scholarly journals QTL analysis based on a long-grain CSSL-Z1392 and SSSLs and fine mapping of qGL6

2020 ◽  
Author(s):  
Fangming Zhao ◽  
Ting Zhang ◽  
Shiming Wang ◽  
Shuangfei Sun ◽  
Yi Zhang ◽  
...  
Keyword(s):  
Candidate Gene ◽  
Epistatic Interaction ◽  
Grain Shape ◽  
Chromosome 6 ◽  
Substitution Lines ◽  
Grain Length ◽  
Major Qtls ◽  
Single Segment ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

Abstract Background: Grain shape affects not only rice yield but is also an important element in quality of appearance. However, the mechanism for inheritance of grain shape is unclear. Results: A rice chromosome segment substitution line Z1392, which harbors three substitution segments and produces grains of increased length, was identified. The three chromosome segments were located on chromosomes 1, 5, and 6, and the average length of the substitution segment was 4.29 Mb. Cytological analysis indicates that the predominant cause of increased grain length in Z1392 could be cell expansion in the glumes. 18 quantitative trait loci (QTLs) for important agronomic traits were identified. The inheritance of grain length in Z1392 was controlled by two major QTLs, qGL-5 and qGL-6 . Finally, the qGL-6 was narrowed to a 1.26 Mb region on chromosome 6, and OsARF19 may be the candidate gene of qGL-6 . Based on QTL mapping, three single-segment substitution lines (S1, S2, and S3) and two double-segment substitution lines (D1 and D2) were selected, and the mapping accuracy for qGL-5 and qGL-6 was further verified using the three single-segment substitution lines. Analysis of QTL additive and epistatic effects revealed that the additive effect of alleles qGL5 and qGL6 from ‘Xihui 18’ was estimated to increase grain length of Z1392 by 0.22 and 0.15 mm, respectively. In addition, a positive epistatic interaction between qGL-5 and qGL-6 was detected, which indicates that the pyramiding of qGL-5 and qGL-6 for grain length produces a novel genotype with longer grains. Conclusions: Inheritance of grain length in the triple-segment substitution line Z1392 is controlled by two major QTLs, qGL-5 and qGL-6 , qGL-6 was narrowed to a 1.26 Mb region on chromosome 6, OsARF19 may be the candidate gene of qGL-6 . And a positive epistatic interaction between qGL-5 and qGL-6 results in longer grains. The present results could be used to facilitate cloning of the qGL-5 and qGL-6 genes and contribute to improvement in grain yield in rice.

scholarly journals Analysis of QTL for Grain Size in a Rice Chromosome Segment Substitution Line Z1392 with Long Grains and Fine Mapping of qGL-6

Rice ◽  
2020 ◽  
Vol 13 (1) ◽  
Author(s):  
Ting Zhang ◽  
Shiming Wang ◽  
Shuangfei Sun ◽  
Yi Zhang ◽  
Juan Li ◽  
...  
Keyword(s):  
Grain Size ◽  
Epistatic Interaction ◽  
Rice Chromosome ◽  
Substitution Line ◽  
Chromosome 6 ◽  
Chromosome Segment Substitution Line ◽  
Substitution Lines ◽  
Grain Length ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

