High-density SNP-based association mapping of seed traits in fenugreek reveals homology with clover

Abd El-Wahab, M. M. H., Aljabri, M., Sarhan, M. S. ORCID: https://orcid.org/0000-0003-0904-976X, Osman, G. ORCID: https://orcid.org/0000-0002-6041-6206, Wang, S., Mabrouk, M., El-Shabrawi, H. M., Gabr, A. M. M., Abd El-Haliem, A. M. ORCID: https://orcid.org/0000-0002-2854-9973, O'Sullivan, D. M. ORCID: https://orcid.org/0000-0003-4889-056X and El-Soda, M. ORCID: https://orcid.org/0000-0002-6930-5246 (2020) High-density SNP-based association mapping of seed traits in fenugreek reveals homology with clover. Genes, 11 (8). 893. ISSN 2073-4425 doi: 10.3390/genes11080893

Abstract/Summary

Fenugreek as a self-pollinated plant is ideal for genome-wide association mapping where traits can be marked by their association with natural mutations. However, fenugreek is poorly investigated at the genomic level due to the lack of information regarding its genome. To fill this gap, we genotyped a collection of 112 genotypes with 153,881 SNPs using double digest restriction site-associated DNA sequencing. We used 38,142 polymorphic SNPs to prove the suitability of the population for association mapping. One significant SNP was associated with both seed length and seed width, and another SNP was associated with seed color. Due to the lack of a comprehensive genetic map, it is neither possible to align the newly developed markers to chromosomes nor to predict the underlying genes. Therefore, systematic targeting of those markers to homologous genomes of other legumes can overcome those problems. A BLAST search using the genomic fenugreek sequence flanking the identified SNPs showed high homology with several members of the Trifolieae tribe indicating the potential of translational approaches to improving our understanding of the fenugreek genome. Using such a comprehensively-genotyped fenugreek population is the first step towards identifying genes underlying complex traits and to underpin fenugreek marker-assisted breeding programs.

Item Type	Article
URI	https://reading-clone.eprints-hosting.org/id/eprint/92222
Identification Number/DOI	10.3390/genes11080893
Refereed	Yes
Divisions	Life Sciences > School of Agriculture, Policy and Development > Department of Crop Science
Uncontrolled Keywords	fenugreek, population structure, ddRAD-sequencing, SNP markers, association mapping, homology
Publisher	MDPI
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