Strain identifier
BacDive ID: 132576
Type strain: 
Species: Sulfurovum riftiae
Strain Designation: 1812E
Strain history: C. Vetriani; Rutgers Univ., USA; 1812E.
NCBI tax ID(s): 1630136 (species)
version 8.1 (current version)
General
@ref: 24365
BacDive-ID: 132576
DSM-Number: 101780
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-negative, motile, rod-shaped
description: Sulfurovum riftiae 1812E is an anaerobe, Gram-negative, motile bacterium that was isolated from tube of the deep-sea hydrothermal vent polychaete Riftia pachyptila.
NCBI tax id
- NCBI tax id: 1630136
- Matching level: species
strain history
| @ref | history |
|---|---|
| 24365 | <- C. Vetriani, Rutgers, State Univ. New Jersey, New Brunswick, USA; 1812E <- D. Giovannelli {2013} |
| 67770 | C. Vetriani; Rutgers Univ., USA; 1812E. |
doi: 10.13145/bacdive132576.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Epsilonproteobacteria
- order: Campylobacterales
- family: Helicobacteraceae
- genus: Sulfurovum
- species: Sulfurovum riftiae
- full scientific name: Sulfurovum riftiae Giovannelli et al. 2016
@ref: 24365
domain: Bacteria
phylum: Proteobacteria
class: Epsilonproteobacteria
order: Campylobacterales
family: Helicobacteraceae
genus: Sulfurovum
species: Sulfurovum riftiae
full scientific name: Sulfurovum riftiae Giovannelli et al. 2016
strain designation: 1812E
type strain: yes
Morphology
cell morphology
- @ref: 43627
- gram stain: negative
- cell length: 1.05 µm
- cell width: 0.4 µm
- cell shape: rod-shaped
- motility: yes
- flagellum arrangement: polar
Culture and growth conditions
culture medium
- @ref: 24365
- name: SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1011
- composition: Name: SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011; with strain-specific modifications) Composition: MgCl2 x 6 H2O 4.13452 g/l KNO3 1.97824 g/l NaHCO3 1.48368 g/l Na2S2O3 x 5 H2O 1.48368 g/l KCl 0.326409 g/l NH4Cl 0.24728 g/l K2HPO4 0.138477 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.0098912 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l H3BO3 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 |
|---|---|---|---|---|
| 43627 | positive | growth | 25-40 | |
| 43627 | positive | optimum | 35 | mesophilic |
| 24365 | positive | growth | 35 | mesophilic |
| 67770 | positive | growth | 35 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 43627 | positive | growth | 5-8 |
| 43627 | positive | optimum | 6 |
Physiology and metabolism
oxygen tolerance
- @ref: 43627
- oxygen tolerance: anaerobe
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 43627 | NaCl | positive | growth | 1.5-4 %(w/v) |
| 43627 | NaCl | positive | optimum | 3 %(w/v) |
observation
- @ref: 67770
- observation: quinones: MK-6
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 43627 | 17632 | nitrate | + | electron acceptor |
| 43627 | 33403 | elemental sulfur | + | electron donor |
| 43627 | 16094 | thiosulfate | + | electron donor |
enzymes
- @ref: 43627
- value: catalase
- activity: -
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | latitude | longitude |
|---|---|---|---|---|---|---|
| 24365 | tube of the deep-sea hydrothermal vent polychaete Riftia pachyptila | Riftia pachyptila | East Pacific Rise | International waters | 9.8167 | -104.283 |
| 43627 | the tube of the deep-sea hydrothermal vent tubeworm Riftia pachyptila | East Pacific Rise | 9.816 | -104.283 | ||
| 67770 | Tube of the deep-sea hydrothermal vent tubeworm Riftia pachyptila | Riftia pachyptila | East Pacific Rise | Pacific Ocean |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Condition | #Thermophilic (>45°C) | |
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Environmental | #Aquatic | #Marine |
| #Host | #Invertebrates (Other) | #Annelida |
taxonmaps
- @ref: 69479
- File name: preview.99_4505.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_132;96_398;97_450;98_517;99_4505&stattab=map
- Last taxonomy: Sulfurovum riftiae
- 16S sequence: KP896689
- Sequence Identity:
- Total samples: 114
- soil counts: 3
- aquatic counts: 111
Safety information
risk assessment
- @ref: 24365
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24365
- description: Sulfurovum riftiae strain 1812E 16S ribosomal RNA gene, partial sequence
- accession: KP896689
- length: 1378
- database: ena
- NCBI tax ID: 1630136
Genome sequences
- @ref: 67770
- description: Sulfurovum riftiae 1812E
- accession: GCA_001595645
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1630136
GC content
- @ref: 24365
- GC-content: 47.4
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 87.327 | yes |
| gram-positive | no | 97.859 | yes |
| anaerobic | no | 52.311 | yes |
| aerobic | no | 90.015 | yes |
| halophile | no | 70.233 | no |
| spore-forming | no | 96.495 | no |
| glucose-util | no | 61.275 | no |
| motile | no | 79.74 | yes |
| thermophile | no | 82.58 | no |
| glucose-ferment | no | 89.812 | no |
External links
@ref: 24365
culture collection no.: DSM 101780, JCM 30810
straininfo link
- @ref: 90893
- straininfo: 401747
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 27116914 | Sulfurovum riftiae sp. nov., a mesophilic, thiosulfate-oxidizing, nitrate-reducing chemolithoautotrophic epsilonproteobacterium isolated from the tube of the deep-sea hydrothermal vent polychaete Riftia pachyptila. | Giovannelli D, Chung M, Staley J, Starovoytov V, Le Bris N, Vetriani C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001106 | 2016 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Epsilonproteobacteria/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Hydrothermal Vents/*microbiology, Nitrates/metabolism, Oxidation-Reduction, Phospholipids/chemistry, *Phylogeny, Polychaeta/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Thiosulfates/metabolism, Vitamin K 2/analogs & derivatives/chemistry | Metabolism |
| Phylogeny | 33734956 | Sulfurovum indicum sp. nov., a novel hydrogen- and sulfur-oxidizing chemolithoautotroph isolated from a deep-sea hydrothermal plume in the Northwestern Indian Ocean. | Xie S, Wang S, Li D, Shao Z, Lai Q, Wang Y, Wei M, Han X, Jiang L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004748 | 2021 |
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 24365 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-101780 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101780) | |||
| 43627 | Donato Giovannelli, Matthew Chung, Justin Staley, Valentin Starovoytov, Nadine Le Bris, Costantino Vetriani | Sulfurovum riftiae sp. nov., a mesophilic, thiosulfate-oxidizing, nitrate-reducing chemolithoautotrophic epsilonproteobacterium isolated from the tube of the deep-sea hydrothermal vent polychaete Riftia pachyptila | 10.1099/ijsem.0.001106 | IJSEM 66: 2697-2701 2016 | 27116914 | |
| 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/ | |||
| 90893 | 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-ID401747.1 |