Genetic diversity of new maize hybrids based on SSR markers as compared with other molecular and biochemical markers

Abstract

Genetic diversity of four new yellow single crosses, five new yellow three-way crosses, and five yellow inbred lines of maize (Zea mays L.) was studied using different molecular (SSR, ISSR, and RAPD) and biochemical markers (seed storage protein content). All markers were able to clearly separate the inbred lines in one cluster from the different types of hybrids. The correlation among the different types of molecular markers was moderately high according to the Mantel's test (e.g. 0.67 between SSR and ISSR, 0.42 between SSR and RAPD, and 0.65 between ISSR and RAPD), indicating that the three techniques are efficient for evaluating genetic diversity in the maize genotypes. The correlation of biochemical markers (seed storage protein SDS-PAGE) with SSR, ISSR, and RAPD markers was 0.61, 0.74, and 0.48, respectively. It can be concluded that both molecular and biochemical markers are efficient to study the genetic diversity in maize. Among the different types of molecular markers, SSR is a more accurate marker-type because of its co-dominance and stability of results. It can also be said that biochemical and molecular markers are positively correlated and the correlation ranged between moderate to high. This could suggest using both marker types, separately or together, for genetic diversity studies in maize.

Diallel analysis and genetic diversity of some yellow maize inbred lines (Zea mays L.) using RAPD and SSR markers

“…However, it was lower than those reported by Nyaligwa et al (2015) and Pandit et al (2016). The high level of polymorphism observed in this study for both marker types (RAPD and SSR) is consistent with the previous studied of Senior et al (1998), Souza et al (2008) and Abdellatif & Khidr (2010) which reported that the polymorphism levels for different types of molecular markers were high in maize. Souza et al (2008) found that SSR markers obtained higher levels of polymorphism than RAPD markers in maize.…”

ReprOlive: a database with linked data for the olive tree (Olea europaea L.) reproductive transcriptome

“…SSRs can be filtered by the number of nucleotides in the motif and by their length, revealing that reproductive transcriptome has hexanucleotide motifs in 501 TTs, tetranucleotide motifs in 575 TTs, and that 493 SSRs have more than 20 nt in length. SSRs have direct applications as molecular markers since they are easily converted in primers ( Guerrero et al, 2010 ) that provide co-dominant and stable results ( Abdellatif and Khidr, 2010 ) that overcome the limitations of other types of molecular markers ( Garcia et al, 2004 ). Moreover, ORF-based SSRs are more advantageous since they will reduce the mapping efforts required for the development of high-density maps and association studies, and will facilitate comparative genomics.…”

Genetic Relationships Among Four Mutelid Species (Bivalvia: Unionida) in Egypt Revealed by Rapd-PCR Technique

“…Molecular analysis was executed using gel documentation system for the dendogram and estimation of similarity index (D-value) of each primer among the studied mutelid species. RAPD-PCR amplification products took the score 1/0 for presence/absence of homologous bands [14] and analyses were accomplished using the NTSYSpc 2.2 software [15] . For RAPD markers, similarity coefficient matrix was calculated using Jaccard similarity algorithm [16] .…”