Molecular characterization of tall fescue germplasm using SNP markers: population structure, linkage disequilibrium, and association mapping of yield-related traits

Shahabzadeh Zeynab; Darvishzadeh Reza; Mohammadi Reza; Jafari Morad; Alipour Hadi

doi:10.1007/s11816-022-00769-7

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자료유형: 학술저널

저자정보: Shahabzadeh Zeynab (Department of Plant Production and Genetics Faculty of Agriculture Urmia University) Darvishzadeh Reza (Department of Plant Production and Genetics Faculty of Agriculture Urmia University) Mohammadi Reza (Department of Plant Production and Genetics Faculty of Agriculture Urmia University) Jafari Morad (Department of Plant Production and Genetics Faculty of Agriculture Urmia University) Alipour Hadi (Department of Plant Production and Genetics Faculty of Agriculture Urmia University)

저널정보: 한국식물생명공학회 Plant Biotechnology Reports Plant Biotechnology Reports 제17권 제2호

발행연도: 2023.4

수록면: 171 - 190 (20page)

DOI: 10.1007/s11816-022-00769-7

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Tall fescue (Festuca arundinacea) from Poaceae family is an allohexaploid (2n=6x=42) and cross pollinated plant that is used throughout the world as a forage plant. This research was conducted to identify the genomic regions associated with 10 agro-morphological traits using 15,881 SNP markers in a diverse tall fescue germplasm. UPGMA, Structure, and PCA analyses illustrated high genetic differentiation between forage, turf, and hybrid tall fescue samples. Correcting r2 for popula- tion structure and kinship effects revealed the fact that the r2v (corrected for kinship) is much smaller than r2 (uncorrected) illustrating the necessity of removing the effect of coancestry to reduce the inflation of r2 estimates. Analysis of linkage disequilibrium revealed that the amount of SNP pairs in LD differs between sub-genomes and chromosomes and any increase in the distance among SNPs reduces the amount of SNP pairs in LD. A total of 111 and 17 marker-trait associations were identified via GLM and MLM methods for the investigated traits, respectively. Most of the significant MTAs belonged to plant height and days to anthesis. Gene ontology results revealed that 34% of MTAs were located in protein-coding regions. Most of the MTAs were located on chromosomes 1B and 1D. The MTAs for plant height and days to anthesis located within the coding regions can be utilized in genome-based breeding in tall fescue breeding programs.

#Gene annotation · Genetic diversity · Genome-wide association study

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