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Genetic variability and working steps of doubled haploid production in tropical maize

dataset
posted on 08.10.2019 by Evellyn Giselly de Oliveira Couto, Roberto Fritsche-Neto, Mayara Neves Cury
Phenotype-DH.txt This dataset comprised haploid, diploid and inhibited seeds obtained from the crossing of five sources of tropical germplasm in F1 and F2 generations with the tropicalized haploid inducer LI-ESALQ. Our main goals were to compare the effect of F1 and F2 generations on DH production in tropical germplasm, evaluating the R1-navajo expression in seeds, the working steps of the methodology, and the genetic variability of the DH lines obtained. Phenotypic data present five source germplasm, two generations, three blocks, three classes (haploid, diploid and inhibited), a total of seeds harvested in each ear and the correspondent class value; and frequency. Genotype-DH.txt This dataset comprised D0 lines obtained in doubled haploid methodology. The 173 DH lines and 5604 SNPs were used to evaluate the genetic variability, population structure and kinship of the DH lines obtained in each generation. The SNP markers were filtered for missing data = 5% and for minor allele frequency = 5%. All heterozygous loci that remained in the data were considered as missing values and were imputed based on the mean of SNP. The type of matrix output produced was "012", coded as 0 to AA, 1 to Aa and 2 to aa. The residual heterozygosity was considered as a missing value because of the presence of chimerism in D0 cells after artificial chromosome doubling during DH in maize. The procedures were carried out by the raw.data function of snpReady package of R software.
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