Comparative Transcriptome of Wild Type and Selected Strains of the Microalgae Tisochrysis lutea Provides Insights into the Genetic Basis, Lipid Metabolism and the Life Cycle

Type Article
Date 2014-01
Language English
Author(s) Carrier GregoryORCID1, Garnier Matthieu1, Le Cunff Loic3, Bougaran GaelORCID1, Probert Ian2, De Vargas Colomban2, Corre E4, Cadoret Jean-Paul1, Saint-Jean Bruno1
Affiliation(s) 1 : IFREMER PBA, Nantes, France.
2 : CNRS UPMC, UMR 7144, Stn Biol Roscoff, Roscoff, France.
3 : UMT Genovigne, Montpellier, France.
4 : CNRS UPMC, ABiMS, Stn Biol Roscoff, Roscoff, France.
Source Plos One (1932-6203) (Public Library Science), 2014-01 , Vol. 9 , N. 1 , P. -
DOI 10.1371/journal.pone.0086889
WOS© Times Cited 21
Abstract The applied exploitation of microalgae cultures has to date almost exclusively involved the use of wild type strains, deposited over decades in dedicated culture collections. Concomitantly, the concept of improving algae with selection programs for particular specific purposes is slowly emerging. Studying since a decade an economically and ecologically important haptophyte Tisochrysis lutea (Tiso), we took advantage of the availability of wild type (Tiso-Wt) and selected (Tiso-S2M2) strains to conduct a molecular variations study. This endeavour presented substantial challenges: the genome assembly was not yet available, the life cycle unknown and genetic diversity of Tiso-Wt poorly documented. This study brings the first molecular data in order to set up a selection strategy for that microalgae.

Following high-throughput Illumina sequencing, transcriptomes of Tiso-Wt and Tiso-S2M2 were de novo assembled and annotated. Genetic diversity between both strains was analyzed and revealed a clear conservation, while a comparison of transcriptomes allowed identification of polymorphisms resulting from the selection program. Of 34,374 transcripts, 291 were differentially expressed and 165 contained positional polymorphisms (SNP, Indel). We focused on lipid over-accumulation of the Tiso-S2M2 strain and 8 candidate genes were identified by combining analysis of positional polymorphism, differential expression levels, selection signature and by study of putative gene function. Moreover, genetic analysis also suggests the existence of a sexual cycle and genetic recombination in Tisochrysis lutea.
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Carrier Gregory, Garnier Matthieu, Le Cunff Loic, Bougaran Gael, Probert Ian, De Vargas Colomban, Corre E, Cadoret Jean-Paul, Saint-Jean Bruno (2014). Comparative Transcriptome of Wild Type and Selected Strains of the Microalgae Tisochrysis lutea Provides Insights into the Genetic Basis, Lipid Metabolism and the Life Cycle. Plos One, 9(1), -. Publisher's official version : https://doi.org/10.1371/journal.pone.0086889 , Open Access version : https://archimer.ifremer.fr/doc/00175/28662/