Table 2_Genome-wide characterization of the PPR gene family and its potential roles in stress responses and chloroplast RNA editing in Brassica rapa.xlsx

作者：Jinghong Zhang, M Chen, Ju Zhang (281062), Fangyan Hu, Kexin Su (12524068), Yina Zhi, Yangshuo Huang, Junya Hu (12971012), Zhenmeng Tian, Qiurui Yang, Wenjuan Li (308527), Kedong Xu (506662), Fei Zhou (86034) · 发表于：Figshare · 年份：2026 · DOI：10.3389/fpls.2026.1860005.s008 · 研究领域：Biology、Genetics、Computational biology、Cell biology

Introduction Pentatricopeptide repeat proteins are a large family of RNA-binding proteins that play essential roles in post-transcriptional regulation within plant organelles. However, a systematic understanding of their evolutionary expansion and functional relevance in Brassica rapa remains limited. This study identified and characterized the PPR gene family in B. rapa and investigated their potential roles in stress responses and chloroplast RNA editing. Methods Using the B. rapa Chiifu v4.0 genome assembly, we performed a genome-wide identification and characterization of PPR genes. Phylogenetic relationships, gene structures, duplication patterns, chromosomal distribution, subcellular localization, and cis-regulatory elements were analyzed. Tissue-specific expression patterns were investigated using publicly available RNA-seq datasets and qRT-PCR validation, while stress-associated transcriptional responses and organellar RNA editing profiles were analyzed using public RNA-seq datasets. Results A genome-wide analysis identified 493 PPR genes, classified into P and PLS subfamilies, with uneven chromosomal distribution and expansion mainly driven by dispersed and whole-genome duplication events. Furthermore, subcellular localization prediction indicated that most PPR proteins are targeted to mitochondria and chloroplasts, consistent with their roles in organellar gene regulation. In addition, Gene Ontology enrichment analysis suggested potential associations of PPR protein...