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Study

Study Name: Marine eukaryotic communities from various locations to study complex ecological interactions

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Biosamples

Organisms

Biosamples: 1 Seq. Projects: 1
STUDY INFORMATION
GOLD Study ID Gs0111469
Study Name Marine eukaryotic communities from various locations to study complex ecological interactions
Other Names Life on the dark side: Complex interactions and novel lifestyle strategies in microbial eukaryotes
NCBI Umbrella Bioproject Name
NCBI Umbrella Bioproject ID
Legacy ER Study ID 75181
Legacy GOLD ID
Added By Jyothi Mallajosyula on 2014-07-07
Last Modified By Michelle Isbandi on 2014-10-20
PI Tanja Woyke
Description We propose a collaboration involving screening and single cell genome sequencing of unicellular eukaryotes and physically associated microbes that have been sorted from aquatic samples using an InFlux cytometer and dried frozen. The project is a Technology Development Pilot program pairing sequencing of single cell nuclear genomes with metatranscriptomes providing advantages for successful downstream analysis of assembled contigs, allowing us to reconstruct metabolic network interactions on a sample-by-sample basis. This will allow us to systematically apply single cell genomics to the issue of microbial eukaryotic interactions in nature, as a novel strategy for eukaryotes from natural aquatic samples. We can begin to address a major knowledge gap in marine carbon-cycle science: how organism-organism interactions play a role in mediating carbon movement and sequestration. This project focuses on uncultured, divergent eukaryotes involved in nutrient regeneration and degradation of recalcitrant organic matter (potential for novel enzyme discovery), organisms that regulate other microbial populations via parasitism and predation, organisms that can switch trophic strategies (e.g. between photosynthesis and predation), and those with endosymbionts that present additional novel metabolisms. The results of this TDP have the potential to define the role of microbial eukaryotes in shaping nutrient flow in aquatic systems, and lay the groundwork for significant future advances by the broader scientific community. Ecological interactions determine community composition and therefore the flow of carbon and nutrients through ecosystems. Like some prokaryotic taxa, specific microbial eukaryotic taxa must act as keystone species determining community assembly through primary production, grazing, symbiosis, parasitism and recycling of biological material. Here, the focus is on complex interactions among microbial eukaryotes and their interactions with other domains by investigating five model trophic interactions: Heterotrophic predation, usually by phagocytosis; Mixotrophic predation: where the microbe can alternate between trophic mechanisms predation, which can result in release of CO2, or photosynthesis, resulting in capture of CO2; Chemoheterotrophy: extra-cellular digestion or recycling of organic matter, saprotrophy; Symbioses: defined here as mutualistic relationships where one species lives on, or within, another species; Parasitism: one organism existing in association with another to the detriment of one of the partners. In each case, there are uncultured representative groups that seem to be widespread in nature, which we plan to study. We routinely sort cells at sea and have successfully analyzed multi-cell sorts in collaboration with JGI, where most processing will be done.
Relevance
Study Information Link
Study Information Visibility Public
Metagenomic Study Yes
Publication
Is GEBA No
Is HMP No
ECOSYSTEM CLASSIFICATION
Ecosystem Environmental
Ecosystem Category Aquatic
Ecosystem Type Marine
Ecosystem Subtype Unclassified
Specific Ecosystem Unclassified
STUDY COMPOSITION
Number of Biosamples 1
Number of Organisms 0
Number of Seq Projects 1
Number of Analysis Projects 1
Number of Related Studies 0

 

 

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