Suitability of target region amplified polymorphism (TRAP) markers to discern genetic variability in sweet sorghum
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(2020) 18:59
Journal of Genetic Engineering and Biotechnology
RESEARCH
Open Access
Suitability of target region amplified polymorphism (TRAP) markers to discern genetic variability in sweet sorghum Yehia A. Khidr1* , Sileshi A. Mekuriaw1,2, Adel E. Hegazy1 and Enass Amer1
Abstract Background: Sweet sorghum is an emerging biofuel candidate crop with multiple benefits as a source of biomass energy. Increase of biomass and sugar productivity and quality is a central goal in its improvement. Target region amplified polymorphism (TRAP) is a polymerase chain reaction (PCR) based functional marker system that can detect genetic diversity in the functional region of target genes. Thirty sweet sorghum genotypes were used to study the potential of 24 pairs of TRAP marker system in assessing genetic diversity with regard to three lignin and three sucrose biosynthesis genes. Results: A total of 1638 bands were produced out of which 1161 (70.88%) were polymorphic at least at one locus. The average polymorphic information content (PIC), resolving power (RP), marker index (MI), Shannon’s diversity index (H), and gene diversity values were 0.32, 8.86, 1.74, 3.25, and 0.329, respectively. Analysis of molecular variance (AMOVA) revealed a highly significant genetic variation both within and among accessions studied (P = 0.01). However, the variation within the population was higher than among the populations (accessions). Bootstrap analysis showed that the number of loci amplified using this marker system is sufficient to estimate the available genetic diversity. The thirty genotypes were categorized into five clusters using a similarity matrix at 0.72 coefficient of similarity. The genotypes were also grouped mostly according to their geographic origin where the Ethiopian and Egyptian genotypes tend to fall in specific clusters. Moreover, the genotypes reflected the same pattern of distribution when ordinated using principal coordinate analysis. Conclusions: In conclusion, TRAP marker can be used as a powerful tool to study genetic diversity in sweet sorghum. Keywords: Lignin, Sucrose, Molecular markers
Background Sweet sorghum (Sorghum bicolor L. Moench) is a member of the family Poaceae and genus Sorghum (2n = 20). The genus Sorghum encompasses three species: Sorghum bicolor, Sorghum propinquum, and Sorghum halepense. The species S. bicolor includes three subspecies: S. bicolor subsp. bicolor, S. bicolor subsp. drummondii, and S. bicolor subsp. verticilliflorum [1]. Sweet sorghum is a variety of * Correspondence: [email protected] 1 Department of Plant Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Sadat City, Egypt Full list of author information is available at the end of the article
sorghum known for its long, sweet, and juicy stalk. Due to its high biomass production and sugar accumulation potential under low input conditions and unique stress tolerance capability, it appears as an important candidate bioenergy crop [2, 3]. It has a potential to produce as
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