Combined transcriptome and proteome analyses between the cytoplasmic male sterile line and its maintainer line in Welsh onion (Allium fistulosum)

Abstract

AbstractCytoplasmic male sterility (CMS) is dispensable for research of heterosis and investigation of nuclear–cytoplasmic interaction in Welsh onion. The molecular mechanism of the cytoplasmic male sterile line and its maintainer line was investigated by combined transcriptome and proteome analyses in Welsh onion. The 410,585 full‐length non‐chimeric (FLNC, full‐length readsnon‐Chimeric) sequences were obtained, and AS events and lncRNAs were identified by full‐length transcriptome. Towards a comprehensive understanding and identification of related genes for male sterility, the transcriptome and proteome sequencing were utilized to explore the differences between the cytoplasmic male sterile line and its maintainer line. The 287 differentially expressed genes (DEGs) and 49 differentially expressed proteins (DEPs) were identified, and we furthermore explored the function of genes and proteins. The heat map preliminarily demonstrated the expression change of the key genes and proteins in two cultivars. CMS‐related genes were screened form differentially expressed genes, and verified by quantitative real‐time quantitative polymerase chain reaction (qRT‐PCR). Our research found the CMS regulatory genes, proteins and related pathways. The transcriptome and proteome datasets contribute to accelerate the development of CMS gene clones and functional genomics research on Welsh onions.