Genome-wide identification of the restorer-of-fertility-like ( RFL ) gene family in Brassica napus and expression analys
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RESEARCH ARTICLE
Open Access
Genome-wide identification of the restorerof-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility Luyun Ning1, Hao Wang2, Dianrong Li2, Yonghong Li2, Kang Chen1, Hongbo Chao1, Huaixin Li1, Jianjie He1 and Maoteng Li1,3*
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. Keywords: CMS, Rf, RFL, PPR, RNA-sequencing
Background The male sterile line was widely used in hybrid breeding, which mainly included chemical induced male sterility (CIMS), genic male sterility (GMS) and cytoplasmic male sterility (CMS) [1, 2]. In CMS, traits are maternally inherited, primarily due to the rearrangement of mitochondrial DNA and inability to generate normal pollen [3]. The * Correspondence: [email protected] 1 Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China 3 Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang Normal University, Huanggang 438000, China Full list of author information is available at the end of the article
restorer-of-fertility (Rf) nuclear genes have been used to rescue the damage induced by mitochondrial DNA rearrangements. In Brassica napus, there are four major CMS systems which have been commonly used in rapeseed production: pol CMS [4], nap CMS [5], Ogu CMS [6], and Shaan2A CMS [7]. Shaan2A CMS and pol CMS are the most widely used CMS systems in B. napus [8]. What’s more, in Shaan2A CMS system, the cytoplasm type of its restorer line KC01 belongs to pol CMS type [9]. The first Rf gene encoding a putative aldehyde dehydrogenase was cloned in the T-CMS of maize (Zea mays); the encoded protein either performs ace
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