Objective Identification of high-quality species-specific gene clusters at the genome-wide level provides new ideas for in-depth analysis of species traits and genetic improvement.
Method By combining genomic, transcriptome, and protein data analysis, high-quality gene cluster prediction and screening were carried out using bioinformatics methods. Genomic collinearity, genomic structure, systematic evolution, and transcriptional expression analysis were performed on target gene clusters.
Result (1) The PGK3-TPS10-CYP726 gene cluster with high confidence was predicted, including 13 enzyme coding genes, i.e. glyceraldehyde 3-phosphate dehydrogenase 3 (GAPCP3), CHD4 cytochrome P45071D (CYP71D55), cytochrome P450726A (CYP726A), terpenoid synthase 10 (TPS10), phosphoglycerate kinase 3 (PGK3), etc. (2) PGK3-TPS10-CYP726 gene cluster had good co-expression and common pathway characteristics, and showed good uniqueness and integrity in genome of Vernicia montana. (3) About half of PGK3-TPS10-CYP726 gene cluster was highly conserved in dicotyledonous plants, but it was absent in monocotyledonous plants. The PGK3 gene had been preserved in monodicotyledonous plants and bryophytes, and its sequence was highly conserved during evolutionary process. It was speculated that the PGK3-TPS10-CYP726 gene cluster originated from the early basal taxa and formed after V. montana species differentiation. (4) The specific PGK3-TPS10-CYP726 gene cluster of V. montana species was specifically highly expressed in roots, and the xylem of root showed a sustained and significant high expression in the early and middle stages after being infected by Fusarium wilt pathogen.
Conclusion The specific gene cluster PGK3-TPS10-CYP726 is identified for the first time, and its evolutionary origin and expression characteristics are analyzed, which provides a new perspective for analyzing the unique traits of V. montana such as its resistance to Fusarium wilt.
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