Genome-wide association analysis reveals new insights into the genetic architecture of defensive, agro-morphological and quality-related traits in cassava
| Autor: | Ismail Y. Rabbi, Peter Kulakow, Muyideen Yusuf, Chiedozie Egesi, Jean-Luc Jannink, Elizabeth Parkes, Ikpan Andrew Smith, Prasad Peteti, Afolabi Agbona, Cynthia Idhigu Aghogho, Guillaume Bauchet, Ruth Uwugiaren, Kayode Ogunpaimo, Marnin D. Wolfe, Ezenwaka Lydia, Siraj Ismail Kayondo |
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| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
0301 basic medicine Candidate gene Manihot Population Quantitative Trait Loci Genome-wide association study Plant Science Biology 01 natural sciences Polymorphism Single Nucleotide Crop 03 medical and health sciences Genetic variation Genetics SNP Allele education education.field_of_study business.industry food and beverages General Medicine Heritability Genetic architecture Biotechnology Plant Breeding 030104 developmental biology Phenotype business Agronomy and Crop Science 010606 plant biology & botany Genome-Wide Association Study |
| Zdroj: | Plant molecular biology. 109(3) |
| ISSN: | 1573-5028 |
| Popis: | Key message More than 40 QTLs associated with 14 stress-related, quality and agro-morphological traits were identified. A catalogue of favourable SNP markers for MAS and a list of candidate genes are provided. Abstract Cassava (Manihot esculenta) is one of the most important starchy root crops in the tropics due to its adaptation to marginal environments. Genetic progress in this clonally propagated crop can be accelerated through the discovery of markers and candidate genes that could be used in cassava breeding programs. We carried out a genome-wide association study (GWAS) using a panel of 5130 clones developed at the International Institute of Tropical Agriculture—Nigeria. The population was genotyped at more than 100,000 SNP markers via genotyping-by-sequencing (GBS). Genomic regions underlying genetic variation for 14 traits classified broadly into four categories: biotic stress (cassava mosaic disease and cassava green mite severity); quality (dry matter content and carotenoid content) and plant agronomy (harvest index and plant type) were investigated. We also included several agro-morphological traits related to leaves, stems and roots with high heritability. In total, 41 significant associations were uncovered. While some of the identified loci matched with those previously reported, we present additional association signals for the traits. We provide a catalogue of favourable alleles at the most significant SNP for each trait-locus combination and candidate genes occurring within the GWAS hits. These resources provide a foundation for the development of markers that could be used in cassava breeding programs and candidate genes for functional validation. |
| Databáze: | OpenAIRE |
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