SNPs Marker Development for Lycopene Beta-Cyclase (lcyB) Gene Related to Beta-Carotene Biosynthesis in Cassava
DOI:
https://doi.org/10.14456/thaidoa-agres.2025.15Keywords:
SNPs marker, lycopene beta-cyclase gene, beta-carotene biosynthesis, cassavaAbstract
Single nucleotide polymorphisms (SNPs) molecular markers can be effectively applied to select various traits in plant breeding. The objectives of this study were to develop SNPs markers for the lycopene beta-cyclase (lcyB) gene, which is related to beta-carotene biosynthesis in cassava, to examine the genetic variation of SNPs by using the polymerase chain reaction-restriction fragment length polymorphism technique, and to analyze beta-carotene content in the fresh root. Twenty cassava cultivars/lines (10 cultivars/lines of yellow fresh root and 10 cultivars/lines of white fresh root) were used in the experiments. The results showed that the yellow fresh root group had beta-carotene content ranging from <40.00-172.93 µg/100g, with the MPER297 variety exhibiting the highest beta-carotene content. In contrast, the white fresh root group contained beta-carotene levels below 40.00 µg/100g. A total of 44 SNPs in the lcyB gene were identified, along with 12 restriction enzymes capable of cutting nucleotides at the SNPs positions. Among these 12 SNPs markers of lcyB, 8 SNPs showed polymorphism while 4 SNPs were monomorphism. The polymorphic information contents for these SNPs ranged from 0-0.50, with SNP lcyB g.1673969 having the highest. The accuracy of these markers varied from 0-75%, with SNP lcyB g.1674619 demonstrating an accuracy of 75%. This marker can be used for selecting cassava varieties with high beta-carotene content.
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