The Marchantia polymorpha pangenome reveals ancient mechanisms of plant adaptation to the environment

Beaulieu, Chloé; Libourel, Cyril; Mbadinga Zamar, Duchesse Lacourt; El Mahboubi, Karima; Hoey, David J.; Greiff, George L.; Keller, Jean; Girou, Camille; San Clemente, Helene; Diop, Issa; Amblard, Emilie; Castel, Baptiste; Théron, Anthony; Cauet, Stéphane; Rodde, Nathalie; Zachgo, Sabine; Halpape, Wiebke; Meierhenrich, Anja; Laker, Bianca; Bräutigam, Andrea; Hoey, David J.; Moyroud, Edwige; Wanke, Alan; Bonfanti, Alessandra; Gatti, Stefano; Summers, Alexander; Burmeister, Elisabeth; Grube, Kathy; Alexa, Andreea; Kuksa, Nataliia; Gardiner, Lauren; Balcerowicz, Martin; Salmon, Jemma; Yates, Bryony; Riglet, Lucie; Salvi, Elena; Szovenyi, Peter; Cheng, Shifeng; Tanizawa, Yasuhiro; Aziz, Simon; Leebens-Mack, James H.; Schmutz, Jeremy; Webber, Jenell; Grimwood, Jane; Jacquet, Christophe; Dunand, Christophe; Nelson, Jessica M.; Roux, Fabrice; Philippe, Hervé; Schornack, Sebastian; Bonhomme, Maxime; Delaux, Pierre-Marc

doi:10.1038/s41588-024-02071-4

Title: The Marchantia polymorpha pangenome reveals ancient mechanisms of plant adaptation to the environment

Journal Article · 16 February 2025 · Nature Genetics

DOI: https://doi.org/10.1038/s41588-024-02071-4 · OSTI ID:2530565

Beaulieu, Chloé ^[1];

; Mbadinga Zamar, Duchesse Lacourt; El Mahboubi, Karima;

; Greiff, George L.;

; Girou, Camille; San Clemente, Helene; Diop, Issa; Amblard, Emilie;

; Théron, Anthony;

;

; Bräutigam, Andrea more »

Centre National de la Recherche Scientifique (CNRS), Castanet-Tolosan (France). Laboratoire de Recherche en Sciences Végétales (LRSV); University of Toulouse, Castanet-Tolosan (France); Université Toulouse 3-Paul Sabatier (UPS), Castanet-Tolosan (France); Institut National Polytechnique (INP), Castanet-Tolosan (France); et al.

Plant adaptation to terrestrial life started 450 million years ago and has played a major role in the evolution of life on Earth. The genetic mechanisms allowing this adaptation to a diversity of terrestrial constraints have been mostly studied by focusing on flowering plants. Here, we gathered a collection of 133 accessions of the model bryophyte Marchantia polymorpha and studied its intraspecific diversity using selection signature analyses, a genome-environment association study and a pangenome. We identified adaptive features, such as peroxidases or nucleotide-binding and leucine-rich repeats (NLRs), also observed in flowering plants, likely inherited from the first land plants. The M. polymorpha pangenome also harbors lineage-specific accessory genes absent from seed plants. We conclude that different land plant lineages still share many elements from the genetic toolkit evolved by their most recent common ancestor to adapt to the terrestrial habitat, refined by lineage-specific polymorphisms and gene family evolution.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: Agence Nationale de la Recherche (ANR); Bill and Melinda Gates Foundation; FRM/FSER; Forschungskredit of the University of Zurich (UZH); Georges and Antoine Claraz Foundation; German Research Foundation (DFG); Japan Society for the Promotion of Science (JSPS) KAKENHI; National Natural Science Foundation of China (NSFC); National Science Foundation (NSF); Swiss National Science Foundation (SNSF); USDOE Office of Science (SC), Basic Energy Sciences (BES). Scientific User Facilities (SUF); USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science (BSS)

Contributing Organization:: The SLCU Outreach Consortium

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 2530565

Journal Information:: Nature Genetics, Journal Name: Nature Genetics Journal Issue: 3 Vol. 57; ISSN 1061-4036

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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