TY - JOUR
T1 - A genomics approach reveals the global genetic polymorphism, structure, and functional diversity of ten accessions of the marine model diatom Phaeodactylum tricornutum
AU - Rastogi, Achal
AU - Frj, Vieira
AU - Deton-Cabanillas, Anne Flore
AU - Veluchamy, Alaguraj
AU - Cantrel, Catherine
AU - Wang, Gaohong
AU - Vanormelingen, Pieter
AU - Bowler, Chris
AU - Piganeau, Gwenael
AU - Hu, Hanhua
AU - Tirichine, Leila
N1 - KAUST Repository Item: Exported on 2020-10-01
Acknowledgements: HH acknowledges support from National Natural Science Foundation of China (grant no. 91751117). GW acknowledges the Strategic Priority Research Program of the Chinese Academy of Sciences (grant no. XDA17010502). CB acknowledges funding from the ERC Advanced Award ‘Diatomite’, the LouisD Foundation of the Institut de France, the Gordon and Betty Moore Foundation, and the French Government ‘Investissements d’Avenir’ programs MEMO LIFE (ANR-10-LABX-54), PSL* Research University (ANR-1253 11-IDEX-0001-02), and OCEANOMICS (ANR11-BTBR-0008). CB also thanks the Radcliffe Institute of Advanced Study at Harvard University for a scholar’s fellowship during the 2016–2017 academic year. LT acknowledges funds from the CNRS, MEMO LIFE (ANR-10-LABX-54) and the region of Pays de la Loire (ConnecTalent EPIALG project). AR was supported by an International PhD fellowship from MEMO LIFE (ANR-10-LABX-54).
PY - 2019/1/1
Y1 - 2019/1/1
N2 - Diatoms emerged in the Mesozoic period and presently constitute one of the main primary producers in the world’s ocean and are of a major economic importance. In the current study, using whole genome sequencing of ten accessions of the model diatom Phaeodactylum tricornutum, sampled at broad geospatial and temporal scales, we draw a comprehensive landscape of the genomic diversity within the species. We describe strong genetic subdivisions of the accessions into four genetic clades (A–D) with constituent populations of each clade possessing a conserved genetic and functional makeup, likely a consequence of the limited dispersal of P. tricornutum in the open ocean. We further suggest dominance of asexual reproduction across all the populations, as implied by high linkage disequilibrium. Finally, we show limited yet compelling signatures of genetic and functional convergence inducing changes in the selection pressure on many genes and metabolic pathways. We propose these findings to have significant implications for understanding the genetic structure of diatom populations in nature and provide a framework to assess the genomic underpinnings of their ecological success and impact on aquatic ecosystems where they play a major role. Our work provides valuable resources for functional genomics and for exploiting the biotechnological potential of this model diatom species.
AB - Diatoms emerged in the Mesozoic period and presently constitute one of the main primary producers in the world’s ocean and are of a major economic importance. In the current study, using whole genome sequencing of ten accessions of the model diatom Phaeodactylum tricornutum, sampled at broad geospatial and temporal scales, we draw a comprehensive landscape of the genomic diversity within the species. We describe strong genetic subdivisions of the accessions into four genetic clades (A–D) with constituent populations of each clade possessing a conserved genetic and functional makeup, likely a consequence of the limited dispersal of P. tricornutum in the open ocean. We further suggest dominance of asexual reproduction across all the populations, as implied by high linkage disequilibrium. Finally, we show limited yet compelling signatures of genetic and functional convergence inducing changes in the selection pressure on many genes and metabolic pathways. We propose these findings to have significant implications for understanding the genetic structure of diatom populations in nature and provide a framework to assess the genomic underpinnings of their ecological success and impact on aquatic ecosystems where they play a major role. Our work provides valuable resources for functional genomics and for exploiting the biotechnological potential of this model diatom species.
UR - http://hdl.handle.net/10754/660361
UR - http://www.nature.com/articles/s41396-019-0528-3
UR - http://www.scopus.com/inward/record.url?scp=85074584352&partnerID=8YFLogxK
U2 - 10.1038/s41396-019-0528-3
DO - 10.1038/s41396-019-0528-3
M3 - Article
C2 - 31624346
SN - 1751-7362
VL - 14
SP - 347
EP - 363
JO - ISME Journal
JF - ISME Journal
IS - 2
ER -