Strain identifier
BacDive ID: 4188
Type strain:
Species: Hippea alviniae
Strain Designation: EP5-r
Strain history: <- A.-L. Reysenbach, Portland State Univ., USA; EP5-r <- Y. Liu {2007}
NCBI tax ID(s): 1279027 (species)
General
@ref: 17701
BacDive-ID: 4188
DSM-Number: 24586
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative, ovoid-shaped
description: Hippea alviniae EP5-r is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from hydrothermal vent deposit, 2520 m depth.
NCBI tax id
- NCBI tax id: 1279027
- Matching level: species
strain history
- @ref: 17701
- history: <- A.-L. Reysenbach, Portland State Univ., USA; EP5-r <- Y. Liu {2007}
doi: 10.13145/bacdive4188.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfurellales
- family: Desulfurellaceae
- genus: Hippea
- species: Hippea alviniae
- full scientific name: Hippea alviniae Flores et al. 2012
@ref: 17701
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfurellales
family: Desulfurellaceae
genus: Hippea
species: Hippea alviniae
full scientific name: Hippea alviniae Flores et al. 2012
strain designation: EP5-r
type strain: yes
Morphology
cell morphology
- @ref: 30302
- gram stain: negative
- cell length: 1.1 µm
- cell width: 0.45 µm
- cell shape: ovoid-shaped
- motility: no
Culture and growth conditions
culture medium
- @ref: 17701
- name: HIPPEA JASONIAE MEDIUM (DSMZ Medium 1360)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1360
- composition: Name: HIPPEA JASONIAE MEDIUM (DSMZ Medium 1360) Composition: NaCl 26.0435 g/l Sulfur 9.8912 g/l Trisodium citrate x 2 H2O 2.90801 g/l MgCl2 x 6 H2O 1.48368 g/l (NH4)2SO4 1.28586 g/l Na-acetate 1.2364 g/l Na2S x 9 H2O 0.49456 g/l Yeast extract 0.49456 g/l KCl 0.445104 g/l KH2PO4 0.276954 g/l MgSO4 x 7 H2O 0.24728 g/l CaCl2 x 2 H2O 0.0692384 g/l FeCl3 x 6 H2O 0.0197824 g/l Na2B4O7 x 10 H2O 0.00445104 g/l MnCl2 x 4 H2O 0.00178042 g/l Sodium resazurin 0.00049456 g/l ZnSO4 x 7 H2O 0.000217606 g/l Pyridoxine hydrochloride 9.8912e-05 g/l Nicotinic acid 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l CuCl2 x 2 H2O 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l VOSO4 x 2 H2O 2.96736e-05 g/l Na2MoO4 x 2 H2O 2.96736e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l CoSO4 x 7 H2O 9.8912e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
17701 | positive | growth | 65 | thermophilic |
30302 | positive | growth | 45-75 | thermophilic |
30302 | positive | optimum | 60 | thermophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30302 | positive | growth | 3.5-5.5 | acidophile |
30302 | positive | optimum | 4.75 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
17701 | anaerobe |
30302 | anaerobe |
halophily
- @ref: 30302
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 1-5 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30302 | 30089 | acetate | + | carbon source |
30302 | 17272 | propionate | + | carbon source |
30302 | 30031 | succinate | + | carbon source |
Isolation, sampling and environmental information
isolation
- @ref: 17701
- sample type: hydrothermal vent deposit, 2520 m depth
- geographic location: East Pacific Rise, 'A' vent
- country: International waters
- latitude: 9.775
- longitude: -104.28
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Hydrothermal vent |
#Condition | #Thermophilic (>45°C) |
Safety information
risk assessment
- @ref: 17701
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
30302 | Hippea sp. LR3-DR partial 16S rRNA gene, strain LR3-DR | FR754508 | 1482 | nuccore | 944332 |
17701 | Hippea alviniae EP5-r partial 16S rRNA gene | FR754500 | 1509 | ena | 944480 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Hippea alviniae EP5-r | GCA_000420385 | contig | ncbi | 944480 |
66792 | Hippea alviniae EP5-r | 944480.3 | wgs | patric | 944480 |
66792 | Hippea alviniae EP5-r, DSM 24586 | 2523231012 | draft | img | 944480 |
GC content
@ref | GC-content | method |
---|---|---|
17701 | 37.1 | thermal denaturation, midpoint method (Tm) |
30302 | 37.1 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 72.738 | yes |
flagellated | no | 93.421 | yes |
gram-positive | no | 99.588 | yes |
anaerobic | yes | 99.234 | yes |
halophile | no | 91.424 | no |
spore-forming | no | 96.553 | no |
glucose-util | no | 63.19 | no |
aerobic | no | 98.858 | yes |
thermophile | yes | 100 | yes |
glucose-ferment | no | 84.187 | no |
External links
@ref: 17701
culture collection no.: DSM 24586, OCM 986
straininfo link
- @ref: 73688
- straininfo: 405575
literature
- topic: Phylogeny
- Pubmed-ID: 21764980
- title: Hippea jasoniae sp. nov. and Hippea alviniae sp. nov., thermoacidophilic members of the class Deltaproteobacteria isolated from deep-sea hydrothermal vent deposits.
- authors: Flores GE, Hunter RC, Liu Y, Mets A, Schouten S, Reysenbach AL
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.033001-0
- year: 2011
- mesh: Acids/*metabolism, Base Composition, DNA, Bacterial/genetics, Deltaproteobacteria/*classification/genetics/*isolation & purification/metabolism, Geologic Sediments/*microbiology, Hot Temperature, Hydrothermal Vents/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
17701 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24586) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24586 | |||
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 | |||
30302 | 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 | 26643 | 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) | |||
73688 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID405575.1 | StrainInfo: A central database for resolving microbial strain identifiers |