Abstract Background Grain size affects not only rice yield but is also an important element in quality of appearance. However, the mechanism for inheritance of grain size is unclear. Results A rice chromosome segment substitution line Z1392, which harbors three substitution segments and produces grains of increased length, was identified. The three chromosome segments were located on chromosomes 1, 5, and 6, and the average length of the substitution segment was 3.17 Mb. Cytological analysis indicates that the predominant cause of increased grain length in Z1392 could be cell expansion in the glumes. Seven quantitative trait loci (QTLs) for grain size related traits were identified using the secondary F2 population produced by Nipponbare/Z1392. The inheritance of grain length in Z1392 was mainly controlled by two major QTLs, qGL-5 and qGL-6. qGL-6 was localized on a 1.26 Mb region on chromosome 6, and OsARF19 may be its candidate gene. Based on QTL mapping, three single-segment substitution lines (S1, S2, and S3) and two double-segment substitution lines (D1 and D2) were selected, and the mapping accuracy for qGL-5 and qGL-6 was further verified using three single-segment substitution lines. Analysis of QTL additive and epistatic effects revealed that the additive effect of alleles qGL-5 and qGL-6 from ‘Xihui 18’ was estimated to increase grain length of Z1392 by 0.22 and 0.15 mm, respectively. In addition, a positive epistatic interaction between qGL-5 and qGL-6 was detected, which indicates that the pyramiding of qGL-5 and qGL-6 for grain length produces a novel genotype with longer grains. Conclusions Inheritance of grain length in the triple-segment substitution line Z1392 is mainly controlled by two major QTLs, qGL-5 and qGL-6. qGL-6 was found to be located in a 1.26 Mb region on chromosome 6, and OsARF19 may be its candidate gene. A positive epistatic interaction between qGL-5 and qGL-6 results in longer grains. The present results can be used to facilitate cloning of the qGL-5 and qGL-6 genes and contribute to improvement of grain yield in rice.

scholarly journals Analysis of QTL for Grain size in a Rice Chromosome Segment Substitution Line Z1392 with Long Grains and Fine Mapping of qGL-6

2020 ◽  
Author(s):  
Ting Zhang ◽  
Shiming Wang ◽  
Shuangfei Sun ◽  
Yi Zhang ◽  
Juan Li ◽  
...  
Keyword(s):  
Grain Size ◽  
Epistatic Interaction ◽  
Rice Chromosome ◽  
Substitution Line ◽  
Chromosome 6 ◽  
Chromosome Segment Substitution Line ◽  
Substitution Lines ◽  
Grain Length ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

Abstract Background: Grain size affects not only rice yield but is also an important element in quality of appearance. However, the mechanism for inheritance of grain size is unclear. Results: A rice chromosome segment substitution line Z1392, which harbors three substitution segments and produces grains of increased length, was identified. The three chromosome segments were located on chromosomes 1, 5, and 6, and the average length of the substitution segment was 3.17 Mb. Cytological analysis indicates that the predominant cause of increased grain length in Z1392 could be cell expansion in the glumes. Seven quantitative trait loci (QTLs) for grain size related traits were identified using the secondary F2 population produced by Nipponbare/Z1392. The inheritance of grain length in Z1392 was mainly controlled by two major QTLs, qGL-5 and qGL-6. qGL-6 was localized on a 1.26 Mb region on chromosome 6, and OsARF19 may be its candidate gene. Based on QTL mapping, three single-segment substitution lines (S1, S2, and S3) and two double-segment substitution lines (D1 and D2) were selected, and the mapping accuracy for qGL-5 and qGL-6 was further verified using three single-segment substitution lines. Analysis of QTL additive and epistatic effects revealed that the additive effect of alleles qGL-5 and qGL-6 from ‘Xihui 18’ was estimated to increase grain length of Z1392 by 0.22 and 0.15 mm, respectively. In addition, a positive epistatic interaction between qGL-5 and qGL-6 was detected, which indicates that the pyramiding of qGL-5 and qGL-6 for grain length produces a novel genotype with longer grains. Conclusions: Inheritance of grain length in the triple-segment substitution line Z1392 is mainly controlled by two major QTLs, qGL-5 and qGL-6. qGL-6 was found to be located in a 1.26 Mb region on chromosome 6, and OsARF19 may be its candidate gene. A positive epistatic interaction between qGL-5 and qGL-6 results in longer grains. The present results can be used to facilitate cloning of the qGL-5 and qGL-6 genes and contribute to improvement of grain yield in rice.

Mapping of QTLs for Grain Shape Using Chromosome Single Segment Substitution Lines in Rice (Oryza sativaL.)

