Transcriptome Sequencing and Analysis with Reference Genome of Pinus yunnanensis
In this project, Pinus yunnanensis was used as the research material. Transcriptome sequencing with reference genome was performed on the Illumina platform. A total of 12 samples were sequenced, with 6 Gb raw data per sample. After RNA extraction, library construction and on-machine sequencing, a series of bioinformatics analyses were conducted, including raw data quality control, sequence alignment, gene expression quantification, sample correlation analysis and principal component analysis (PCA). Differentially expressed genes (DEGs) were screened subsequently. Furthermore, comprehensive analyses were carried out, such as GO, KEGG and GSEA functional enrichment, transcript structure analysis (novel transcripts, alternative splicing, SNP and InDel identification), transcription factor analysis, exon differential analysis and protein-protein interaction (PPI) analysis. This study systematically elucidates the gene expression profiles and molecular regulatory mechanisms of Pinus yunnanensis