Standing genetic variation fuels rapid evolution of herbicide resistance in blackgrass

被引:19
作者
Kersten, Sonja [1 ,2 ]
Chang, Jiyang [3 ,4 ]
Huber, Christian D. [5 ]
Voichek, Yoav [6 ]
Lanz, Christa [2 ]
Hagmaier, Timo [2 ]
Lang, Patricia [2 ,11 ]
Lutz, Ulrich [2 ]
Hirschberg, Insa [7 ]
Lerchl, Jens [8 ]
Porri, Aimone [8 ]
Van de Peer, Yves [3 ,4 ,9 ,10 ]
Schmid, Karl [1 ]
Weigel, Detlef [2 ]
Rabanal, Fernando A. [2 ]
机构
[1] Univ Hohenheim, Inst Plant Breeding Seed Sci & Populat Genet, D-70599 Stuttgart, Germany
[2] Max Planck Inst Biol Tubingen, Dept Mol Biol, D-72076 Tubingen, Germany
[3] Univ Ghent, Dept Plant Biotechnol & Bioinformat, B-9052 Ghent, Belgium
[4] VIB, Ctr Plant Syst Biol, B-9052 Ghent, Belgium
[5] Penn State Univ, Eberly Coll Sci, Dept Biol, State Coll, PA 16801 USA
[6] Vienna Bio Ctr, Gregor Mendel Inst, Austrian Acad Sci, A-1030 Vienna, Austria
[7] Friedrich Miescher Lab, D-72076 Tubingen, Germany
[8] BASF SE, Agr Res Stn, D-67117 Limburgerhof, Germany
[9] Univ Pretoria, Dept Biochem Genet & Microbiol, ZA-0028 Pretoria, South Africa
[10] Nanjing Agr Univ, Acad Adv Interdisciplinary Studies, Coll Hort, Nanjing 210095, Peoples R China
[11] Stanford Univ, Dept Biol, Stanford, CA 94305 USA
关键词
Alopecurus myosuroides; herbicide resistance; rapid adaptation; blackgrass; SITE-BASED RESISTANCE; ALOPECURUS-MYOSUROIDES HUDS; ACETYL-COENZYME; GRASS WEED; INHIBITING HERBICIDES; ACETOLACTATE-SYNTHASE; CARBOXYLASE INHIBITORS; SOFT SWEEPS; POPULATION; ADAPTATION;
D O I
10.1073/pnas.2206808120
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Repeated herbicide applications in agricultural fields exert strong selection on weeds such as blackgrass (Alopecurus myosuroides), which is a major threat for temperate climate cereal crops. This inadvertent selection pressure provides an opportunity for investigating the underlying genetic mechanisms and evolutionary processes of rapid adaptation, which can occur both through mutations in the direct targets of herbicides and through changes in other, often metabolic, pathways, known as non-target-site resistance. How much target-site resistance (TSR) relies on de novo mutations vs. standing variation is important for developing strategies to manage herbicide resistance. We first generated a chromosome-level reference genome for A. myosuroides for population genomic studies of herbicide resistance and genome-wide diversity across Europe in this species. Next, through empirical data in the form of highly accurate long-read amplicons of alleles encoding acetyl-CoA carboxylase (ACCase) and acetolactate synthase (ALS) variants, we showed that most populations with resistance due to TSR mutations-23 out of 27 and six out of nine populations for ACCase and ALS, respectively-contained at least two TSR haplotypes, indicating that soft sweeps are the norm. Finally, through forward-in-time simulations, we inferred that TSR is likely to mainly result from standing genetic variation, with only a minor role for de novo mutations.
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页数:11
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