Strain identifier
BacDive ID: 130156
Type strain:
Species: Marinobacter similis
Strain Designation: A3d10
Strain history: CIP <- 2013, E. Ivanova, Swinburne Univ., Hawthorn, Victoria, Australia: strain A3d10 <- H. Webb
NCBI tax ID(s): 1420916 (species)
General
@ref: 22045
BacDive-ID: 130156
DSM-Number: 27079
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Marinobacter similis A3d10 is a mesophilic, motile bacterium that was isolated from sea water collected one metre below the water surface.
NCBI tax id
- NCBI tax id: 1420916
- Matching level: species
strain history
@ref | history |
---|---|
22045 | <- E. P. Ivanova, Swinburne Univ. Technol., IRIS, Hawthorn, Australia; A3d10 |
67770 | E. P. Ivanova A3d10. |
122617 | CIP <- 2013, E. Ivanova, Swinburne Univ., Hawthorn, Victoria, Australia: strain A3d10 <- H. Webb |
doi: 10.13145/bacdive130156.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Alteromonadales
- family: Alteromonadaceae
- genus: Marinobacter
- species: Marinobacter similis
- full scientific name: Marinobacter similis Ng et al. 2015
@ref: 22045
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Alteromonadaceae
genus: Marinobacter
species: Marinobacter similis
full scientific name: Marinobacter similis Ng et al. 2015
strain designation: A3d10
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 93.356 | ||
69480 | 99.957 | negative | ||
122617 | yes | negative | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
22045 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | 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 |
122617 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
22045 | positive | growth | 25 | mesophilic |
67770 | positive | growth | 25 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 100 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | isolation date |
---|---|---|---|---|---|---|---|---|
22045 | sea water collected one metre below the water surface | Pacific Ocean, Tasman Sea, Port Philip Bay, St Kilda Beach (37°51'50''S 144°58'55''E) | Australia | AUS | Australia and Oceania | -37.8639 | 144.982 | |
67770 | Seawater from the 1st meter below the water surface from St. Kilda Beach | Port Philip Bay, Victoria | Australia | AUS | Australia and Oceania | |||
122617 | Environment, Sea water | Port Phillip bay, Melbourne | Australia | AUS | Australia and Oceania | 2009-01-02 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_34863.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_89;96_1317;97_1564;98_4746;99_34863&stattab=map
- Last taxonomy: Marinobacter
- 16S sequence: KJ547704
- Sequence Identity:
- Total samples: 227
- soil counts: 5
- aquatic counts: 218
- animal counts: 2
- plant counts: 2
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
22045 | 1 | Risk group (German classification) |
122617 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 22045
- description: Marinobacter similis strain A3d10 16S ribosomal RNA gene, partial sequence
- accession: KJ547704
- length: 1532
- database: ena
- NCBI tax ID: 1420916
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Marinobacter similis A3d10 | GCA_000830985 | complete | ncbi | 1420916 |
66792 | Marinobacter similis A3d10 | 1420916.4 | complete | patric | 1420916 |
66792 | Marinobacter similis A3d10 | 2667527567 | complete | img | 1420916 |
GC content
- @ref: 22045
- GC-content: 57.6
- method: sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 92.429 | no |
flagellated | yes | 88.84 | no |
gram-positive | no | 98.679 | no |
anaerobic | no | 98.044 | no |
aerobic | yes | 92.031 | no |
halophile | yes | 93.866 | no |
spore-forming | no | 97.126 | no |
glucose-util | yes | 53.654 | no |
thermophile | no | 98.323 | yes |
glucose-ferment | no | 87.637 | no |
External links
@ref: 22045
culture collection no.: DSM 27079, CIP 110589, JCM 19398, KMM 7501
straininfo link
- @ref: 88709
- straininfo: 402002
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Genetics | 24855296 | Draft Genome Sequences of Marinobacter similis A3d10T and Marinobacter salarius R9SW1T. | Ivanova EP, Ng HJ, Webb HK, Feng G, Oshima K, Hattori M, Ohkuma M, Sergeev AF, Mikhailov VV, Crawford RJ, Sawabe T | Genome Announc | 10.1128/genomeA.00442-14 | 2014 | ||
Phylogeny | 25198502 | Marinobacter salarius sp. nov. and Marinobacter similis sp. nov., isolated from sea water. | Ng HJ, Lopez-Perez M, Webb HK, Gomez D, Sawabe T, Ryan J, Vyssotski M, Bizet C, Malherbe F, Mikhailov VV, Crawford RJ, Ivanova EP | PLoS One | 10.1371/journal.pone.0106514 | 2014 | DNA, Bacterial/genetics, *Marine Biology, Marinobacter/*classification/isolation & purification, Nucleic Acid Hybridization, Phylogeny, Seawater/*microbiology, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization | Enzymology |
Phylogeny | 27902222 | Marinobacter salinus sp. nov., a moderately halophilic bacterium isolated from a tidal flat environment. | Rani S, Koh HW, Kim H, Rhee SK, Park SJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001587 | 2017 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Marinobacter/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry | Transcriptome |
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 | |
22045 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27079 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27079) | |
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/ | ||
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 | |
88709 | 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-ID402002.1 | |
122617 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110589 | Collection of Institut Pasteur (CIP 110589) |