Strain identifier
BacDive ID: 11276
Type strain: 
Species: Marinospirillum minutulum
Strain history: CIP <- 1990, NCMB <- 1966, Y. Terasaki, Spirillum halophilum <- N. Watanabe: strain VPI 40
NCBI tax ID(s): 1122212 (strain), 64974 (species)
version 9.3 (current version)
General
@ref: 2573
BacDive-ID: 11276
DSM-Number: 6287
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Marinospirillum minutulum DSM 6287 is a mesophilic, Gram-negative bacterium that was isolated from Other, Putrid infusion, marine shellfish.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1122212 | strain |
| 64974 | species |
strain history
| @ref | history |
|---|---|
| 2573 | <- NCIMB <- Y. Terasaki <- N. Watanabe |
| 120963 | CIP <- 1990, NCMB <- 1966, Y. Terasaki, Spirillum halophilum <- N. Watanabe: strain VPI 40 |
doi: 10.13145/bacdive11276.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Oceanospirillaceae
- genus: Marinospirillum
- species: Marinospirillum minutulum
- full scientific name: Marinospirillum minutulum (Watanabe 1959) Satomi et al. 1998
synonyms
@ref synonym 20215 Spirillum minutulum 20215 Oceanospirillum minutulum
@ref: 2573
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Oceanospirillaceae
genus: Marinospirillum
species: Marinospirillum minutulum
full scientific name: Marinospirillum minutulum (Watanabe 1959) Satomi et al. 1998
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125439 | negative | 99.8 |
| 125438 | negative | 97.75 |
multimedia
| @ref | multimedia content | caption | intellectual property rights |
|---|---|---|---|
| 66793 | EM_DSM_6287_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_6287_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_6287_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_6287_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_6287_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 2573 | 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 |
| 33073 | Marine agar (MA) | yes | Distilled water make up to (1000.000 ml);Marine agar (55.100 g) | |
| 120963 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 2573 | positive | growth | 30 |
| 33073 | positive | growth | 25 |
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 90.5
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125439 | no | 99.9 |
| 125438 | no | 94.738 |
Isolation, sampling and environmental information
isolation
- @ref: 120963
- sample type: Other, Putrid infusion, marine shellfish
- isolation date: 1959
taxonmaps
- @ref: 69479
- File name: preview.99_2266.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15849;96_1225;97_1452;98_1770;99_2266&stattab=map
- Last taxonomy: Marinospirillum minutulum
- 16S sequence: AB006769
- Sequence Identity:
- Total samples: 2707
- soil counts: 568
- aquatic counts: 569
- animal counts: 1501
- plant counts: 69
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 2573 | 1 | Risk group (German classification) |
| 120963 | 1 | Risk group (French classification) |
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Marinospirillum minutulum gene for 16S rRNA, partial sequence, strain: ATCC 19193 | AB006769 | 1456 | nuccore | 64974 |
| 20218 | Marinospirillum minutulum gene for 16S rRNA, partial sequence, strain: NBRC 15450 | AB680862 | 1461 | nuccore | 64974 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Marinospirillum minutulum DSM 6287 | GCA_000422325 | scaffold | ncbi | 1122212 |
| 66792 | Marinospirillum minutulum DSM 6287 | 1122212.3 | wgs | patric | 1122212 |
| 66792 | Marinospirillum minutulum DSM 6287 | 2524614573 | draft | img | 1122212 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.75 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 88.806 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 67.926 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 94.738 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 94.153 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 80.027 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.9 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 80.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.8 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 90.5 |
External links
@ref: 2573
culture collection no.: DSM 6287, ATCC 19193, NCIMB 1347, VPI 40, CIP 103376, LMG 5334
straininfo link
- @ref: 80509
- straininfo: 92361
literature
- topic: Phylogeny
- Pubmed-ID: 9828435
- title: Marinospirillum gen. nov., with descriptions of Marinospirillum megaterium sp. nov., isolated from kusaya gravy, and transfer of Oceanospirillum minutulum to Marinospirillum minutulum comb. nov.
- authors: Satomi M, Kimura B, Hayashi M, Shouzen Y, Okuzumi M, Fujii T
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-48-4-1341
- year: 1998
- mesh: DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Food Microbiology, Gram-Negative Bacteria/*classification/*isolation & purification/physiology/ultrastructure, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Terminology as Topic
- topic2: Biotechnology
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 2573 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6287) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6287 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 33073 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15166 | ||||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 35: 676-683 2017 | 28604660 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 80509 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID92361.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
| 120963 | Curators of the CIP | Collection of Institut Pasteur (CIP 103376) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103376 | |||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |||
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |