Volume 12, Issue 35 (10-2020)                   jcb 2020, 12(35): 161-176 | Back to browse issues page

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Rahim-Soroush H, Hosseini Chaleshtori M, Nazarian Firouzabadi F, Esmaeili A, Ebadi A A. Detection of QTLs and their environmental interactions for appearance quality traits using two RIL populations in rice. jcb. 2020; 12 (35) :161-176
URL: http://jcb.sanru.ac.ir/article-1-1106-en.html
Agricultural Research, Education and Extension Organization (AREEO), Rasht, Iran
Abstract:   (205 Views)
Rice grain appearance quality traits (APQ) affect consumer preference and marketing acceptance and long grain rice has many customers on the international markets.In order to identify QTLs controlling grain length, width and length to width ratio (shape) and QTL by environment interactions a study was conducted on two set of recombinant inbred lines (RILs) of two rice populations derived from crosses of Alikazemi / IR67017-180-2-1-2 (ALIR population) and Alikazemi / Saleh (ALSA) cultivars.The treatments of each RIL population with five check varieties were evaluated in augmented based on randomized complete block design with 5 replications in two regions of Rasht and Tonekabon in northern of Iran. Linkage map of the two populations using 87 polymorph microsatellite markers (SSR) covered 1356.0 cM of rice genome with an average distance of 15.58 cM between two markers. In this study, a total of 13 main QTLs (M-QTLs) and 10 pairs of epistatic QTLs (E-QTLs) were identified for three above mentioned traits, including seven M-QTLs and five pairs of E-QTLs for the ALIR population and six M-QTLs and five pairs of E-QTLs for the ALSA population. Two QTLs, qRGL4 (1.1) and qSGL5 (1.01), were increased the grain length with positive additive effect and the highest justified phenotypic variance of 25.2 and 18.4%, respectively. In this study, three QTL clusters were identified for APQ traits. Of these, two clusters were identified on chromosome 3 that was effective in controlling all APQ traits in two populations with alleles from a common Alikazemi parent. The third QTL cluster was determined on chromosome 7 consisting of qGW7 and qGSh7 for grain width and shape in the ALIR population. Therefore it could be stated that the QTLs on each cluster were either tightly linked or had pleiotropic effects with considerable influences in controlling rice APQ traits. A common marker of RM5955 was found in the ALIR population with a genetic distance of about 3.7 centimeters with QTLs of all three traits, and could be considered as a linked marker in breeding program. In this study, ten pairs of E-QTL were identified for three traits including five pairs per population. The epistatic effects in the ALIR population were mostly expressed by significant main QTLs (80%), while they were expressed in the ALSA population more by non-detected main QTLs (60%).The contribution of explained phenotypic variances of M-QTLs in controlling APQ traits were more than epistatic QTLs. QTL by environment interactions revealed that only one main QTL had significant interaction with environment, while no epistatic QTLs with additive × additive effect were found to be interacted with environment. The appropriate QTLs and linked markers in this study can be used in the breeding program to improve the appearance quality of rice grains after fine-mapping and validation.
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Type of Study: Research | Subject: اصلاح نباتات مولكولي
Received: 2020/01/31 | Revised: 2020/11/24 | Accepted: 2020/08/1 | Published: 2020/10/1

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