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 for each species was listed in the Supplementary Table S1.'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 twereets 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_biosynthesisi_pathway.zip' includes sequences of the genes in CSO biosynthesis pathway and their RAxML trees.<br>If you have any questions, please do not hesitate to contact Lingyun Chen: [e-mail]<br><br>