GL3.3, a Novel QTL Encoding a GSK3/SHAGGY-like Kinase, Epistatically Interacts with GS3 to Produce Extra-long Grains in Rice

Xia, Duo; Zhou, Hao; Liu, Rongjia; Dan, Wenhan; Li, Pingbo; Wu, Bian; Chen, Junxiao; Wang, Lingqiang; Gao, Guanjun; Zhang, Qinglu; He, Yuqing

doi:10.1016/j.molp.2018.03.006

Cited by 123 publications

(75 citation statements)

References 7 publications

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“…However, the difference of GL between the two NILs in Yu et al (2018) was almost twice that between our NILs, while the difference of GT was the same [7]. An appropriate explanation is that another gene for GL in the Nipponbare background may interact with OsMADS1 to amplify the difference in the NILs, as reported by Xia et al (2018) [9]. Therefore, qGS3 is likely to be OsMADS1 .…”

Section: Discussionsupporting

confidence: 47%

Dissection and validation of minor quantitative trait loci (QTLs) conferring grain size and weight in rice

Sun

Zheng

et al. 2019

Preprint

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Grain size and weight contribute greatly to the grain yield of rice. In order to identify minor QTLs conferring grain size and weight, an F2 population derived from a cross between two indica rice lines showing small difference on grain size, Guangzhan 63-4S (GZ63-4S) and Dodda, and its derived F2:3 population were developed and used for QTL analysis. Totally, 36 QTLs for grain size and weight were detected, and 7 were repeatedly detected, of which the number of beneficial alleles was contributed roughly equally by the two parents. In order to further validate effects of QTLs detected, a BC1F2 population derived from a backcross of a mixture of F2 lines with GZ63-4S was developed and subjected to QTL selection. Heterozygous regions of 3 QTLs, qGS3, qTGW6.2 and qGT7 were identified, and corresponding near-isogenic lines (NILs) of each QTL were constructed with three rounds of self-crosses. In the background of NILs, qGS3 was responsible for GL, LWR, GT and TGW, qTGW6.2 was for GL and TGW, and qGT7 was for GT and TGW. These results have laid the foundation of further fine mapping and cloning of underlying genes, and could be of great use in breeding and improvement of rice lines with desirable size and yield.

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Section: Discussionsupporting

confidence: 47%

Dissection and validation of minor quantitative trait loci (QTLs) conferring grain size and weight in rice

Sun

Zheng

et al. 2019

Preprint

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“…For many crops, seed size is an important target of selection during domestication (Xia et al, 2018). The seeds of wild plants of modern crops are usually small and roundish in shape, while the domesticated ones in general are much larger.…”

Section: Introductionmentioning

confidence: 99%

Quantitative Trait Loci for Seed Size Variation in Cucurbits – A Review

et al. 2020

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Cucurbits (Cucurbitaceae family) include many economically important fruit vegetable crops such as watermelon, pumpkin/squash, cucumber, and melon. Seed size (SS) is an important trait in cucurbits breeding, which is controlled by quantitative trait loci (QTL). Recent advances have deciphered several signaling pathways underlying seed size variation in model plants such as Arabidopsis and rice, but little is known on the genetic basis of SS variation in cucurbits. Here we conducted literature review on seed size QTL identified in watermelon, pumpkin/squash, cucumber and melon, and inferred 14, 9 and 13 consensus SS QTL based on their physical positions in respective draft genomes. Among them, four from watermelon (ClSS2.2, ClSS6.1, ClSS6.2, and ClSS8.2), two from cucumber (CsSS4.1 and CsSS5.1), and one from melon (CmSS11.1) were majoreffect, stable QTL for seed size and weight. Whole genome sequence alignment revealed that these major-effect QTL were located in syntenic regions across different genomes suggesting possible structural and functional conservation of some important genes for seed size control in cucurbit crops. Annotation of genes in the four watermelon consensus SS QTL regions identified genes that are known to play important roles in seed size control including members of the zinc finger protein and the E3 ubiquitinprotein ligase families. The present work highlights the utility of comparative analysis in understanding the genetic basis of seed size variation, which may help future mapping and cloning of seed size QTL in cucurbits.

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“…So far, 16 QTLs for these traits with large effects were cloned using diverse mapping populations. Among these, ten genes regulate grain weight by mainly affected grain length, including GS2/ GL2, OsLG3, OsLG3b, GS3, GL3.1/qGL3, qTGW3/ TGW3/GL3.3, TGW6, GW6a, GL6, and GLW7 (Fan et al, 2006;Qi et al, 2012;Zhang et al, 2012;Ishimaru et al, 2013;Hu et al, 2015;Song et al, 2015;Che et al, 2016;Si et al 2016;Yu et al, 2017;Hu et al, 2018;Xia et al, 2018;Ying et al, 2018;Yu et al, 2018;. Other four genes regulate grain weight by primarily influencing grain width, including GW2, GS5, GSE5 and GW8 (Song et al, 2007;Li et al, 2011;Wang et al, 2012;Duan et al, 2017).…”

Section: Manuscript To Be Reviewedmentioning

confidence: 99%

Peer Review #2 of "Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.) (v0.2)"

Hori¹

2020

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Background. Grain weight is a grain yield component, which is an integrated index of grain length, width and thickness. They are controlled by a large number of quantitative trait loci (QTLs). Besides major QTLs, minor QTLs play an essential role. In our previously studies, QTL analysis for grain length and width was performed using a recombinant inbred line population derived from rice cross TQ/IRBB lines. Two major QTLs were detected, which were located in proximity to GS3 and G W5 that have been cloned. In the present study, QTLs for grain weight and shape were identified using rice populations that were homozygous at GS3 and GW5. Method. Nine populations derived from the indica rice cross TQ/IRBB52 were used. An F 10:11 population named W1, consisting of 250 families and covering 16 segregating regions, was developed from one residual heterozygote (RH) in the F 7 generation of Teqing/IRBB52. Three near isogenic line (NIL)-F 2 populations, ZH1, ZH2 and ZH3 that comprised 205, 239 and 234 plants, respectively, were derived from three RHs in F 10:11. They segregated the target QTL region in an isogenic background. Two NIL populations, HY2 and HY3, were respectively produced from homozygous progeny of the ZH2 and ZH3 populations. Three other NIL-F 2 populations, Z1, Z2 and Z3, were established using three RHs having smaller heterozygous segments. QTL analysis for 1000-grain weight (TGW), grain length (GL), grain width (GW), and length/width ratio (LWR) was conducted using QTL IciMapping and SAS procedure with GLM model. Result. A total of 27 QTLs distributed on 12 chromosomes were identified. One QTL cluster, qTGW2/qGL2/qGW2 located in the terminal region of chromosome 2, were selected for further analysis. Two linked QTLs were separated in region Tw31911 − RM266. qGL2 was located in Tw31911−Tw32437 and mainly controlled GL and GW. The effects were larger on GL than on GW and the allelic directions were opposite. qTGW2 was located in Tw35293−RM266 and affected TGW, GL and GW with the same allelic direction. Finally, qTGW2 was

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GL3.3, a Novel QTL Encoding a GSK3/SHAGGY-like Kinase, Epistatically Interacts with GS3 to Produce Extra-long Grains in Rice

Cited by 123 publications

References 7 publications

Dissection and validation of minor quantitative trait loci (QTLs) conferring grain size and weight in rice

Dissection and validation of minor quantitative trait loci (QTLs) conferring grain size and weight in rice

Quantitative Trait Loci for Seed Size Variation in Cucurbits – A Review

Peer Review #2 of "Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.) (v0.2)"

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