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POPULATION STRUCTURE AND DIVERSITY OF THE AA GENOME OF RICE BASED ON SIMPLE SEQUENCE REPEATS VARIATION IN ORGANELLE GENOME

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dc.contributor.author MASOOD SHAH, SHAHID
dc.contributor.author ASLAM, KASHIF
dc.contributor.author SHABIR, GHULAM
dc.contributor.author REHMAN KHAN, ABDUL
dc.contributor.author HAIDER ABBASI, BILAL
dc.contributor.author SHINWARI, KHAN
dc.contributor.author ARIF, MUHAMMAD
dc.date.accessioned 2022-10-24T11:14:46Z
dc.date.available 2022-10-24T11:14:46Z
dc.date.issued 2015-10-23
dc.identifier.citation Shah, S. M., Aslam, K., Shabir, G., Khan, A., Abbassi, B. H., Shinwari, Z. K., & Arif, M. (2015). Population structure and diversity of the AA genome of rice based on simple sequence repeats variation in organelle genome. Pak. J. Bot, 47(5), 1773-1782. en_US
dc.identifier.issn 2070-3368
dc.identifier.uri http://142.54.178.187:9060/xmlui/handle/123456789/13612
dc.description.abstract Maternally inherited mitochondrial and chloroplast genomes based Simple Sequence Repeat (SSR) variations were examined for their contribution to diversity of rice genome. Population structure and diversity analysis based on mitochondria and chloroplast inherited genome has been studied less as compared to nuclear genome inheritance. The present study was designed to evaluate the population structure and diversity of rice grown in Pakistan along with other countries based on maternally inherited mitochondria and chloroplast genome. The mitochondrial and chloroplast genomes were analyzed by using 42 mitochondrial and 20 chloroplast pairs of SSR primers. A slightly higher percentage of polymorphism was observed in chloroplast (30%) than mitochondria (28.57%). The average gene diversity for both mitochondrial and chloroplast was 0.32 oscillating from 0.041 to 0.620. The Polymorphism Information Content (PIC) value ranged from 0.040 to 0.543 with an average of 0.282, while the allelic richness ranged from two to four alleles with an average of 2.779 alleles. Mononucleotide repeats stood first (50% polymorphic) for detecting polymorphism for organelle genomes followed by tri- (25%), tetra- (14.29%) and dinucleotide (12.5%), respectively. Cluster and population structure analysis revealed two groups of accessions. On the basis of our results the AA genome of Asian cultivated rice diverges from the same origin during evolution. en_US
dc.language.iso en en_US
dc.publisher Karachi: Pakistan Botanical Society, University of Karachi en_US
dc.subject Mitochondrial en_US
dc.subject chloroplast genomes en_US
dc.subject SSR variation en_US
dc.subject Oryza sativa en_US
dc.subject Population structure en_US
dc.subject Genetic diversity en_US
dc.title POPULATION STRUCTURE AND DIVERSITY OF THE AA GENOME OF RICE BASED ON SIMPLE SEQUENCE REPEATS VARIATION IN ORGANELLE GENOME en_US
dc.type Article en_US


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