Genetic diversity of rice (Oryza sativa L.) accessions collected from Sudan and IRRI using SSR markers

Abstract

The assessment of genetic diversity of the traditional rice varieties or landraces is an essential component in germplasm characterization and conservation to identify potential parents. In the present study SSR markers (588 SSR markers) were used for the assessment of genetic diversity and relatedness among 31 rice accessions. These included 18 accessions from Sudan and 13 from IRRI. Among the SSR markers used only 483 generated polymorphic patterns, and showed 1274 alleles. The number of alleles per locus ranged from 2 (about 214 markers) to 5 (RM16820 and AP3206a) with an average of 2.64 alleles per locus. The polymorphic information content (PIC) values ranged from 0.06 (RM3138, RM10671, SKC3, R1M7, R6M30, S07101 and S12041B) to 0.69 (RM7643), with an average of 0.39. The major allele frequency per locus varied from 32% (RM7643) to 97% (RM3138, RM10671, SKC3, R1M7, R6M30, S07101 and S12041B), with an average of 64%. Among the primers used in the present investigation, RM7643 was highly informative as it recorded the highest PIC value (0.69). The UPGMA resulted in allelic richness of four major clusters in which cluster I is composed of a high number of accessions. The pairwise genetic dissimilarity indices revealed the highest genetic dissimilarity of 62.3% between Pipanfary Red1 and FL478. The lowest genetic dissimilarity was found between NBGS3 and NBGS2 (4.1%), but they showed wide dissimilarity with other accessions. The study highlighted the usefulness of the application markers for efficient characterization of the Sudanese rice accessions.

Start codon-targeted marker evaluation of genetic relationship and population structure in southern Nigerian fluted pumpkin (Telfairia occidentalis Hook F.) collection

“…The mean gene diversity of the SCoT primers (0.79) was higher than from a previous study in summer squash landraces (Xanthopoulou et al ., 2015). Strong association has been reported between gene diversity, PIC and the number of alleles detected per locus, such that markers with very high PIC values detected a greater number of alleles and gene diversity (Al-Tamimi and Al-Janabi, 2019; Gasim et al ., 2019; Kumar and Agrawal, 2019; Moniruzzaman et al ., 2019).…”

Performance and Pest and Disease Resistance Tests Local Genotype of Lowland Rice

“…Characteristics that are important for rice plants are agronomic characteristics and resistance to pests and diseases. According to (Seif et al, 2019), the characteristics of lowland rice plants can also examine the relationships between genotypes which are important for predicting the influence and yield of various local lowland rice genotypes and various breeding strategies and conservation of genetic resources.…”