Genetic effects of major QTLs controlling low-temperature germinability in different genetic backgrounds in rice (Oryza sativa L.)

Genome ◽  
2010 ◽  
Vol 53 (10) ◽  
pp. 763-768 ◽  
Author(s):  
Natsuko Iwata ◽  
Kenji Fujino
Keyword(s):  
Low Temperature ◽  
Epistatic Interaction ◽  
Oryza Sativa L ◽  
Genetic Effect ◽  
Substitution Lines ◽  
Breeding Programs ◽  
Chromosome Segment Substitution Lines ◽  
Major Qtls ◽  
The Difference ◽  
Segment Substitution

The effects of QTLs are demonstrated basically within the population used in the original QTL analysis as the difference between the alleles of the parental varieties. For the efficient use of QTLs in breeding programs, it is necessary to assess whether the QTL exhibits its genetic effect when it is introgressed into different genetic backgrounds. Extensive studies of tolerance to low temperature at the seed germination stage (called low-temperature germinability) in rice revealed that 2 major QTLs on chromosomes 3 and 11, qLTG3-1 and qLTG11, have large effects. This study assessed the effects of these 2 QTLs from an aus variety, Kasalath, in different genetic backgrounds of 3 japonica varieties, Hoshinoyume, Hayamasari, and Koshihikari. Backcrossed progenies and chromosome segment substitution lines showed that both qLTG3-1 and qLTG11 were effective in the Hoshinoyume and Koshihikari backgrounds, while only qLTG3-1 was effective in the Hayamasari background. The results in this study demonstrated that these 2 QTLs are useful for the improvement of low-temperature germinability in rice breeding programs. The results also indicated that low-temperature germinability in rice is governed by an epistatic interaction of qLTG11.

scholarly journals Genetic Dissection of Seed Dormancy using Chromosome Segment Substitution Lines in Rice (Oryza sativa L.)

2020 ◽  
Vol 21 (4) ◽  
pp. 1344 ◽  
Author(s):  
Shaowen Yuan ◽  
Yuntong Wang ◽  
Chaopu Zhang ◽  
Hanzi He ◽  
Sibin Yu
Keyword(s):  
Seed Dormancy ◽  
Genetic Architecture ◽  
Oryza Sativa L ◽  
Expression Profiles ◽  
Chromosome Segment ◽  
Isogenic Line ◽  
Substitution Lines ◽  
Chromosome Segment Substitution Lines ◽  
Segment Substitution ◽  
Seed Dormancy And Germination

Timing of germination determines whether a new plant life cycle can be initiated; therefore, appropriate dormancy and rapid germination under diverse environmental conditions are the most important features for a seed. However, the genetic architecture of seed dormancy and germination behavior remains largely elusive. In the present study, a linkage analysis for seed dormancy and germination behavior was conducted using a set of 146 chromosome segment substitution lines (CSSLs), of which each carries a single or a few chromosomal segments of Nipponbare (NIP) in the background of Zhenshan 97 (ZS97). A total of 36 quantitative trait loci (QTLs) for six germination parameters were identified. Among them, qDOM3.1 was validated as a major QTL for seed dormancy in a segregation population derived from the qDOM3.1 near-isogenic line, and further delimited into a genomic region of 90 kb on chromosome 3. Based on genetic analysis and gene expression profiles, the candidate genes were restricted to eight genes, of which four were responsive to the addition of abscisic acid (ABA). Among them, LOC_Os03g01540 was involved in the ABA signaling pathway to regulate seed dormancy. The results will facilitate cloning the major QTLs and understanding the genetic architecture for seed dormancy and germination in rice and other crops.

scholarly journals Genetic effects of F1 pollen sterility genes S-b, S-d and S-e in rice (Oryza sativa L.)

2019 ◽  
Vol 55 (No. 2) ◽  
pp. 55-60
Author(s):  
Mingsong Jiang ◽  
Jiandi Xu ◽  
Feng Chen ◽  
Wenyin Zhu
Keyword(s):  
Target Genes ◽  
Oryza Sativa L ◽  
Genetic Effect ◽  
Pollen Sterility ◽  
Experimental Population ◽  
Substitution Lines ◽  
Japonica Variety ◽  
Chromosome Segment Substitution Lines ◽  
Selection For ◽  
Sterility Genes

An experimental population commonly used in genetic analyses of gene or quantitative trait loci (QTLs) in rice is chromosome segment substitution lines (CSSLs). In the present study, with the typical indica variety Guangluai 4 as a donor and japonica variety Taichung 65 as a recipient, seven CSSLs carrying F<sub>1 </sub>pollen sterility genes S-b, S-d, S-e, S-b/S-d, S-b/S-e, S-d/S-e, and S-b/S-d/S-e were obtained by specific selection for the target genes, non-specific selection for the genome of the recurrent parents in four backcross populations (BC<sub>1</sub>F<sub>2</sub>, BC<sub>2</sub>F<sub>2</sub>, BC<sub>3</sub>F<sub>2</sub> and BC<sub>3</sub>F<sub>3</sub>). We evaluated the genetic effect of the F<sub>1</sub> pollen sterility genes using 35 F<sub>1 </sub>hybrid individuals in crosses derived from CSSLs and Taichung 65. Pollen fertility of F<sub>1</sub> hybrid plants was observed and the results indicated that the single genes S-b, S-d and S-e can cause 67.7%, 14.6% and 53.2% of pollen sterility, respectively. Multiple genes S-b/S-d, S-b/S-e, S-d/S-e, and S-b/S-d/S-e can cause 76.6%, 85%, 68.7%, and 93% of pollen sterility, respectively.  

Salt-responsive mechanisms in chromosome segment substitution lines of rice (Oryza sativa L. cv. KDML105)

2016 ◽  
Vol 103 ◽  
pp. 96-105 ◽  
Author(s):  
Noppawan Nounjan ◽  
Jonaliza L. Siangliw ◽  
Theerayut Toojinda ◽  
Supachitra Chadchawan ◽  
Piyada Theerakulpisut
Keyword(s):  
Oryza Sativa ◽  
Oryza Sativa L ◽  
Chromosome Segment ◽  
Substitution Lines ◽  
Chromosome Segment Substitution Lines ◽  
Segment Substitution

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.

Identification of two stably expressed QTLs for fat content in rice (Oryza sativa)

Genome ◽  
2012 ◽  
Vol 55 (8) ◽  
pp. 585-590 ◽  
Author(s):  
Yingyue Shen ◽  
Wenwei Zhang ◽  
Xi Liu ◽  
Liangming Chen ◽  
Shijia Liu ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Grain Quality ◽  
Oryza Sativa L ◽  
Fat Content ◽  
Marker Assisted Breeding ◽  
Substitution Lines ◽  
Chromosome Segment Substitution Lines ◽  
Backcross Inbred Lines ◽  
Segment Substitution

Fat content (FC) is an important component of the nutritional quality of the rice ( Oryza sativa L.) grain and a partial determinant of grain quality. Three FC QTLs were identified from an analysis of a set of rice ‘Kasalath’/‘Koshihikari’ backcross inbred lines, which were grown in three independent environments. Two of these QTLs (qFC7.1 and qFC7.2) were located on chromosome 7, and they were detected in all three environments. The presence of qFC7.1 and qFC7.2 was further confirmed by testing a set of ‘Kasalath’ (donor) / ‘Koshihikari’ (recipient) chromosome segment substitution lines (CSSLs) across six environments. Both QTLs significantly increased grain FC and they might be involved in lipid metabolism. The two QTLs were stably expressed in a number of environments and populations, making them suitable candidates for the improvement of FC via marker assisted breeding.

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