Genome-wide characterization of the ankyrin repeats gene family in response to cold stress in Prunus mume

• In total, 139 PmANK and 132 PmvANK genes were identified and characterized in Prunus mume and Prunus mume var. Tortuosa genomes, respectively. • Analysis of gene expression patterns revealed spatiotemporal specific expression profiles of PmANK genes. • PmANK1/83/100 were respond to cold stress. • The protein interaction network involving PmANK1/83/100 and identified cold resistance-related genes in Prunus mume was constructed. The escalating environmental impact of global climate change is increasingly challenging the cultivation of ornamental plants. Ankyrin (ANK) repeat proteins not only regulate plant growth and development, but also respond to various abiotic stresses. Mei ( Prunus mume ), a woody plant of ornamental and economic value, is particularly vulnerable to stressors, such as low temperatures and drought. To study the genomic mechanisms of stress adaptation for mei, we conducted a comprehensive genome-wide characterization of the ANK gene family in its cultivated and wild varieties. We identified 139 PmANK and 132 PmvANK genes in P. mume and P. mume var. Tortuosa genomes, respectively. These genes were classified into 9 distinct subfamilies based on their functional domains. Phylogenetic analysis revealed 8 branches within the ANK protein family, with members of each subfamily clustered together. The exon-intron structures and motifs of ANK genes were highly conserved across both P. mume and P. mume var. Tortuosa genomes. Analysis of the promoter regions of ANK genes revealed a plethora of regulatory elements responsive to light, hormones, various stresses, and growth and development. Segmental duplication analysis identified 7 gene pairs in P. mume and 14 in P. mume var. Tortuosa. Investigation into the spatial-temporal expression patterns of PmANKs across different tissues and developmental stages demonstrated specific responses to environmental cues. Notably, PmANK1/83/100 showed significant upregulation under cold stress conditions. Phenotypic and physiological assessments of transgenic plants subjected to low temperatures indicated that PmANK1/83/100 enhance cold tolerance. Furthermore, we constructed an interaction network involving these three genes and identified their interactions with cold resistance-related genes in P. mume . Our findings could potentially enhance our understanding of the intricate regulatory mechanisms governing cold stress responses in mei.