Transcriptomics provides insights into the phylogeny of Liliales and the evolution of the colchicine biosynthesis pathway

dataset

posted on 2024-10-09, 13:56 authored by Wen-Fang Zheng,, Chien-Hsun Huang, huang_ch@fudan.edu.cn, Diego F. Morales-Briones, Can DaiCan Dai, Kun-Hua Wei, Xiao-Xiao Wang, Wen-Da Zhang, Jia-Le Wang, Ying Hu, Xiao-Mei Wei, Duo-Yuan Chen, Xin-Ya Hemu, Ling-Yun ChenLing-Yun Chen

The file '1_CDS_PEP.tar.gz' includes CDS and PEP for all the 131 samples used for phylogenetic analyses of Liliales. The full species names for each species was listed in the Supplementary Table S1.

'2_131samples_1063orthologsgene.zip' includes sequences for the 1063 orthologs obtained using DISCO, the RAxML tree for each ortholog, and the ASTRAL tree inferred from the 1063 ortholog trees.

'3_131taxa_1063concatenatedgenes.zip' includes the RAxML tree inferred from the 1063 concatenated orthologs.

'4_Colchicaceae_biogeography.tre' and '4_Colchicaceae_distribution.csv' are files used for biogeographic analyses of Colchicaceae.

'5_Liliales_TreePl_config_template.txt' and '5_Colchicaceae_TreePl_config_template.txt', the data matrix used for divergence time estimation of Liliales and Colchicaceae separately.

‘6_Supplementary_figures_22_40.pdf’. This pdf includes the phylogenetic trees for the genes involved in the colchicine biosynthesis pathway.