Adaptive diversification through structural variation in barley
In: https://hal.inrae.fr/hal-04493576 ; 2024, 2024
Online
report
Zugriff:
Pangenomes are collections of annotated genome sequences of multiple individuals of a species. The structural variants uncovered by these datasets are a major asset to genetic analysis in crop plants. Here, we report a pangenome of barley comprising long-read sequence assemblies of 76 wild and domesticated genomes and short-read sequence data of 1,315 genotypes. An expanded catalogue of sequence variation in the crop includes structurally complex loci that have become hot spots of gene copy number variation in evolutionarily recent times. To demonstrate the utility of the pangenome, we focus on four loci involved in disease resistance, plant architecture, nutrient release, and trichome development. Novel allelic variation at a powdery mildew resistance locus and population-specific copy number gains in a regulator of vegetative branching were found. Expansion of a family of starch-cleaving enzymes in elite malting barleys was linked to shifts in enzymatic activity in micro-malting trials. Deletion of an enhancer motif is likely to change the developmental trajectory of the hairy appendages on barley grains. Our findings indicate that rapid evolution at structurally complex loci may have helped crop plants adapt to new selective regimes in agricultural ecosystems.
Titel: |
Adaptive diversification through structural variation in barley
|
---|---|
Autor/in / Beteiligte Person: | Jayakodi, Murukarthick ; Lu, Qiongxian ; Pidon, Helene ; Rabanus-Wallace, M. Timothy ; Bayer, Micha ; Lux, Thomas ; Guo, Yu ; Jaegle, Benjamin ; Badea, Ana ; Bekele, Wubishet ; Brar, Gurcharn ; Braune, Katarzyna ; Bunk, Boyke ; Chalmers, Kenneth ; Chapman, Brett ; Jorgensen, Morten Egevang ; Feng, Jia-Wu ; Feser, Manuel ; Fiebig, Anne ; Gundlach, Heidrun ; Guo, Wenbin ; Haberer, Georg ; Hansson, Mats ; Himmelbach, Axel ; Hoffie, Iris ; Hoffie, Robert ; Hu, Haifei ; Isobe, Sachiko ; Koenig, Patrick ; Kale, Sandip ; Kamal, Nadia ; Keeble-Gagnere, Gabriel ; Keller, Beat ; Knauft, Manuela ; Koppolu, Ravi ; Krattinger, Simon ; Kumlehn, Jochen ; Langridge, Peter ; Li, Chengdao ; Marone, Marina ; Maurer, Andreas ; Mayer, Klaus ; Melzer, Michael ; Muehlbauer, Gary ; Murozuka, Emiko ; Padmarasu, Sudharsan ; Perovic, Dragan ; Pillen, Klaus ; Pin, Pierre ; Pozniak, Curtis ; Ramsay, Luke ; Pedas, Pai Rosager ; Rutten, Twan ; Sakuma, Shun ; Sato, Kazuhiro ; Schueler, Danuta ; Schmutzer, Thomas ; Scholz, Uwe ; Schreiber, Miriam ; Shirasawa, Kenta ; Simpson, Craig ; Skadhauge, Birgitte ; Spannagl, Manuel ; Steffenson, Brian ; Thomsen, Hanne ; Tibbits, Josquin ; Nielsen, Martin Toft Simmelsgaard ; Trautewig, Corinna ; Vequaud, Dominique ; Voss, Cynthia ; Wang, Penghao ; Waugh, Robbie ; Westcott, Sharon ; Rasmussen, Magnus Wohlfahrt ; Zhang, Runxuan ; Zhang, Xiao-Qi ; Wicker, Thomas ; Dockter, Christoph ; Mascher, Martin ; Stein, Nils ; Leibniz Institute of Plant Genetics and Crop Plant Research Gatersleben (IPK-Gatersleben) ; Carlsberg Research Laboratory ; Institut des Sciences des Plantes de Montpellier (IPSIM) ; Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier ; Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM) ; The James Hutton Institute ; Plant Genome and Systems Biology (PGSB) ; Helmholtz Zentrum München = German Research Center for Environmental Health ; Universität Zürich Zürich = University of Zurich (UZH) ; Agriculture and Agri-Food Canada, Saskatoon Research Centre ; Agriculture and Agri-Food (AAFC) ; Ottawa Research and Development Centre ; Faculty of Land and Food Systems ; University of British Columbia (UBC) ; Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH / Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures (DSMZ) ; School of Agriculture, Food and Wine ; University of Adelaide ; University, Murdoch ; University, Lund ; Guangdong Academy of Agricultural Sciences (GDAAS) ; Kazusa DNA Research Institute (KDRI) ; PGSB ; Agriculture Victoria (AgriBio) ; Biological and Environmental Science & Engineering Division (BESE) ; King Abdullah University of Science and Technology Saudi Arabia (KAUST) ; Department of Primary Industry and Regional Development ; Halle-Wittenberg, Martin-Luther-University ; Technische Universität Munchen - Technical University Munich - Université Technique de Munich (TUM) ; Department of Agronomy and Plant Genetics ; University of Minnesota Twin Cities (UMN) ; University of Minnesota System (UMN)-University of Minnesota System (UMN) ; Fraunhofer Institute for Production Systems and Design Technology (Fraunhofer IPK) ; (Fraunhofer-Gesellschaft), Fraunhofer ; Julius Kühn-Institut - Federal Research Centre for Cultivated Plants (JKI) ; Institute of Agricultural and Nutritional Sciences ; Martin-Luther-Universität Halle Wittenberg (MLU) ; Recherches, Secobra ; Partenaires, INRAE ; University of perpetuity ; University, Tottori ; University, Okayama ; University of Minnesota System (UMN) ; La Trobe University ; University of Dundee ; Department of Plant and Microbial Biology ; German Centre for Integrative Biodiversity Research (iDiv) ; Georg-August-University = Georg-August-Universität Göttingen |
Link: | |
Zeitschrift: | https://hal.inrae.fr/hal-04493576 ; 2024, 2024 |
Veröffentlichung: | HAL CCSD, 2024 |
Medientyp: | report |
DOI: | 10.1101/2024.02.14.580266 |
Schlagwort: |
|
Sonstiges: |
|