Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice
Hybrid sterility is the major obstacle to the utilization of inter-subspecific heterosis in hybrid rice breeding. The <i>S5</i> locus, composed of three adjacent genes <i>ORF3</i>, <i>ORF4</i>, and <i>ORF5</i>, plays a crucial role in regulating <i&...
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| Format: | Article |
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MDPI AG
2023-04-01
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| Series: | Agronomy |
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| Online Access: | https://www.mdpi.com/2073-4395/13/4/1094 |
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| author | Jie Guo Xinqiao Zhou Ke Chen Chanjuan Ye Juan Liu Kangli Sun Guang Tang Shaokui Wang Guiquan Zhang Youding Chen Dagang Chen Chuanguang Liu |
| author_facet | Jie Guo Xinqiao Zhou Ke Chen Chanjuan Ye Juan Liu Kangli Sun Guang Tang Shaokui Wang Guiquan Zhang Youding Chen Dagang Chen Chuanguang Liu |
| author_sort | Jie Guo |
| collection | DOAJ |
| description | Hybrid sterility is the major obstacle to the utilization of inter-subspecific heterosis in hybrid rice breeding. The <i>S5</i> locus, composed of three adjacent genes <i>ORF3</i>, <i>ORF4</i>, and <i>ORF5</i>, plays a crucial role in regulating <i>indica</i>/<i>japonica</i> hybrids’ female sterility. Through a series of crosses involving 38 parents, three alleles of <i>S5</i>, <i>ORF3</i>+<i>ORF4</i>−<i>ORF5n</i>, <i>ORF3</i>+<i>ORF4</i>+<i>ORF5n</i>, and <i>ORF3</i>−/<i>ORF4</i>−/<i>ORF5n</i>, all could be regarded as wide-compatibility alleles, and when crossed with <i>indica</i> or <i>japonica</i> rice, they all showed significantly high fertility. Then, in order to explore the genes’ function, we further knocked out genes by using CRISPR/Cas9-based genome editing. Our results demonstrate that the <i>ORF3</i>+ was not just the protector in the killer-protector system, and knocking out <i>ORF3</i> of the <i>indica</i> allele seriously affected the rice’s normal development. We observed the concrete enhancing hybrid spikelet fertility from the crosses between the <i>ORF4+</i> knockout <i>japonica</i> materials with <i>indica</i> varieties. By conducting the comparative RNA-Seq analysis of young spikelets, we found that the <i>ORF4</i>+/<i>ORF4</i>− could modulate the hybrid fertility by affecting the expressions of genes related to the function of the Golgi apparatus. This study indicated that knocking out the <i>ORF4</i>+ of the <i>japonica</i> allele or using the alleles carrying <i>ORF5n</i> would provide effective approaches to overcome <i>indica</i>/<i>japonica</i> hybrid female sterility in rice breeding. |
| first_indexed | 2024-03-11T05:19:59Z |
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| last_indexed | 2024-03-11T05:19:59Z |
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| spelling | doaj.art-7c35828db7104c02813517630caac9152023-11-17T17:57:30ZengMDPI AGAgronomy2073-43952023-04-01134109410.3390/agronomy13041094Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in RiceJie Guo0Xinqiao Zhou1Ke Chen2Chanjuan Ye3Juan Liu4Kangli Sun5Guang Tang6Shaokui Wang7Guiquan Zhang8Youding Chen9Dagang Chen10Chuanguang Liu11Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaGuangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510640, ChinaGuangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510640, ChinaGuangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510640, ChinaGuangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, ChinaHybrid sterility is the major obstacle to the utilization of inter-subspecific heterosis in hybrid rice breeding. The <i>S5</i> locus, composed of three adjacent genes <i>ORF3</i>, <i>ORF4</i>, and <i>ORF5</i>, plays a crucial role in regulating <i>indica</i>/<i>japonica</i> hybrids’ female sterility. Through a series of crosses involving 38 parents, three alleles of <i>S5</i>, <i>ORF3</i>+<i>ORF4</i>−<i>ORF5n</i>, <i>ORF3</i>+<i>ORF4</i>+<i>ORF5n</i>, and <i>ORF3</i>−/<i>ORF4</i>−/<i>ORF5n</i>, all could be regarded as wide-compatibility alleles, and when crossed with <i>indica</i> or <i>japonica</i> rice, they all showed significantly high fertility. Then, in order to explore the genes’ function, we further knocked out genes by using CRISPR/Cas9-based genome editing. Our results demonstrate that the <i>ORF3</i>+ was not just the protector in the killer-protector system, and knocking out <i>ORF3</i> of the <i>indica</i> allele seriously affected the rice’s normal development. We observed the concrete enhancing hybrid spikelet fertility from the crosses between the <i>ORF4+</i> knockout <i>japonica</i> materials with <i>indica</i> varieties. By conducting the comparative RNA-Seq analysis of young spikelets, we found that the <i>ORF4</i>+/<i>ORF4</i>− could modulate the hybrid fertility by affecting the expressions of genes related to the function of the Golgi apparatus. This study indicated that knocking out the <i>ORF4</i>+ of the <i>japonica</i> allele or using the alleles carrying <i>ORF5n</i> would provide effective approaches to overcome <i>indica</i>/<i>japonica</i> hybrid female sterility in rice breeding.https://www.mdpi.com/2073-4395/13/4/1094hybrid sterilitygenetic effecttranscriptome analysisCRISPR/Cas9heterosis |
| spellingShingle | Jie Guo Xinqiao Zhou Ke Chen Chanjuan Ye Juan Liu Kangli Sun Guang Tang Shaokui Wang Guiquan Zhang Youding Chen Dagang Chen Chuanguang Liu Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice Agronomy hybrid sterility genetic effect transcriptome analysis CRISPR/Cas9 heterosis |
| title | Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice |
| title_full | Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice |
| title_fullStr | Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice |
| title_full_unstemmed | Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice |
| title_short | Genetic Analysis of <i>S5</i> Regulating the Hybrid Sterility between <i>Indica</i> and <i>Japonica</i> Subspecies in Rice |
| title_sort | genetic analysis of i s5 i regulating the hybrid sterility between i indica i and i japonica i subspecies in rice |
| topic | hybrid sterility genetic effect transcriptome analysis CRISPR/Cas9 heterosis |
| url | https://www.mdpi.com/2073-4395/13/4/1094 |
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