Created October 26, 2017
Modified September 27, 2018
State Preliminary and in progress
Brief Description

Single Amplified Virus Genome sequence accessions at NCBI

Acquisition Description

Sampling and Analytical Methodology:  

Deep-sea hydrothermal fluid samples were collected from the IODP Hole U1362B CORK observatory using a custom syringe sampler fired in the ‘shimmering’ effluent of a free-flow chimney connected to the ball valve of the CORK well-head. Upon recovery, fluids for this project were fixed with a glycerol Tris-EDTA buffer for subsequent single virus sorting and genomic analysis. Single virus-like particles were sorted separately by fluorescence activated sorting. DNA was amplified by Multiple Displacement Amplification.

Processing Description

BCO-DMO Data Manager Processing Notes:
* added a conventional header with dataset name, PI name, version date
* modified parameter names to conform with BCO-DMO naming conventions



Dataset Maintainers

Joaquin MartinezBigelow Laboratory for Ocean Sciences
Amber YorkBigelow Laboratory for Ocean Sciences

BCO-DMO Project Info

Project Title Viral genetic richness and functions that shape the microbial community at the Juan de Fuca Ridge
Acronym Juan de Fuca Viruses
Created August 15, 2017
Modified October 26, 2017
Project Description

Project abstract from C-DEBI:
Deep-sea subsurface habitats support novel and abundant microbial life. Recently, several studies have explored the phylogenetic diversity of microorganisms, mostly bacteria and archaea, in those environments. Viruses are key components of microbial assemblages, hence, the need to investigate them to better understand the deep biosphere’s ecology. In this study, we performed genomic analysis of 27 targeted flow cytometry-sorted viruses and 3 microbial cells from a one-milliliter hydrothermal fluid sample collected from IODP Hole U1362B CORK observatory at the Juan de Fuca Ridge (JFR) eastern flank. Preliminary results revealed a diverse viral community, as no two sorted viruses were identical to each other. The majority of predicted genes within the partially-sequenced viral genomes had no homology in databases. Phylogenetic analysis of the identified viral genes indicated that the viruses were most similar to large inducible lysogenic myoviruses. Additionally, the discovery of a cell from benthic group E (Euryarchaeota), a key member of the microbial community, containing a prophage in its genome supports the hypothesis that lysogeny is likely more pervasive than lytic infections in the deep biosphere. However, these results might reflect inherited flow cytometry and nucleic acids multiple displacement amplification biases toward large dsDNA viruses (e.g. myoviruses). On the other hand this approach allows investigating larger viruses typically removed by filtration in traditional metagenomics studies, and thus aids in providing a more complete picture of viral assemblages. This exploratory proposal is in line with two of the four C-DEBI research themes: Extent of Life, and Evolution and Survival.

This project was funded by a C-DEBI Research Grant.

Data Project Maintainers
Joaquin MartinezBigelow Laboratory for Ocean SciencesPrincipal Investigator