Dimensions: The Role of Viruses in Structuring Biodiversity in Methanotrophic Marine Ecosystems
Description: Marine methanotrophic ecosystems are responsible for consuming around 75 Tg of methane annually, preventing this potent greenhouse gas from entering the atmosphere. These microbial ecosystems thus play a vital role in the global climate system. The nature of these communities depends on the presence or absence of oxygen: methanotrophy is a bacterial lifestyle in aerobic shallow sediments, but in deeper anaerobic sediments it is the exclusive province of archaea, in syntrophy with sulfate-reducing bacteria. It is known which phyla are most commonly found in methanotrophic environments. However, because of these environments' physical inaccessibility and because nearly all microbes from these systems have resisted cultivation, understanding of these communities lags far behind their importance. The cultivation-resistance of microbial hosts from these systems has additionally prevented the use of classical methods to study the viral community. Thus, to date science is largely unable to fill in the broad outlines of marine methanotrophic biodiversity, to fully describe the microbial communities or determine what shapes them.
This project seeks to define the importance of viruses in structuring functional, genetic, and taxonomic diversity in methanotrophic marine ecosystems. The underlying assertion is that viruses structure the diversity of archaeal and bacterial communities in these ecosystems by causing both mortality and horizontal gene transfer. To establish viral contributions to biodiversity of aerobic and anaerobic marine methanotrophic ecosystems, this project combines biogeochemical, genomic, and metagenomic approaches, in both field and laboratory settings.
Integration
The project first seeks to assess viral activity in situ by extending established stable isotope probing techniques to quantify rates of viral production at sea floor methane seeps. The same techniques will be used to track the flow of carbon from methane to microbes to viruses and to isolate genetic material from just those organisms that actively cycle methane-derived carbon, enabling the production of microbial and viral metagenomes that are anchored in ecosystem function. Comparisons among these metagenomes will reveal any functional sequences in transit between organisms, providing the basis for an evaluation of the relationships between functional and genetic diversity. At the same time, single-cell whole-genome amplification will pinpoint individual cells for comparison with the microbial and viral assemblages, permitting assessment of the relationships between taxonomic and genetic diversity. Last, the comparison of genomic and metagenomic data both within and across distinctive marine methanotrophic ecosystems will enable analysis of the relationship between functional and taxonomic diversity.
Broader impacts
The project will offer training to postdoctoral researchers and graduate and undergraduate students. A field studies course will bring ~12 undergraduates on a research expedition and provide them a rich educational experience, truly integrating teaching and research. To facilitate translation of this research to the public sphere, a workshop on science communication will be developed and hosted, led by a veteran science journalist. The PI will continue to lead outreach efforts by example, serving as a resource to journalists, federal agencies, and members of Congress.
Funder: National Science Foundation
Amount: $924,100
Funding type: grant
Funder scheme: Standard Grant
Start date: 2011-01-01
End date: 2016-12-31
Investigator: David Valentine (lead)
Institutions: University of California, Santa Barbara, University of California-Santa Barbara
Subfield: Virology
Field: Immunology and Microbiology
Domain: Life Sciences
Funded outputs count: 18
Funder award ID: 1046144
OpenAlex ID: G1676892829