Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility
Abstract Background Cytoplasmic male sterility (CMS) is very important in hybrid breeding. The restorer-of-fertility (Rf) nuclear genes rescue the sterile phenotype. Most of the Rf genes encode pentatricopeptide repeat (PPR) proteins. Results We investigated the restorer-of-fertility-like (RFL) gene...
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BMC
2020-11-01
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| Series: | BMC Genomics |
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| Online Access: | http://link.springer.com/article/10.1186/s12864-020-07163-z |
| _version_ | 1819205325330317312 |
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| author | Luyun Ning Hao Wang Dianrong Li Yonghong Li Kang Chen Hongbo Chao Huaixin Li Jianjie He Maoteng Li |
| author_facet | Luyun Ning Hao Wang Dianrong Li Yonghong Li Kang Chen Hongbo Chao Huaixin Li Jianjie He Maoteng Li |
| author_sort | Luyun Ning |
| collection | DOAJ |
| description | Abstract Background Cytoplasmic male sterility (CMS) is very important in hybrid breeding. The restorer-of-fertility (Rf) nuclear genes rescue the sterile phenotype. Most of the Rf genes encode pentatricopeptide repeat (PPR) proteins. Results We investigated the restorer-of-fertility-like (RFL) gene family in Brassica napus. A total of 53 BnRFL genes were identified. While most of the BnRFL genes were distributed on 10 of the 19 chromosomes, gene clusters were identified on chromosomes A9 and C8. The number of PPR motifs in the BnRFL proteins varied from 2 to 19, and the majority of BnRFL proteins harbored more than 10 PPR motifs. An interaction network analysis was performed to predict the interacting partners of RFL proteins. Tissue-specific expression and RNA-seq analyses between the restorer line KC01 and the sterile line Shaan2A indicated that BnRFL1, BnRFL5, BnRFL6, BnRFL8, BnRFL11, BnRFL13 and BnRFL42 located in gene clusters on chromosomes A9 and C8 were highly expressed in KC01. Conclusions In the present study, identification and gene expression analysis of RFL gene family in the CMS system were conducted, and seven BnRFL genes were identified as candidates for the restorer genes in Shaan2A CMS. Taken together, this method might provide new insight into the study of Rf genes in other CMS systems. |
| first_indexed | 2024-12-23T04:49:55Z |
| format | Article |
| id | doaj.art-ab0f59678b754d618bf87f17d328c428 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-23T04:49:55Z |
| publishDate | 2020-11-01 |
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| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-ab0f59678b754d618bf87f17d328c4282022-12-21T17:59:30ZengBMCBMC Genomics1471-21642020-11-0121111410.1186/s12864-020-07163-zGenome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterilityLuyun Ning0Hao Wang1Dianrong Li2Yonghong Li3Kang Chen4Hongbo Chao5Huaixin Li6Jianjie He7Maoteng Li8Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and TechnologyHybrid Rape Research Center of Shaanxi Province, Shaanxi Rapeseed Branch of National Centre for Oil Crops Genetic ImprovementHybrid Rape Research Center of Shaanxi Province, Shaanxi Rapeseed Branch of National Centre for Oil Crops Genetic ImprovementHybrid Rape Research Center of Shaanxi Province, Shaanxi Rapeseed Branch of National Centre for Oil Crops Genetic ImprovementDepartment of Biotechnology, College of Life Science and Technology, Huazhong University of Science and TechnologyDepartment of Biotechnology, College of Life Science and Technology, Huazhong University of Science and TechnologyDepartment of Biotechnology, College of Life Science and Technology, Huazhong University of Science and TechnologyDepartment of Biotechnology, College of Life Science and Technology, Huazhong University of Science and TechnologyDepartment of Biotechnology, College of Life Science and Technology, Huazhong University of Science and TechnologyAbstract Background Cytoplasmic male sterility (CMS) is very important in hybrid breeding. The restorer-of-fertility (Rf) nuclear genes rescue the sterile phenotype. Most of the Rf genes encode pentatricopeptide repeat (PPR) proteins. Results We investigated the restorer-of-fertility-like (RFL) gene family in Brassica napus. A total of 53 BnRFL genes were identified. While most of the BnRFL genes were distributed on 10 of the 19 chromosomes, gene clusters were identified on chromosomes A9 and C8. The number of PPR motifs in the BnRFL proteins varied from 2 to 19, and the majority of BnRFL proteins harbored more than 10 PPR motifs. An interaction network analysis was performed to predict the interacting partners of RFL proteins. Tissue-specific expression and RNA-seq analyses between the restorer line KC01 and the sterile line Shaan2A indicated that BnRFL1, BnRFL5, BnRFL6, BnRFL8, BnRFL11, BnRFL13 and BnRFL42 located in gene clusters on chromosomes A9 and C8 were highly expressed in KC01. Conclusions In the present study, identification and gene expression analysis of RFL gene family in the CMS system were conducted, and seven BnRFL genes were identified as candidates for the restorer genes in Shaan2A CMS. Taken together, this method might provide new insight into the study of Rf genes in other CMS systems.http://link.springer.com/article/10.1186/s12864-020-07163-zCMSRfRFLPPRRNA-sequencing |
| spellingShingle | Luyun Ning Hao Wang Dianrong Li Yonghong Li Kang Chen Hongbo Chao Huaixin Li Jianjie He Maoteng Li Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility BMC Genomics CMS Rf RFL PPR RNA-sequencing |
| title | Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility |
| title_full | Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility |
| title_fullStr | Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility |
| title_full_unstemmed | Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility |
| title_short | Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility |
| title_sort | genome wide identification of the restorer of fertility like rfl gene family in brassica napus and expression analysis in shaan2a cytoplasmic male sterility |
| topic | CMS Rf RFL PPR RNA-sequencing |
| url | http://link.springer.com/article/10.1186/s12864-020-07163-z |
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