Genotypic databases at V5 corresponding to the two evaluated populations: Diversity panel and a Multiparental Advanced Generation Inter-Cross (MAGIC) population. [DATASET]

Description of methods used for collection/generation of data: The inbred lines of both populations were both genotyped by the genotyping by sequencing (GBS) method, using B73 genome version 4 as reference in the case of the AMES panel and B73 genome version 2 as reference for the MAGIC population (Romay et al., 2013; Jiménez-Galindo et al., 2019). The genotyping of both populations was updated to V5 using the reference sequences available in the MaizeGDB database (https://www.maizegdb.org/). In TASSEL 5.2.54 software, the genotypic matrices corresponding to the AMES panel and the MAGIC population were integrated. For this purpose, markers were aligned to ensure the coincidence between both matrices, which were unified into a single genotypic base. Subsequently, a filtering process was applied in which markers with more than 10% missing data were discarded (considering heterozygotes as missing data). Markers with a minor allele frequency lower than 0.05, monomorphic and multiallelic SNPs, as well as insertion/deletion polymorphisms (INDELs) were also removed. This filtering process generated a final genotypic matrix composed of 238 lines from the AMES panel, 378 RILs lines from the MAGIC population and a total of 12,829 SNPs. The files contained in this dataset are not filtered