Cunonieae Phylogenetic Analyses

A comprehensive selection of Cunonieae species from the Andes of South America, South Africa, Madgascar, Comoros, Reunion, Malesia, Australia and Oceania were collected in the field, or silica gel dried material was requested to different herbaria and institutions: B, JBB, JAUM, LPB, MO, NOU and P. Our dataset included 186 samples representing 157 species. We produced 439 new sequences of 116 species from newly extracted DNA, via PCR amplification and sanger sequencing, whereas 78 sequences were obtained from GenBank. After pherogram examination, quality check and trimming we produced a concatenated DNA alignment of plastid markers matK, trnL-F, rpl16 (186 samples at 8906 characters) and a second alignment of ITS (86 samples at 696 characters). Bayesian, parsimony and maximum likelihood analyses were performed in MrBayes, PAUP, and RAxML-ng, resulting in a well-supported phylogenetic tree of Cunoniaceae.This phase includes the following files:CUN samples metadata.xlsx = A table with the collection information, herbarium and provenance of all vouchers used in this study.partitions_cp.txt and partitions_ITS.txt = text files used by modeltest and raxml to define the partitions of the molecular sequence alignment - MSA.*.sh files = sbash scripts used during the calculation o phylogenetic analyses in CURTA HPC cluster of the Freie Universität Berlin.Cun_ITS_alignment.nex = annotated sequences alignment of the ITS1-5.8S-ITS2 nuclear ribosomal region of 86 samples.Cun_plastid_alignment.nex = annotated sequences of the concatenated alignment of the plastid regions matK, trnL-F and rpl16.Other *.nex files = executable files for bayesian analyses and parameters for MrBayes.*.tre files = phylogenetic trees output of MrBayes phylogenetic analysis.