Supporting data for: Recombination and retroprocessing in broomrapes reveal a universal roadmap for mitochondrial evolution in heterotrophic plants

This repository contains supporting data for "Recombination and retroprocessing in broomrapes reveal a universal roadmap for mitochondrial evolution in heterotrophic plants". The genome assemblies, annotations, gene alignments, and phylogenies supporting the findings of this study including RNA editing, molecular evolution, and gene transfers are provided. 

A brief description of the data is provided below.

•    Species_ID.xlsx The species names and IDs for the 45 species included in this study.•    1_pt_assembly_annotationGetOrganelle assemblies and Geneious annotation of plastid genomes from 45 Orobanchaceae species•    2_mt_assembly_annotationGetOrganelle assemblies and Geneious annotation of plastid genomes from 45 Orobanchaceae species •    3_phylogeny Concatenated mitochondrial and plastid sequences IQ-TREE phylogenies inferred from these sequence data  •    4_rna_editingC-to-U RNA editing sites predicted by DeepRed-MT for 24 mitochondrial core genes•    5_mtpt Sequence alignments and phylogenies supporting the classification of 1,094 mitochondrial plastid DNA (MTPT) •    6_hgtSequence alignments and phylogenies supporting the classification of mitochondrial horizontal gene transfer •    7_molecular_evolution  Codon alignments and program output of CODEML and HYPHY analyses