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      Negative dominance and dominance-by-dominance epistatic effects reduce grain-yield heterosis in wide crosses in wheat

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          Abstract

          Breeding exploits the phenomenon of heterosis for an improved productivity, but negative effects reduce heterosis in wide crosses.

          Abstract

          The genetics underlying heterosis, the difference in performance of crosses compared with midparents, is hypothesized to vary with relatedness between parents. We established a unique germplasm comprising three hybrid wheat sets differing in the degree of divergence between parents and devised a genetic distance measure giving weight to heterotic loci. Heterosis increased steadily with heterotic genetic distance for all 1903 hybrids. Midparent heterosis, however, was significantly lower in the hybrids including crosses between elite and exotic lines than in crosses among elite lines. The analysis of the genetic architecture of heterosis revealed this to be caused by a higher portion of negative dominance and dominance-by-dominance epistatic effects. Collectively, these results expand our understanding of heterosis in crops, an important pillar toward global food security.

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          Most cited references27

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          A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data.

          Heng Li (2011)
          Most existing methods for DNA sequence analysis rely on accurate sequences or genotypes. However, in applications of the next-generation sequencing (NGS), accurate genotypes may not be easily obtained (e.g. multi-sample low-coverage sequencing or somatic mutation discovery). These applications press for the development of new methods for analyzing sequence data with uncertainty. We present a statistical framework for calling SNPs, discovering somatic mutations, inferring population genetical parameters and performing association tests directly based on sequencing data without explicit genotyping or linkage-based imputation. On real data, we demonstrate that our method achieves comparable accuracy to alternative methods for estimating site allele count, for inferring allele frequency spectrum and for association mapping. We also highlight the necessity of using symmetric datasets for finding somatic mutations and confirm that for discovering rare events, mismapping is frequently the leading source of errors. http://samtools.sourceforge.net. hengli@broadinstitute.org.
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            Heterosis: revisiting the magic.

            Heterosis results in the phenotypic superiority of a hybrid over its parents with respect to traits such as growth rate, reproductive success and yield. This hybrid vigor is determined by non-mutually exclusive mechanisms, including dominance complementation, overdominance and epistasis. Heterotic genes responsible for elevating crop yields are now being sought using genomics, particularly transcriptomics, but with contradictory results. Because heterosis is an environmentally modified quantitative phenotype, genomic analyses alone will not suffice. Future research should focus on integrating genomic tools in a framework of comprehensive quantitative trait locus (QTL)-based phenotyping, followed by map-based cloning. This 'phenomics' approach should identify loci controlling heterotic phenotypes, and improve understanding of the role of heterosis in evolution and the domestication of crop plants.
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              Progress toward understanding heterosis in crop plants.

              Although heterosis, or hybrid vigor, is widely exploited in agriculture, a complete description of its molecular underpinnings has remained elusive despite extensive investigation. It appears that there is not a single, simple explanation for heterosis. Instead, it is likely that heterosis arises in crosses between genetically distinct individuals as a result of a diversity of mechanisms. Heterosis generally results from the action of multiple loci, and different loci affect heterosis for different traits and in different hybrids. Hence, multigene models are likely to prove most informative for understanding heterosis. Complementation of allelic variation, as well as complementation of variation in gene content and gene expression patterns, is likely to be an important contributor to heterosis. Epigenetic variation has the potential to interact in hybrid genotypes via novel mechanisms. Several other intriguing hypotheses are also under investigation. In crops, heterosis must be considered within the context of the genomic impacts of prior selection for agronomic traits.
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                Author and article information

                Journal
                Sci Adv
                Sci Adv
                SciAdv
                advances
                Science Advances
                American Association for the Advancement of Science
                2375-2548
                June 2020
                12 June 2020
                : 6
                : 24
                : eaay4897
                Affiliations
                [1 ]State Plant Breeding Institute, University of Hohenheim, Fruwirthstr. 21, 70593 Stuttgart, Germany.
                [2 ]Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466 Stadt Seeland, Germany.
                [3 ]Nordsaat Saatzucht GmbH, Böhnshauserstr. 1, 38895 Langenstein, Germany.
                [4 ]Limagrain GmbH, Salderstr. 4, 31226 Peine-Rosenthal, Germany.
                [5 ]KWS LOCHOW GmbH, Ferdinand-von-Lochow-Str. 5, 29303 Bergen, Germany.
                [6 ]Syngenta Seeds GmbH, Kroppenstedterstr. 4, 39398 Hadmersleben, Germany.
                [7 ]BASF Agricultural SolutionsSeed GmbH, OT Gatersleben, Am Schwabeplan 8, 06466 Seeland.
                [8 ]Deutsche Saatveredelung AG, Leutewitz 26, 01665 Käbschütztal, Germany.
                [9 ]W. von Borries-Eckendorf GmbH & Co. KG, Hovedisserstr. 92, 33818 Leopoldshöhe, Germany.
                [10 ]Saatzucht Bauer GmbH & Co. KG, Hofmarkstr.1, 93083 Niederträubling, Germany.
                [11 ]RAGT2n, Steinesche 5a, 38855 Silstedt, Germany.
                [12 ]Secobra Saatzucht GmbH, Feldkirchen 3, 85368 Moosburg, Germany.
                [13 ]Strube Research GmbH & Co. KG, Hauptstr. 1, 38387 Söllingen, Germany.
                [14 ]Saatzucht Josef Breun GmbH & Co. KG, Amselweg 1, 91074 Herzogenaurach, Germany.
                [15 ]Saatzucht Streng-Engelen GmbH & Co. KG, Aspachhof 1, 97215 Uffenheim, Germany.
                [16 ]Pflanzenzucht Oberlimpburg, Oberlimpurg 2, 74523 Schwäbisch Hall, Germany.
                [17 ]Limagrain Europe, Ferme de l’Etang – BP3 -77390 Verneuil l’Etang, France.
                [18 ]TraitGenetics GmbH, Gatersleben, Germany.
                [19 ]Biostatistics Unit, Institute of Crop Science, Fruwirthstr. 23 University of Hohenheim, 70593 Stuttgart, Germany.
                Author notes
                [* ]Corresponding author. Email: reif@ 123456ipk-gatersleben.de
                Author information
                http://orcid.org/0000-0003-1536-6606
                http://orcid.org/0000-0001-6783-5182
                http://orcid.org/0000-0002-2931-0489
                http://orcid.org/0000-0002-3288-2840
                http://orcid.org/0000-0002-3207-2012
                http://orcid.org/0000-0003-1642-912X
                http://orcid.org/0000-0002-2177-8781
                http://orcid.org/0000-0001-6113-3518
                http://orcid.org/0000-0002-6742-265X
                http://orcid.org/0000-0002-2824-677X
                http://orcid.org/0000-0002-7397-7731
                Article
                aay4897
                10.1126/sciadv.aay4897
                7292627
                32582844
                5d650832-16a4-46fa-a610-54ac3b65a831
                Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC).

                This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license, which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited.

                History
                : 23 June 2019
                : 22 April 2020
                Funding
                Funded by: doi http://dx.doi.org/10.13039/501100005908, Bundesministerium für Ernährung und Landwirtschaft;
                Award ID: 2814604113
                Categories
                Research Article
                Research Articles
                SciAdv r-articles
                Agriculture
                Genetics
                Agriculture
                Custom metadata
                Penchie Limbo

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