Homologous mapping yielded a comprehensive predicted protein-protein interaction network for peanut (Arachis hypogaea L.)

• Published in: BMC plant biology Vol. 24; no. 1; pp. 873 - 13
• Main Authors: Gong, Fangping, Cao, Di, Sun, Xiaojian, Li, Zhuo, Qu, Chengxin, Fan, Yi, Cao, Zenghui, Zhao, Kai, Zhao, Kunkun, Qiu, Ding, Li, Zhongfeng, Ren, Rui, Ma, Xingli, Zhang, Xingguo, Yin, Dongmei
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 20.09.2024; BioMed Central; BMC
• Subjects: Abiotic stress; Agricultural research; Annotations; Arachis - genetics; Arachis - metabolism; Arachis hypogaea; Bioinformatic analysis; Chromosome mapping; Cultivars; Disease resistance; Disease Resistance - genetics; Disease-resistance proteins; Experimental methods; Functionals; Gene expression; Gene mapping; Genes; Genetic aspects; Genomes; Genomics; Kinases; Legumes; Mapping; Methods; Networks; Peanuts; Peptide mapping; Physiological aspects; Plant Diseases - genetics; Plant Diseases - microbiology; Plant genetics; Plant Proteins - genetics; Plant Proteins - metabolism; PPIs; Protein interaction; Protein Interaction Mapping; Protein Interaction Maps; Protein interactome; Protein-protein interactions; Proteins; Ralstonia solanacearum; Research methodology; Signal transduction; Wilt; China; Disease-resistance proteins; Bioinformatic analysis; Ralstonia solanacearum; Protein interactome; PPIs
• ISSN: 1471-2229; 1471-2229
• DOI: 10.1186/s12870-024-05580-w

Protein-protein interactions are the primary means through which proteins carry out their functions. These interactions thus have crucial roles in life activities. The wide availability of fully sequenced animal and plant genomes has facilitated establishment of relatively complete global protein interaction networks for some model species. The genomes of cultivated and wild peanut (Arachis hypogaea L.) have also been sequenced, but the functions of most of the encoded proteins remain unclear. We here used homologous mapping of validated protein interaction data from model species to generate complete peanut protein interaction networks for A. hypogaea cv. 'Tifrunner' (282,619 pairs), A. hypogaea cv. 'Shitouqi' (256,441 pairs), A. monticola (440,470 pairs), A. duranensis (136,363 pairs), and A. ipaensis (172,813 pairs). A detailed analysis was conducted for a putative disease-resistance subnetwork in the Tifrunner network to identify candidate genes and validate functional interactions. The network suggested that DX2UEH and its interacting partners may participate in peanut resistance to bacterial wilt; this was preliminarily validated with overexpression experiments in peanut. Our results provide valuable new information for future analyses of gene and protein functions and regulatory networks in peanut.