Chromosomal structure variations and GO enrichment analysis
We conducted genome-wide synteny analysis between P. tomentosaand P. trichocarpa , and subgenome synteny analysis between
subgenome A and subgenome D in P. tomentosa using MCScanX
(Y. Wang et al., 2012). Genome-wide
structural variations (insertion, INS; deletion, DEL; inversion, INV;
translocation, TRANS; copy number variation, CNV) between corresponding
chromosome pairs in subgenomes were detected using MUMmer, and
chromosome structural variation (SV) was identified using SVMU
(Structural Variants from MUMmer) 0.3
(https://github.com/mahulchak/svmu).
We extracted GO annotation data of genes mapping to the SV regions, and
performed futher GO enrichment analysis. Annotation results were
summarized through the mapping to the Plant GOSlim.