Development of a High-Density Genetic Map Based on Specific Length Amplified Fragment Sequencing and Its Application in Quantitative Trait Loci Analysis for Yield-Related Traits in Cultivated Peanut

Frontiers in Plant Science
Zhihui WangBoshou Liao

Abstract

High-density genetic maps (HDGMs) are very useful for genomic studies and quantitative trait loci (QTL) mapping. However, the low frequency of DNA polymorphisms in peanut has limited the quantity of available markers and hindered the construction of a HDGM. This study generated a peanut genetic map with the highest number of high-quality SNPs based on specific locus amplified fragment sequencing (SLAF-seq) technology and a newly constructed RIL population ("ZH16" × "sd-H1"). The constructed HDGM included 3,630 SNP markers belonging to 2,636 bins on 20 linkage groups (LGs), and it covers 2,098.14 cM in length, with an average marker distance of 0.58 cM. This HDGM was applied for the following collinear comparison, scaffold anchoring and analysis of genomic characterization including recombination rates and segregation distortion in peanut. For QTL mapping of investigated 14 yield-related traits, a total of 62 QTLs were detected on 12 chromosomes across 3 environments, and the co-localization of QTLs was observed for these traits which were significantly correlated on phenotype. Two stable co-located QTLs for seed- and pod-related traits were significantly identified in the chromosomal end of B06 and B07, respectively. The constr...Continue Reading

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Citations

May 14, 2020·G3 : Genes - Genomes - Genetics·Carolina ChavarroPeggy Ozias-Akins
Sep 29, 2019·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Nian LiuHuifang Jiang
Apr 25, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Manish K PandeyWeijian Zhuang
Jan 26, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Huaiyong LuoHuifang Jiang
Jan 22, 2021·Journal of Bioinformatics and Computational Biology·Md Jahangir AlamMd Nurul Haque Mollah

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Methods Mentioned

BETA
genotyping
SLAF-seq

Software Mentioned

Windows QTL Cartographer
BWA
BioMeractor
SAS
MSTMap

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