Genome-wide analysis of the serine carboxypeptidase-like (SCPL) proteins in Brassica napus L

• Published in: Plant physiology and biochemistry 2022-09, Vol.186, p.310-321
• Main Authors: Liu, Yilin, Ce, Fuquan, Tang, Huan, Tian, Guifu, Yang, Lei, Qian, Wei, Dong, Hongli
• Format: Article
• Language: English
• Subjects: Brassica napus L; CAPS marker; Genome-wide analysis; Serine carboxypeptidases-like protein
• ISSN: 0981-9428; 1873-2690
• DOI: 10.1016/j.plaphy.2022.07.020

The serine carboxypeptidase-like protein (SCPL) family plays a key part in plant growth, development and stress responses. However, the serine carboxypeptidase-like (SCPL) proteins in Brassica napus L. (B. napus) have not been reported yet. Here, we identified a total of 117 putative SCPL genes in B. napus, which were unevenly distributed on all 19 chromosomes and were divided into three groups (carboxypeptidase Ⅰ to Ⅲ) according to their phylogenetic relationships. Synteny and duplication analysis revealed that the SCPL gene family of B. napus was amplified during allopolyploidization, in which the whole genome triplication and dispersed duplication played critical roles. After the separation of Brassica and Arabidopsis lineages, orthologous gene analysis showed that many SCPL genes were lost during the evolutionary process in B. rapa, B. oleracea and B. napus. Subsequently, the analyses of the gene structure, conserved motifs, cis-element and expression patterns showed that the members in the same group were highly conserved. Furthermore, candidate gene based association study suggested the role of BnSCPL52 in controlling seed number per silique, seed weight and silique length and a CAPS marker was developed to distinguish different haplotypes. Our results provide an overview of rapeseed SCPL genes that enable us for further functional research and benefit the marker-assisted breeding in Brassica napus. •117 putative SCPL genes in Brassica napus L. were identified and anlysised.•A functional CAPS marker was developed to distinguish natural variation in BnSCPL52 which facilities crop yield improvement.•Presents an overview of the SCPL genes in Brassica napus L..