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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
general
Transcriptome profiling of a toxic dinoflagellate reveals a gene-rich protist and a potential impact on gene expression due to bacterial presence
PLoS ONE, Volume 5, No. 3, Article e9688, Year 2010
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Description
Background: Dinoflagellates are unicellular, often photosynthetic protists that play a major role in the dynamics of the Earth's oceans and climate. Sequencing of dinoflagellate nuclear DNA is thwarted by their massive genome sizes that are often several times that in humans. However, modern transcriptomic methods offer promising approaches to tackle this challenging system. Here, we used massively parallel signature sequencing (MPSS) to understand global transcriptional regulation patterns in Alexandrium tamarense cultures that were grown under four different conditions. Methodology/Principal Findings: We generated more than 40,000 unique short expression signatures gathered from the four conditions. Of these, about 11,000 signatures did not display detectable differential expression patterns. At a p-value <, 1E-10, 1,124 signatures were differentially expressed in the three treatments, xenic, nitrogen-limited, and phosphoruslimited, compared to the nutrient-replete control, with the presence of bacteria explaining the largest set of these differentially expressed signatures. Conclusions/Significance: Among microbial eukaryotes, dinoflagellates contain the largest number of genes in their nuclear genomes. These genes occur in complex families, many of which have evolved via recent gene duplication events. Our expression data suggest that about 73% of the Alexandrium transcriptome shows no significant change in gene expression under the experimental conditions used here and may comprise a "core" component for this species. We report a fundamental shift in expression patterns in response to the presence of bacteria, highlighting the impact of biotic interaction on gene expression in dinoflagellates. © 2010 Moustafa et al.
Authors & Co-Authors
Moustafa, Ahmed M.
United States, New Brunswick
Department of Marine and Coastal Sciences
Anderson, Donald M.
United States, Woods Hole
Woods Hole Oceanographic Institution
Bhattacharya, Debashish
United States, New Brunswick
Department of Marine and Coastal Sciences
Statistics
Citations: 143
Authors: 3
Affiliations: 4
Identifiers
Doi:
10.1371/journal.pone.0009688
ISSN:
19326203
Research Areas
Cancer
Environmental
Genetics And Genomics