Identifying hub genes and key functional modules in leaf tissue of Populus species based on WGCNA

As one of the most important parts of plants, the genetic mechanisms of photosynthesis or the response of leaf to a single abiotic and biotic stress have been well studied. However, few researches have involved in the integration of data analysis from system level in leaf tissue under multiple abiotic stresses by utilizing biological networks. In this study, the weighted gene co-expression network analysis (WGCNA) strategy was used to integrate multiple data in leaf tissue of Populus species under different sample treatments. The gene co-expression networks were constructed and functional modules were identified by selecting the suitable soft threshold power beta in the procedure of WGCNA. The identified hub genes and gene modules were annotated by agriGO, NetAffx Analysis Center, The Plant Genome Integrative Explorer (PlantGenIE) and other annotation tools. The annotation results have displayed that the highly correlated modules and hub genes are involved in the important biological processes or pathways related to module traits. The efficiency of the WGCNA strategy can generate comprehensive understanding of gene module-traits associations in leaf tissue, which will provide novel insight into the genetic mechanism of Populus species.