Genetic variability analysis of partially salt tolerant local and inbred rice (Oryza sativa L.) through molecular markers

Abstract

Random Amplified Polymorphic DNA (RAPD) analysis was performed to assess the genetic variability in sixteen selected germplasms of rice, Oryza sativa L. using eight decamer RAPD primers. The data obtained from this investigation reveals a high level of polymorphism between cultivars. The primers produced a total of 255 bands of which all 255 bands were polymorphic indicating 100% polymorphism. The size of the amplified bands ranged from 220 bp to 2290 bp. The number of polymorphic fragments ranged from 24 to 49 with an average of 32 polymorphic fragments for each primer. The primer OPX04 produced the maximum number (49) of polymorphic bands while the OPB04 and OPB17 produced the minimum number (24) of polymorphic bands. The polymorphic information content (PIC) values ranged from 0.6616 to 0.8845 with an average of 0.832. The highest PIC value (0.8845) was obtained for primer OPL03. The RAPD data was analyzed to determine the pair-wise genetic similarity coefficients which ranged from 0.00 to 0.83. The BRRIdhan 23 and the BRRIdhan 41 varieties were the closest genotypes with the highest similarity index of 83%. This was followed by 77% similarity between a pair of cultivars Kalamona and Horkuch. On the other hand, 100% dissimilarity was seen between BRRIdhan 53, BRRIdhan 50, BRRIdhan 10, BRRIdhan 70, BRRIdhan 54, BRRIdhan 40, BRRIdhan 23, BRRIdhan 47, BRRIdhan 41 and Dadsail respectively and between BRRIdhan 53 and Horkuch; indicating a high level of variability between paired genotypes. Cluster analysis was performed using Unweighted Paired Group of Arithmetic Means (UPGMA). The UPGMA dendrogram resolved the selected rice cultivars into four clusters.

Basic concepts and methodologies of DNA marker systems in plant molecular breeding

“…(2021) ; Igwe et al. (2021) ; Tilwari and Sharma (2021) ; Mazumdar et al. (2020) , Assessment of heterosis in breeding SSR and SNP; AFLP, RAPD and SSR; SNP; EST and SSR Cotton ( Gossypium hirsutum ); Maize ( Zea mays ); Maize ( Zea mays ); wheat ( Triticum aestivum ); Rice ( Oryza sativa ) Geng et al.…”

Evaluation of gene flow and genetic diversity in rice accessions across Kurdistan region-iraq using SSR markers

“…Researchers have conducted numerous successful studies worldwide defining the genetic diversity of rice using different molecular markers. The Random Amplified Polymorphic DNA (RAPD) was started by [ 8 , 9 ]and then combined with the simple sequence repeat (SSR) [ 10 – 12 ]. Amplified fragment length polymorphism (AFLP) was also used for the analysis of the genetic variability of rice [ 13 , 14 ] in conjunction with SSR [ 15 ].…”

The Effect of Plant Growth Regulators (PGRs) on Efficient Regeneration of 12 Recalcitrant Indica Rice (Oryza Sativa L.) Genotypes

“…Bangladesh's population is projected to reach 230-250 million by 2050 (UNDP), and the global food demand will increase by 87% by the year 2050 (Kromdijk and Long, 2016). But according to many reports, the nation is losing 1% of agricultural land every year, and agriculture is facing several abiotic and biotic constraints like flash flood, drought, salinity, water logging due to flood, cold and bacterial, viral, fungal diseases (Rasheed et al, 2020;Mazumder et al, 2020). To combat the future situations, it will need the replacement of current rice varieties with modern rice varieties having improved agro-ecological and climatic features.…”