770 | 63.0 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 98 | no |
motile | no | 62.169 | no |
gram-positive | no | 98.563 | no |
anaerobic | no | 98.265 | yes |
halophile | yes | 68.401 | no |
spore-forming | no | 97.818 | no |
flagellated | no | 84.931 | no |
thermophile | no | 93.789 | yes |
glucose-util | yes | 72.191 | no |
aerobic | yes | 88.893 | no |
glucose-ferment | no | 91.582 | no |
External links
@ref: 21770
culture collection no.: DSM 29439, CCUG 62413, KCTC 23959
straininfo link
- @ref: 89139
- straininfo: 401555
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
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 |
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed | 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 | ||||
21770 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29439 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29439) | ||||
30758 | 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 | 27089 | 28776041 | ||
62829 | Curators of the CCUG | https://www.ccug.se/strain?id=62413 | Culture Collection University of Gothenburg (CCUG) (CCUG 62413) | ||||
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 | |||||
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 | ||||
89139 | 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-ID401555.1 |