Strain identifier
BacDive ID: 6115
Type strain: 
Species: Sulfurimonas paralvinellae
Strain Designation: GO25
Strain history: K. Takai GO25.
NCBI tax ID(s): 317658 (species)
version 8.1 (current version)
General
@ref: 6826
BacDive-ID: 6115
DSM-Number: 17229
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Sulfurimonas paralvinellae GO25 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from nests of tube-dwelling polychaetes adjacent to deep-sea hydrothermal vents.
NCBI tax id
- NCBI tax id: 317658
- Matching level: species
strain history
| @ref | history |
|---|---|
| 6826 | <- K. Takai, Subground Animalcule Retrieval (SUGAR) Program, Japan Agency for Marine-Earth Science and Technology (JAMSTEC); GO25 |
| 67770 | K. Takai GO25. |
doi: 10.13145/bacdive6115.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Epsilonproteobacteria
- order: Campylobacterales
- family: Helicobacteraceae
- genus: Sulfurimonas
- species: Sulfurimonas paralvinellae
- full scientific name: Sulfurimonas paralvinellae Takai et al. 2006
@ref: 6826
domain: Bacteria
phylum: Proteobacteria
class: Epsilonproteobacteria
order: Campylobacterales
family: Helicobacteraceae
genus: Sulfurimonas
species: Sulfurimonas paralvinellae
full scientific name: Sulfurimonas paralvinellae Takai et al. 2006
strain designation: GO25
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 31778 | negative | 1.5-2.5 µm | 0.6-0.8 µm | rod-shaped | yes | |
| 69480 | yes | 92.123 | ||||
| 69480 | negative | 100 |
pigmentation
- @ref: 31778
- production: yes
Culture and growth conditions
culture medium
- @ref: 6826
- name: SULFURIMONAS PARALVINELLA MEDIUM (DSMZ Medium 1053)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1053
- composition: Name: SULFURIMONAS PARALVINELLA MEDIUM (DSMZ Medium 1053) Composition: Sulfur 9.8912 g/l MgCl2 x 6 H2O 2.96736 g/l NaNO3 0.98912 g/l Na2S2O3 x 5 H2O 0.98912 g/l NaHCO3 0.98912 g/l CaCl2 0.791296 g/l KCl 0.326409 g/l NH4Cl 0.24728 g/l K2HPO4 0.0890208 g/l KH2PO4 0.0692384 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l Fe2(SO4)3 x H2O 0.0098912 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l ZnSO4 x 7 H2O 0.00178042 g/l CoSO4 x 7 H2O 0.00178042 g/l FeSO4 x 7 H2O 0.00098912 g/l CaCl2 x 2 H2O 0.00098912 g/l Sodium resazurin 0.00049456 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l CuSO4 x 5 H2O 9.8912e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 6826 | positive | growth | 30 | mesophilic |
| 31778 | positive | growth | 04-35 | |
| 31778 | positive | optimum | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 31778 | positive | growth | 5.4-8.6 | alkaliphile |
| 31778 | positive | optimum | 6.1 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 6826 | anaerobe |
| 31778 | facultative anaerobe |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 31778 | no | |
| 69481 | no | 100 |
| 69480 | no | 99.991 |
observation
- @ref: 31778
- observation: aggregates in chains
metabolite utilization
- @ref: 31778
- Chebi-ID: 17632
- metabolite: nitrate
- utilization activity: +
- kind of utilization tested: reduction
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | host species |
|---|---|---|---|---|---|---|
| 6826 | nests of tube-dwelling polychaetes adjacent to deep-sea hydrothermal vents | Pacific Ocean, Mid-Okinawa Trough, Iheya North field | Japan | JPN | Asia | |
| 67770 | Nest of hydrothermal vent polychaetes (Paralvinella sp.) at the Iheya North field in the Mid-Okinawa Trough | Paralvinella sp. |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | |
| #Host | #Invertebrates (Other) | #Annelida |
| #Condition | #Thermophilic (>45°C) |
Safety information
risk assessment
- @ref: 6826
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6826
- description: Sulfurimonas paralvinellae rrn gene for small subunit rRNA, partial sequence
- accession: AB252048
- length: 1445
- database: ena
- NCBI tax ID: 317658
Genome sequences
- @ref: 66792
- description: Sulfurimonas paralvinellae GO25
- accession: GCA_014905135
- assembly level: complete
- database: ncbi
- NCBI tax ID: 317658
GC content
| @ref | GC-content | method |
|---|---|---|
| 31778 | 37.6 | |
| 67770 | 37.6 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 85.327 | no |
| flagellated | no | 58.518 | no |
| gram-positive | no | 98.559 | no |
| anaerobic | no | 57.076 | no |
| aerobic | no | 95.936 | yes |
| halophile | no | 82.283 | no |
| spore-forming | no | 94.653 | yes |
| glucose-util | no | 63.606 | no |
| thermophile | no | 65.909 | yes |
| glucose-ferment | no | 91.948 | no |
External links
@ref: 6826
culture collection no.: DSM 17229, JCM 13212
straininfo link
- @ref: 75602
- straininfo: 297342
literature
- topic: Phylogeny
- Pubmed-ID: 16901999
- title: Sulfurimonas paralvinellae sp. nov., a novel mesophilic, hydrogen- and sulfur-oxidizing chemolithoautotroph within the Epsilonproteobacteria isolated from a deep-sea hydrothermal vent polychaete nest, reclassification of Thiomicrospira denitrificans as Sulfurimonas denitrificans comb. nov. and emended description of the genus Sulfurimonas.
- authors: Takai K, Suzuki M, Nakagawa S, Miyazaki M, Suzuki Y, Inagaki F, Horikoshi K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64255-0
- year: 2006
- mesh: Anaerobiosis, Animals, Bacterial Typing Techniques/methods, Base Composition, Culture Media, DNA, Bacterial/chemistry/genetics, Epsilonproteobacteria/*classification/physiology, Hydrogen/metabolism, Hydrogen-Ion Concentration, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Phylogeny, Piscirickettsiaceae/*classification/genetics, *Polychaeta, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Homology, Nucleic Acid, Species Specificity, Sulfur/metabolism, Temperature, *Water Microbiology
- topic2: Cultivation
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 6826 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17229) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17229 | |||
| 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 | |||
| 31778 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28051 | 28776041 | |
| 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) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 75602 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID297342.1 | StrainInfo: A central database for resolving microbial strain identifiers |