Identification of stably expressed quantitative trait loci for cooked rice elongation in non-Basmati varieties

Liu, L L; Yan, Xin; Jiang, Ling; Zhang, W W; Wang, M Q; Zhou, Shirong; Shen, Yingyue; Liu, S J; Chen, L M; Wang, J K; Wan, Jianmin

doi:10.1139/g07-106

Cited by 13 publications

(6 citation statements)

References 31 publications

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“…Overall, identified QTLs in this population covered 38.45 and 95.36% of phenotypic variation for grain yield, respectively in the first year and second years. Previous studies reported presence of gene locus controlling yield on chromosome 3 (GUO et al, 2007), chromosome 7 (LIU et al, 2008ZHOU et al, 2009), and chromosome 8 (LIU et al, 2008, FU et al, 2010. As shown, few QTLs have been mapped for this trait.…”

Section: Table 4 Correlation Coefficients Of Evaluated Traits Of 2 Smentioning

confidence: 88%

“…In rice, presence of QTLs simultaneously influencing different traits has been reported. FAN et al (2006), WAN et al (2008), TRAORE et al (2011) and EBADI et al (2013) identified clusters of genes in which a single mechanism controls multiple traits. Gene clusters in population were identified for different traits on chromosomes 1 and 12 (Tables g and h).…”

Section: Table 4 Correlation Coefficients Of Evaluated Traits Of 2 Smentioning

confidence: 99%

“…Rice directly provides food to more than 3 billion people or half of the world's population, mostly living in Asian and developing countries. Regarding relatively small rice genome compared to other cereals, this plant has been used as a model plant for monocot plants in many biological and basic studies (LIU et al, 2008).…”

Section: Introductionmentioning

confidence: 99%

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Qtl mapping of some morphological traits of rice in a RILS population derived from Hashemi and modified Nemat varieties hybrid

et al. 2020

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In this study, QTLs controlling traits related to crop and grain yield were mapped using 140 recombinant inbred lines (F9 and F10) along with 4 control genotypes in anaugment experiment based on a randomized complete block design in 2consecutive years. Population linkage map was consisted of 170 SSR3 / 2132 centimorgan (cM) markers of rice genome, and mean distance between adjacent markers was equal to 12.47 centimorgan (cM). Composite Interval Mapping analysis was done for studying number of days to flowering in the first year, a QTL was identified on chromosome 3 and in the second year, three QTLs were identified on chromosomes 2, 3, and 7, which were common on chromosome 3 in both years. Regarding plant height in the first and second years, a QTL was mapped on chromosome 1, which was similar in both years. In terms of number of tillers in the first year, four QTLs were identified on chromosomes 4 and 12 and in the second year two QTLs were identified on chromosomes 11 and 12, and regarding panicle length in the first year, one QTL was identified on chromosome 6 and in the second year two QTLs were identified on chromosomes 2 and 4, and in terms of flag leaf length in the first year, two QTLs were identified on chromosomes 6 and 7 and in the second year two QTLs were identified on chromosome 7.With respect to flag leaf width in the first year, two QTLs were identified on chromosomes 1and 3, and in the second year, one QTL was identified on chromosome 11, and in relation to Panicle exertion in the first year, three QTLs were identified on chromosomes 1, 2, and 8, and in the second year, two QTLs were identified on chromosomes 1 and 2.In regard to yield in the first year, one QTL was identified on chromosome 2 and in the second year, two QTLs were identified on chromosome 2. Also, clusters of genes were identified by Interval Mapping in the population with respect to different traits on chromosomes 1 (two cases) and 12 (one case).