2013 ◽  
Vol 39 (4) ◽  
pp. 617
Author(s):  
Jun WANG ◽  
Jin-Yan ZHU ◽  
Yong ZHOU ◽  
Jie YANG ◽  
Fang-Jun FAN ◽  
...  
Keyword(s):  
Grain Shape ◽  
Substitution Lines ◽  
Single Segment ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

QTL Detection for Rice Grain Shape Using Chromosome Single Segment Substitution Lines

Rice Science ◽  
2011 ◽  
Vol 18 (4) ◽  
pp. 273-278 ◽  
Author(s):  
Sheng-qiang LI ◽  
Guo-kun CUI ◽  
Cheng-ran GUAN ◽  
Jun WANG ◽  
Guo-hua LIANG
Keyword(s):  
Grain Shape ◽  
Rice Grain ◽  
Qtl Detection ◽  
Substitution Lines ◽  
Single Segment ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

Analysis of Epistatic and Additive Effects of QTLs for Grain Shape Using Single Segment Substitution Lines in Rice (Oryza sativa L.)

2011 ◽  
Vol 37 (3) ◽  
pp. 469-476 ◽  
Author(s):  
Fang-Ming ZHAO ◽  
Gui-Quan ZHANG ◽  
Rui-Zhen ZENG ◽  
Zheng-Lin YANG ◽  
Ying-Hua LING ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Grain Shape ◽  
Additive Effects ◽  
Substitution Lines ◽  
Single Segment ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

Dynamic expression of nine QTLs for tiller number detected with single segment substitution lines in rice

2008 ◽  
Vol 118 (3) ◽  
pp. 443-453 ◽  
Author(s):  
Guifu Liu ◽  
Ruizhen Zeng ◽  
Haitao Zhu ◽  
Zemin Zhang ◽  
Xiaohua Ding ◽  
...  
Keyword(s):  
Tiller Number ◽  
Substitution Lines ◽  
Single Segment ◽  
Single Segment Substitution Lines ◽  
Dynamic Expression ◽  
Segment Substitution

Identification, Pyramid and Candidate gene of QTL for Yield-related Traits Based on Rice CSSLs in Indica Xihui18 Background

2021 ◽  
Author(s):  
Shuangfei Sun ◽  
Siqian Xiang ◽  
Meng Lv ◽  
Kai Zhou ◽  
Juan Li ◽  
...  
Keyword(s):  
Candidate Gene ◽  
Candidate Genes ◽  
Target Genes ◽  
Molecular Design ◽  
Mechanism Analysis ◽  
Substitution Lines ◽  
Cell Width ◽  
Analysis And Design ◽  
Single Segment Substitution Lines ◽  
Segment Substitution

Abstract Chromosome segment substitution line (CSSL) in rice is important for functional analysis and design breeding of target genes. Here, a novel rice CSSL-Z431 was identified from indica restorer line Xihui18 as recipient and Huhan3 as donor. Z431 contained six segments from Huhan3, with an average substitution length of 2.12 Mb. Compared with Xihui18, Z431 increased panicles per plant (PN) and displayed short-wide grains. The short-wide grain of Z431 were caused by reducing of cell length and increasing of cell width in the glume. Then, thirteen QTLs were identified in a secondary F2 population derived from Xihui18/Z431. Among them, six QTLs (qPN3, qGL3, qGW5, qRLW2, qRLW3, qGWT-5-2) were validated by four single-segment substitution lines (SSSLs, S1-S4) developed in F3. In addition, thirteen QTLs (qPN1, qPN2, qPL1, qPL2, qGPP1, qGPP2, qGL2, qGW1, qGW2, qGW3, qRLW5-2, qRLW1, qGWT2) were detected by these SSSLs, while not be identified in the F2 population from Xihui18/Z431. Increase of panicles per plant in Z431 was controlled by qPN3, qPN1 and qPN2. OsIAGLU should be the candidate gene for qPN3 by DNA sequencing. The short-wide grain of Z431 was controlled by qGL3, qGL2, qGW5, qGW2 and qGW3. By sequencing between Xihui18 and according SSSL, three candidate genes for qGL3 and two candidate genes for qGW5 were identified, respectively. In addition, pyramid of different QTLs (qPN1and qPN3; qPN2 and qPN3 etc.) yielded different epistatic effects. These results lay good foundation in molecular mechanism analysis of unreported genes and rice molecular design breeding.

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