10.3389/fgene.2019.01279.s001
Qi Pan
Qi
Pan
Bin Zhu
Bin
Zhu
Dawei Zhang
Dawei
Zhang
Chaobo Tong
Chaobo
Tong
Xianhong Ge
Xianhong
Ge
Shengyi Liu
Shengyi
Liu
Zaiyun Li
Zaiyun
Li
DataSheet_1_Gene Expression Changes During the Allo-/Deallopolyploidization Process of Brassica napus.xlsx
Frontiers
2019
Brassica napus
B. rapa
polyploidization
gene expression
DNA methylation
2019-12-19 10:09:36
Dataset
https://frontiersin.figshare.com/articles/dataset/DataSheet_1_Gene_Expression_Changes_During_the_Allo-_Deallopolyploidization_Process_of_Brassica_napus_xlsx/11406978
<p>Gene expression changes due to allopolyploidization have been extensively studied in plants over the past few decades. Nearly all these studies focused on comparing the changes before and after genome merger. In this study, we used the uniquely restituted Brassica rapa (RBR, A<sub>e</sub>A<sub>e</sub>, 2n = 20) obtained from Brassica napus (A<sub>n</sub>A<sub>n</sub>C<sub>n</sub>C<sub>n</sub>, 2n = 38) to analyze the gene expression changes and its potential mechanism during the process of allo-/deallopolyploidization. RNA-seq-based transcriptome profiling identified a large number of differentially expressed genes (DEGs) between RBR and natural B. rapa (A<sub>r</sub>A<sub>r</sub>), suggesting potential effects of allopolyploidization/domestication of AA component of B. napus at the tetrapolyploid level. Meanwhile, it was revealed that up to 20% of gene expressions were immediately altered when compared with those in the A<sub>n</sub>-subgenome. Interestingly, one fifth of these changes are in fact indicative of the recovery of antecedent gene expression alternations occurring since the origin of B. napus and showed association with homoeologous expression bias between A<sub>n</sub> and C<sub>n</sub> subgenomes. Enrichment of distinct gene ontology (GO) categories of the above sets of genes further indicated potential functional cooperation of the A<sub>n</sub> and C<sub>n</sub> subgenome of B. napus. Whole genome methylation analysis revealed a small number of DEGs were identified in the differentially methylated regions.</p>