Mining and evolution analysis of lateral organ boundaries domain ( LBD ) genes in Chinese white pear ( Pyrus bretschneid
- PDF / 3,425,456 Bytes
- 17 Pages / 595.276 x 790.866 pts Page_size
- 9 Downloads / 154 Views
RESEARCH ARTICLE
Open Access
Mining and evolution analysis of lateral organ boundaries domain (LBD) genes in Chinese white pear (Pyrus bretschneideri) Bobo Song1†, Zikai Tang1†, Xiaolong Li2, Jiaming Li1, Mingyue Zhang1, Kejiao Zhao1, Hainan Liu1, Shaoling Zhang1 and Jun Wu1*
Abstract Background: The lateral organ boundaries domain (LBD) gene is a plant-specific transcription factor that plays a critical role in diverse biological processes. However, the evolution and functional divergence of the LBD gene family has not yet been characterized for the Chinese White Pear. Results: In our study, a total of 60 PbrLBDs were identified in the pear genome. The PbrLBD gene family was divided into two classes based on gene structure and phylogenetic analysis: class I (53) and class II (7). Cis-acting element analysis results suggested that PbrLBDs may participate in various biological processes, such as flavonoid biosynthetic and stress response. Synteny analysis results indicated that segmental duplication played a key role in the expansion of the PbrLBD gene family. The mean Ks and 4DTv values showed that the PbrLBD gene family had undergone only one recent whole-genome duplication event occurring at 30–45 MYA. Purifying selection was a primary force during the PbrLBD gene family evolution process. Transcriptome data analysis revealed that 10 PbrLBDs were expressed in all six examined tissues, and 73.33% of members in the PbrLBD gene family were expressed in pear sepal. qRT-PCR was conducted to verify the expression levels of 11 PbrLBDs in these six tissues. Specifically, PbrLBD20, PbrLBD35 and PbrLBD53 genes were down-regulated when anthocyanin concentrations were high, whereas PbrLBD33 was significantly up-regulated in pear when anthocyanin concentrations were high. Furthermore, PbrLBD20, one of the candidate genes related to anthocyanins was localized in the nucleus. Conclusions: Our analysis provides valuable information for understanding the evolution of the PbrLBD gene family, and provides new insights into the regulation of pear pigment metabolism and lays a foundation for the future disclosure of the molecular mechanism of LBD gene regulating flavonoid metabolism. Keywords: LBD gene family, Pyrus, Synteny analysis, Gene expression, Anthocyanins biosynthesis
Background Lateral organ boundaries domain (LBD) genes are plantspecific transcription factors (TFs) that play important roles in the growth and development of plants. They contribute to abiotic stress responses, anthocyanin biosynthesis, * Correspondence: [email protected] † Bobo Song and Zikai Tang contributed equally to this work. 1 Center of Pear Engineering Technology Research, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China Full list of author information is available at the end of the article
nitrogen metabolism and development of lateral organ, among other processes [1–4]. According to the structural characteristics of LBD, the LBD genes were divided into two subclasses, class
Data Loading...
