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Maize was domesticated from teosinte (Zea mays ssp.Parviglumis) about 9000 years ago in the Balsas region of South-Western Mexico.The external morphological changes since domestication have been widely studied.However,the internal molecular phenotype such as metabolites that links the genomic variation and organismic phenotype received much less attention.In this study,using a large maize-teosinte BC2S3 recombinant inbred lines (RILs) population that has been genotyped by high-density SNP markers,we conducted a comprehensive assessment for the metabolome of maize seedlings.A total of 29,141 mass peaks within the population were detected.The genetic mapping identified 42,966 QTLs for the 29,141 metabolites.