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Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population

Segregation distortion analysis in plant breeding is highly important because deviation factors are occasionally serious barriers for introgression of genes of interest into cultivated species. Also, the identification of major QTLs by high linkage disequilibrium is highly useful for breeders in ord...

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Main Authors: Hashemi, Farahnaz Sadat Golestan, Yusop, Mohd Rafii, Ismail, Mohd Razi, Tengku Muda Mohamed, Mahmud, Abdul Rahim, Harun, Latif, Mohammad Abdul, Aslani, Farzad
Format: Article
Language:English
Published: Springer 2015
Online Access:http://psasir.upm.edu.my/id/eprint/36826/1/Comparative%20mapping%20and%20discovery%20of%20segregation%20distortion%20and%20linkage%20disequilibrium%20across%20the%20known%20fragrance%20chromosomal%20regions%20in%20a%20rice%20F2%20population.pdf
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spelling oai:psasir.upm.edu.my:36826 http://psasir.upm.edu.my/id/eprint/36826/ Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population Hashemi, Farahnaz Sadat Golestan Yusop, Mohd Rafii Ismail, Mohd Razi Tengku Muda Mohamed, Mahmud Abdul Rahim, Harun Latif, Mohammad Abdul Aslani, Farzad Segregation distortion analysis in plant breeding is highly important because deviation factors are occasionally serious barriers for introgression of genes of interest into cultivated species. Also, the identification of major QTLs by high linkage disequilibrium is highly useful for breeders in order for crop improvement programs and the further fine mapping of particular genes. Consequently, simultaneous consideration of segregation distortion and linkage disequilibrium leads to developing fertile hybrids and normal inheritance of agronomically favorable genes. Hence, the goal of this study was to investigate genomic regions known to contain fragrance quantitative trait loci (QTLs) in terms of segregation distortion and linkage disequilibrium pattern, and to seek for a possible relationship between them using codominant markers on chromosomes 3, 4, and 8 in a set containing 189 F2 progenies. For the first time, we discovered the presence and extent of segregation distortion and linkage disequilibrium across the fragrance chromosomal areas of rice. The high frequency of skewed allelic segregations in the chromosomes 3 and 4 supports reports of possible gametic selection (ga) and hybrid sterility (S) genes. Finally, the highest linkage disequilibrium values, the lowest recombination frequency, and the shortest distances were observed in the chromosomal regions without segregation distortion. High linkage disequilibrium correlations between markers at short distances may show that such markers can maintain high linkage disequilibrium with linked QTLs and are influential for both MAS and QTL mapping analysis. Moreover, an indirect relationship between segregation distortion and linkage disequilibrium was detected, and thus linkage disequilibrium maps were introduced as useful diagnostic tools for segregation distortion. Springer 2015 Article PeerReviewed application/pdf en http://psasir.upm.edu.my/id/eprint/36826/1/Comparative%20mapping%20and%20discovery%20of%20segregation%20distortion%20and%20linkage%20disequilibrium%20across%20the%20known%20fragrance%20chromosomal%20regions%20in%20a%20rice%20F2%20population.pdf Hashemi, Farahnaz Sadat Golestan and Yusop, Mohd Rafii and Ismail, Mohd Razi and Tengku Muda Mohamed, Mahmud and Abdul Rahim, Harun and Latif, Mohammad Abdul and Aslani, Farzad (2015) Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population. Euphytica, 204 (3). pp. 557-569. ISSN 0014-2336; ESSN: 1573-5060 http://link.springer.com/article/10.1007%2Fs10681-014-1322-y 10.1007/s10681-014-1322-y
institution UPM IR
collection UPM IR
language English
description Segregation distortion analysis in plant breeding is highly important because deviation factors are occasionally serious barriers for introgression of genes of interest into cultivated species. Also, the identification of major QTLs by high linkage disequilibrium is highly useful for breeders in order for crop improvement programs and the further fine mapping of particular genes. Consequently, simultaneous consideration of segregation distortion and linkage disequilibrium leads to developing fertile hybrids and normal inheritance of agronomically favorable genes. Hence, the goal of this study was to investigate genomic regions known to contain fragrance quantitative trait loci (QTLs) in terms of segregation distortion and linkage disequilibrium pattern, and to seek for a possible relationship between them using codominant markers on chromosomes 3, 4, and 8 in a set containing 189 F2 progenies. For the first time, we discovered the presence and extent of segregation distortion and linkage disequilibrium across the fragrance chromosomal areas of rice. The high frequency of skewed allelic segregations in the chromosomes 3 and 4 supports reports of possible gametic selection (ga) and hybrid sterility (S) genes. Finally, the highest linkage disequilibrium values, the lowest recombination frequency, and the shortest distances were observed in the chromosomal regions without segregation distortion. High linkage disequilibrium correlations between markers at short distances may show that such markers can maintain high linkage disequilibrium with linked QTLs and are influential for both MAS and QTL mapping analysis. Moreover, an indirect relationship between segregation distortion and linkage disequilibrium was detected, and thus linkage disequilibrium maps were introduced as useful diagnostic tools for segregation distortion.
format Article
author Hashemi, Farahnaz Sadat Golestan
Yusop, Mohd Rafii
Ismail, Mohd Razi
Tengku Muda Mohamed, Mahmud
Abdul Rahim, Harun
Latif, Mohammad Abdul
Aslani, Farzad
spellingShingle Hashemi, Farahnaz Sadat Golestan
Yusop, Mohd Rafii
Ismail, Mohd Razi
Tengku Muda Mohamed, Mahmud
Abdul Rahim, Harun
Latif, Mohammad Abdul
Aslani, Farzad
Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population
author_facet Hashemi, Farahnaz Sadat Golestan
Yusop, Mohd Rafii
Ismail, Mohd Razi
Tengku Muda Mohamed, Mahmud
Abdul Rahim, Harun
Latif, Mohammad Abdul
Aslani, Farzad
author_sort Hashemi, Farahnaz Sadat Golestan
title Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population
title_short Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population
title_full Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population
title_fullStr Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population
title_full_unstemmed Comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice F2 population
title_sort comparative mapping and discovery of segregation distortion and linkage disequilibrium across the known fragrance chromosomal regions in a rice f2 population
publisher Springer
publishDate 2015
url http://psasir.upm.edu.my/id/eprint/36826/1/Comparative%20mapping%20and%20discovery%20of%20segregation%20distortion%20and%20linkage%20disequilibrium%20across%20the%20known%20fragrance%20chromosomal%20regions%20in%20a%20rice%20F2%20population.pdf
_version_ 1819295920869605376
score 13.4562235

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