Journal
PLOS ONE
Volume 7, Issue 6, Pages -Publisher
PUBLIC LIBRARY SCIENCE
DOI: 10.1371/journal.pone.0039648
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Funding
- program BIOSOPE cruise
- Centre National de la Recherche Scientifique
- program PICOFUNPAC
- Agence Nationale de la Recherche, Biodiversite [06-BDIV-013]
- program PHYTOMETAGENE
- Japan Science and Technology
- program METAPICO
- Genoscope
- program Micro B3
- European Union [287589]
- program FONDAP COPAS
- Comision Nacional de Investigacion Cientifica y Tecnologica, Gobierno de Chile
- Ghent University
- Interuniversity Attraction Poles Programme [IUAP P6/25]
- Belgian State, Science Policy Office (BioMaGNet)
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Among small photosynthetic eukaryotes that play a key role in oceanic food webs, picoplanktonic Mamiellophyceae such as Bathycoccus, Micromonas, and Ostreococcus are particularly important in coastal regions. By using a combination of cell sorting by flow cytometry, whole genome amplification (WGA), and 454 pyrosequencing, we obtained metagenomic data for two natural picophytoplankton populations from the coastal upwelling waters off central Chile. About 60% of the reads of each sample could be mapped to the genome of Bathycoccus strain from the Mediterranean Sea (RCC1105), representing a total of 9 Mbp (sample T142) and 13 Mbp (sample T149) of non-redundant Bathycoccus genome sequences. WGA did not amplify all regions uniformly, resulting in unequal coverage along a given chromosome and between chromosomes. The identity at the DNA level between the metagenomes and the cultured genome was very high (96.3% identical bases for the three larger chromosomes over a 360 kbp alignment). At least two to three different genotypes seemed to be present in each natural sample based on read mapping to Bathycoccus RCC1105 genome.
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