Strain identifier

BacDive ID: 4188

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

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

@refgrowthtypetemperaturerange
17701positivegrowth65thermophilic
30302positivegrowth45-75thermophilic
30302positiveoptimum60thermophilic

culture pH

@refabilitytypepHPH range
30302positivegrowth3.5-5.5acidophile
30302positiveoptimum4.75

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
17701anaerobe
30302anaerobe

halophily

  • @ref: 30302
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 1-5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3030230089acetate+carbon source
3030217272propionate+carbon source
3030230031succinate+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

Cat1Cat2Cat3
#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

@refdescriptionaccessionlengthdatabaseNCBI tax ID
30302Hippea sp. LR3-DR partial 16S rRNA gene, strain LR3-DRFR7545081482nuccore944332
17701Hippea alviniae EP5-r partial 16S rRNA geneFR7545001509ena944480

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hippea alviniae EP5-rGCA_000420385contigncbi944480
66792Hippea alviniae EP5-r944480.3wgspatric944480
66792Hippea alviniae EP5-r, DSM 245862523231012draftimg944480

GC content

@refGC-contentmethod
1770137.1thermal denaturation, midpoint method (Tm)
3030237.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes72.738yes
flagellatedno93.421yes
gram-positiveno99.588yes
anaerobicyes99.234yes
halophileno91.424no
spore-formingno96.553no
glucose-utilno63.19no
aerobicno98.858yes
thermophileyes100yes
glucose-fermentno84.187no

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

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17701Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24586)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24586
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30302Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2664328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
73688Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405575.1StrainInfo: A central database for resolving microbial strain identifiers