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Section: Table 4 Correlation Coefficients Of Evaluated Traits Of 2 Smentioning

confidence: 88%

Section: Table 4 Correlation Coefficients Of Evaluated Traits Of 2 Smentioning

confidence: 99%

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Qtl mapping of some morphological traits of rice in a RILS population derived from Hashemi and modified Nemat varieties hybrid

et al. 2020

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“…Linear elongation ratio is an important cooking quality trait and we identified an associations for LER on chromosomes 9. A QTL for LER was reported on chromosome 4 with the marker interval of C933 to C946 using RIL population of indica x indica hybrids 80 .…”

Section: Discussionmentioning

confidence: 99%

Superior haplotypes towards development of low glycemic index rice with preferred grain and cooking quality

Selvaraj

Singh

et al. 2021

Sci Rep

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Increasing trends in the occurrence of diabetes underline the need to develop low glycemic index (GI) rice with preferred grain quality. In the current study, a diverse set of 3 K sub-panel of rice consisting of 150 accessions was evaluated for resistant starch and predicted glycemic index, including nine other quality traits under transplanted situation. Significant variations were noticed among the accessions for the traits evaluated. Trait associations had shown that amylose content possess significant positive and negative association with resistant starch and predicted glycemic index. Genome-wide association studies with 500 K SNPs based on MLM model resulted in a total of 41 marker-trait associations (MTAs), which were further confirmed and validated with mrMLM multi-locus model. We have also determined the allelic effect of identified MTAs for 11 targeted traits and found favorable SNPs for 8 traits. A total of 11 genes were selected for haplo-pheno analysis to identify the superior haplotypes for the target traits where haplotypes ranges from 2 (Os10g0469000-GC) to 15 (Os06g18720-AC). Superior haplotypes for RS and PGI, the candidate gene Os06g11100 (H4-3.28% for high RS) and Os08g12590 (H13-62.52 as intermediate PGI). The identified superior donors possessing superior haplotype combinations may be utilized in Haplotype-based breeding to developing next-generation tailor-made high quality healthier rice varieties suiting consumer preference and market demand.

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“…Several studies reported QTLs for GE performed across different genetic backgrounds, including the three QTLs on chromosome 2, 6 and 11 2 ; a QTL on chromosome 3 8 ; a QTL on chromosome 8 9 and four QTLs on chromosome 3, 6, 7, and 8 10 . In addition, three QTLs on chromosome 2, 4, and 12 were also identified in non-Basmati varieties 11 . Despite these mapping efforts, only limited information is available on the possible genes and genetic control of GE.…”

Section: Introductionmentioning

confidence: 93%

QTL-seq identifies cooked grain elongation QTLs near soluble starch synthase and starch branching enzymes in rice (Oryza sativa L.)

Arikit

Wanchana

Khanthong

et al. 2019

Sci Rep

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Grain quality is one of the main targets that rice breeders focus on to improve elite rice varieties. Several characteristics are considered when determine rice grain quality, such as aroma, amylose content (AC), gelatinization temperature (GT) and, especially, lengthwise grain elongation (GE). GE is a desirable feature in premium rice of high quality, such as India and Pakistan’ Basmati. Inheritance of GE in rice has not been clearly elucidated due to its complex and inconsistent pattern. In this study, we identified QTLs for GE in rice using bulk-segregant analysis (BSA) and whole-genome sequencing based on an F 2 population segregated for GE as well as AC and GT. We identified two QTLs on chromosome 6, qGE6.1 and qGE6.2 , and another QTL on chromosome 4, qGE4.1 . qGE6.1 and qGE6.2 were located near starch synthase IIa ( SSIIa) and starch branching enzyme III (SBEIII) , respectively, and qGE4.1 was located near starch branching enzyme IIa ( SBEIIa ). qGE6.1 was considered to be the major QTL for GE based on this population, and SSIIa was suggested to be the best candidate gene associated with the GE trait. The results of this study may be useful for breeding rice with increased grain elongation and different starch properties.

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Identification of stably expressed quantitative trait loci for cooked rice elongation in non-Basmati varieties

Cited by 13 publications

References 31 publications

Qtl mapping of some morphological traits of rice in a RILS population derived from Hashemi and modified Nemat varieties hybrid

Qtl mapping of some morphological traits of rice in a RILS population derived from Hashemi and modified Nemat varieties hybrid

Superior haplotypes towards development of low glycemic index rice with preferred grain and cooking quality

QTL-seq identifies cooked grain elongation QTLs near soluble starch synthase and starch branching enzymes in rice (Oryza sativa L.)

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