Landraces often contain genetic diversity that has been lost in modern cultivars, including alleles that confer enhanced local adaptation. To comprehensively identify loci associated with adaptive traits in soya bean landraces, for example flowering time, a population of 1938 diverse landraces and 97 accessions of the wild progenitor of cultivated soya bean, Glycine soja was genotyped using tGBS (R). Based on 99 085 high-quality SNPs, landraces were classified into three sub-populations which exhibit geographical genetic differentiation. Clustering was inferred from STRUCTURE, principal component analyses and neighbour-joining tree analyses. Using phenotypic data collected at two locations separated by 10 degrees of latitude, 17 trait-associated SNPs (TASs) for flowering time were identified, including a stable locus Chr12:5914898 and previously undetected candidate QTL/genes for flowering time in the vicinity of the previously cloned flowering genes, E1 and E2. Using passport data associated with the collection sites of the landraces, 27 SNPs associated with adaptation to three bioclimatic variables (temperature, daylength, and precipitation) were identified. A series of candidate flowering genes were detected within linkage disequilibrium (LD) blocks surrounding 12 bioclimatic TASs. Nine of these TASs exhibit significant differences in flowering time between alleles within one or more of the three individual sub-populations. Signals of selection during domestication and/or subsequent landrace diversification and adaptation were detected at 38 of the 44 flowering and bioclimatic TASs. Hence, this study lays the groundwork to begin breeding for novel environments predicted to arise following global climate change.
1.Chinese Acad Agr Sci, Inst Crop Sci, Key Lab Germplasm Utilizat MOA, Natl Key Facil Crop Gene Resources & Genet Improv, Beijing, Peoples R China 2.Data Biotech Beijing Co Ltd, Beijing, Peoples R China 3.China Agr Univ, Dept Plant Genet & Breeding, Beijing, Peoples R China 4.Chinese Acad Agr Sci, Oil Crops Res Inst, Key Lab Oil Crop Biol MOA, Wuhan, Hubei, Peoples R China 5.Univ Nebraska, Dept Agron & Hort, Lincoln, NE USA 6.Data2Bio LLC, Ames, IA USA 7.Guangxi Acad Agr Sci, Nanning, Peoples R China 8.Washington State Univ, Dept Crop & Soil Sci, Pullman, WA 99164 USA 9.Leibniz Inst Plant Genet & Crop Plant Res IPK, Dept Breeding Res, Gatersleben, Germany 10.Iowa State Univ, Dept Agron, Ames, IA USA
Recommended Citation:
Li, Ying-hui,Li, Delin,Jiao, Yong-qing,et al. Identification of loci controlling adaptation in Chinese soya bean landraces via a combination of conventional and bioclimatic GWAS[J]. PLANT BIOTECHNOLOGY JOURNAL,2019-01-01