Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding

Rice is grown in diverse environmental conditions. In this study, genetic variation among thirteen Iranian and thirteen Malaysian rice cultivars was determined using Microsatellite markers. Microsatellites are polymerase chain reaction (PCR) based and dbla ceelcuoobeoy xoed (DNA) markers which ar...

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Main Author:	Etemad, Ali
Format:	Thesis
Language:	English English
Published:	2009
Subjects:	Microsatellites (Genetics) Rice - Breeding Rice - Malaysia
Online Access:	http://psasir.upm.edu.my/id/eprint/9827/1/FBSB_2009_33_A.pdf
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id	my-upm-ir.9827
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spelling	my-upm-ir.98272013-05-27T07:43:53Z Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding 2009-11 Etemad, Ali Rice is grown in diverse environmental conditions. In this study, genetic variation among thirteen Iranian and thirteen Malaysian rice cultivars was determined using Microsatellite markers. Microsatellites are polymerase chain reaction (PCR) based and dbla ceelcuoobeoy xoed (DNA) markers which are abundant, co-dominant and widely used in various organisms. This study consisted of two parts, the first part was DNA extraction, which consisted of comparing between four different DNA extraction methods, namely the Dellaporta and CTAB as conventional methods also, Promega and Axyprep as commercial protocols kits. Comparison was also made on the effect of different leaf age as well as leaf position on different quality and yield of DNA obtained. The results of the study showed significant difference (P<0.05) between different extraction methods in relation to optical density OD 260/280 nm and DNA yield from each method. The Dellaporta method (OD260/280=2±0.07nm and DNA yield 2073±196 ng) gave the best results. The positions of different leafs (from top to bottom leaf number 4 to 1) and the ages of leafs (2, 4, 6 and 8 weeks) were also monitored for optimum DNA extraction. The results of the Duncan test showed that there was no significant difference (P>0.05) between leaf positions for 2 to 4 weeks old leaf. However, the age of leaves in young and fresh stages of tissue showed significant difference (P<0.05) in ratio of OD260/280 2±0.03 and DNA yield (1373±70 ng). The results (based on method of extraction, leaf age and position) were used for subsequent DNA extraction of the 26 rice cultivars. The second part consisted of molecular work using twenty one microsatellite primer pairs which were selected from the Gene Bank. The estimation of genetic diversity among two rice groups (Iranian and Malaysian cultivars) were done with the assistance of two softwares UVIdoc (ver.98) and POPGENE (ver.1.31). A total of 21 loci (75 alleles) were observed, of which 20 loci (95.24 %) were polymorphic, except RM338. Microsatellite loci RM1 and RM271 showed the highest polymorphism (between 94 to 136 bp in size). The Polymorphism Information Content (PIC) value was (0.578±0.170). The dendogram constructed based on genetic distance values (UPGMA) grouped the cultivars into five clusters. All of the Iranian rice cultivars were placed in cluster I and III while Malaysian rice cultivars were in clusters IV and V. However cluster II consisted of both Iranian and Malaysian rice cultivars. The results of genetic diversity among selected cultivars in this study can be used for screening of the high grain quality rice accession for backcrossing and breeding programs. Microsatellites (Genetics) Rice - Breeding Rice - Malaysia 2009-11 Thesis http://psasir.upm.edu.my/id/eprint/9827/ http://psasir.upm.edu.my/id/eprint/9827/1/FBSB_2009_33_A.pdf application/pdf en public masters Universiti Putra Malaysia Microsatellites (Genetics) Rice - Breeding Rice - Malaysia Faculty Biotechnology and Biomolecular Sciences English
institution	Universiti Putra Malaysia
collection	PSAS Institutional Repository
language	English English
topic	Microsatellites (Genetics) Rice - Breeding Rice - Malaysia
spellingShingle	Microsatellites (Genetics) Rice - Breeding Rice - Malaysia Etemad, Ali Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding
description	Rice is grown in diverse environmental conditions. In this study, genetic variation among thirteen Iranian and thirteen Malaysian rice cultivars was determined using Microsatellite markers. Microsatellites are polymerase chain reaction (PCR) based and dbla ceelcuoobeoy xoed (DNA) markers which are abundant, co-dominant and widely used in various organisms. This study consisted of two parts, the first part was DNA extraction, which consisted of comparing between four different DNA extraction methods, namely the Dellaporta and CTAB as conventional methods also, Promega and Axyprep as commercial protocols kits. Comparison was also made on the effect of different leaf age as well as leaf position on different quality and yield of DNA obtained. The results of the study showed significant difference (P<0.05) between different extraction methods in relation to optical density OD 260/280 nm and DNA yield from each method. The Dellaporta method (OD260/280=2±0.07nm and DNA yield 2073±196 ng) gave the best results. The positions of different leafs (from top to bottom leaf number 4 to 1) and the ages of leafs (2, 4, 6 and 8 weeks) were also monitored for optimum DNA extraction. The results of the Duncan test showed that there was no significant difference (P>0.05) between leaf positions for 2 to 4 weeks old leaf. However, the age of leaves in young and fresh stages of tissue showed significant difference (P<0.05) in ratio of OD260/280 2±0.03 and DNA yield (1373±70 ng). The results (based on method of extraction, leaf age and position) were used for subsequent DNA extraction of the 26 rice cultivars. The second part consisted of molecular work using twenty one microsatellite primer pairs which were selected from the Gene Bank. The estimation of genetic diversity among two rice groups (Iranian and Malaysian cultivars) were done with the assistance of two softwares UVIdoc (ver.98) and POPGENE (ver.1.31). A total of 21 loci (75 alleles) were observed, of which 20 loci (95.24 %) were polymorphic, except RM338. Microsatellite loci RM1 and RM271 showed the highest polymorphism (between 94 to 136 bp in size). The Polymorphism Information Content (PIC) value was (0.578±0.170). The dendogram constructed based on genetic distance values (UPGMA) grouped the cultivars into five clusters. All of the Iranian rice cultivars were placed in cluster I and III while Malaysian rice cultivars were in clusters IV and V. However cluster II consisted of both Iranian and Malaysian rice cultivars. The results of genetic diversity among selected cultivars in this study can be used for screening of the high grain quality rice accession for backcrossing and breeding programs.
format	Thesis
qualification_level	Master's degree
author	Etemad, Ali
author_facet	Etemad, Ali
author_sort	Etemad, Ali
title	Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding
title_short	Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding
title_full	Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding
title_fullStr	Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding
title_full_unstemmed	Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding
title_sort	determination of genetic relatedness among selected rice cultivars using microsatellite markers for cultivars improvement through marker assisted breeding
granting_institution	Universiti Putra Malaysia
granting_department	Faculty Biotechnology and Biomolecular Sciences
publishDate	2009
url	http://psasir.upm.edu.my/id/eprint/9827/1/FBSB_2009_33_A.pdf
_version_	1747811004075474944

Determination of Genetic Relatedness among Selected Rice Cultivars Using Microsatellite Markers for Cultivars Improvement through Marker Assisted Breeding

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