Datasets for manuscript: Phylotranscriptomics reveals the phylogeny of Asparagales and the evolution of allium flavor biosynthesis

These are the datasets used in the manuscript: Phylotranscriptomics reveals the phylogeny of Asparagales and the evolution of allium flavor biosynthesisThe file '1_CDS_PEP.tar.gz' includes CDS and PEP for all the 501 samples used for phylogenetic analyses of Asparagales. The full species names were listed in the Supplementary data 1.'2_501taxa_857orthologsgene.zip' includes sequences for the 857 orthologs obtained using DISCO, the RAxML tree for each ortholog, and the ASTRAL tree inferred from the 857 ortholog trees.'3_501taxa_857concatenatedgenes.zip' includes the RAxML tree inferred from the 857 concatenated orthologs.'4_Asparagales_biogeography.tre' and '4_Asparagales_distribution_20240206.csv' are datasets used for biogeographic analyses.'5_Asparagales_15sortadategenes_7calibrationpoints_BEASTi_run1.xml', the data matrix used for divergence time estimation. Six independent analyses were conducted. Then, the outputs of the six runs were combined and TreeAnnotator was used to summarize divergence time.'6_CSO_biosynthesis_pathway.zip' includes sequences of the genes in CSOs biosynthesis pathway and their RAxML trees.'7_Gene_ALL_LFS_TreePL.zip' includes the input files used for divergence time estimation of genes <i>alliinase</i> and <i>LFS</i>.<br>If you have any questions, please do not hesitate to contact Lingyun Chen: [e-mail] or [e-mail].<br><br>