Strain identifier
BacDive ID: 131175
Type strain:
Species: Yoonia maritima
Strain history: NRIC 0919 <-- KMM 9530.
NCBI tax ID(s): 1435347 (species)
General
@ref: 22467
BacDive-ID: 131175
DSM-Number: 101533
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Yoonia maritima DSM 101533 is a mesophilic, Gram-negative bacterium that was isolated from shallow sediment sample.
NCBI tax id
- NCBI tax id: 1435347
- Matching level: species
strain history
@ref | history |
---|---|
22467 | <- JCM <- N. Tanaka, NRIC; KMM 9530 |
67770 | NRIC 0919 <-- KMM 9530. |
doi: 10.13145/bacdive131175.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Yoonia
- species: Yoonia maritima
- full scientific name: Yoonia maritima (Tanaka et al. 2014) Wirth and Whitman 2018
synonyms
- @ref: 20215
- synonym: Loktanella maritima
@ref: 22467
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Yoonia
species: Yoonia maritima
full scientific name: Yoonia maritima (Tanaka et al. 2014) Wirth and Whitman 2018
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.986
colony morphology
- @ref: 22467
- incubation period: 1-2 days
Culture and growth conditions
culture medium
- @ref: 22467
- 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 |
---|---|---|---|---|
22467 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 25 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
observation
- @ref: 67770
- observation: quinones: Q-10
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
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 |
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 |
---|---|---|---|
22467 | catalase | + | 1.11.1.6 |
22467 | cytochrome-c oxidase | + | 1.9.3.1 |
68369 | 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 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
22467 | +/- | + | + | + | +/- | + | + | +/- | +/- | +/- | +/- | +/- | +/- | +/- | +/- | + | + | + | +/- | +/- |
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 | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
22467 | +/- | - | - | - | - | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
22467 | shallow sediment sample | Peter the Great Bay; Sea of Japan | Russia | RUS | Asia |
67770 | Shallow sediment from Peter the Great Bay | Sea of Japan | Russia | RUS |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Sediment
Safety information
risk assessment
- @ref: 22467
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22467
- description: Loktanella maritima gene for 16S ribosomal RNA, partial sequence
- accession: AB894236
- length: 1447
- database: ena
- NCBI tax ID: 1435347
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Yoonia maritima DSM 101533 | GCA_003003285 | scaffold | ncbi | 1435347 |
66792 | Loktanella maritima strain DSM 101533 | 1435347.4 | wgs | patric | 1435347 |
66792 | Yoonia maritima DSM 101533 | 2731639257 | draft | img | 1435347 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 84.762 | no |
gram-positive | no | 97.855 | no |
anaerobic | no | 99.099 | no |
aerobic | yes | 94.744 | no |
halophile | yes | 80.205 | no |
spore-forming | no | 95.425 | no |
glucose-util | yes | 79.168 | no |
thermophile | no | 99.198 | yes |
motile | no | 59.513 | no |
glucose-ferment | no | 88.208 | yes |
External links
@ref: 22467
culture collection no.: DSM 101533, JCM 19807, NRIC 0919, KMM 9530, CCTCC AB 2016287
straininfo link
- @ref: 89620
- straininfo: 401898
literature
- topic: Phylogeny
- Pubmed-ID: 24744019
- title: Loktanella maritima sp. nov. isolated from shallow marine sediments.
- authors: Tanaka N, Romanenko LA, Kurilenko VV, Svetashev VI, Kalinovskaya NI, Mikhailov VV
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.061747-0
- year: 2014
- mesh: DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Oceans and Seas, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Ubiquinone/chemistry
- topic2: Genetics
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | |
22467 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-101533 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101533) | |
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/ | ||
68369 | Automatically annotated from API 20NE | |||
68382 | Automatically annotated from API zym | |||
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 | |
89620 | 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-ID401898.1 |