DOI: 10.5061/dryad.qfttdz0v8
title: Data from: Employing exon capture to resolve species-level relationships in Australian Arid Zone camaenid land snails

description: This dataset comprises exon and mtDNA data from land snails of the genus
 Catellotrachia, endemic to the Australian Arid Zone (AAZ), based mainly on
 fresh but also paratypic material, in order to test mtDNA-based taxonomic
 hypotheses. The dataset contains alignment and tree files of both the
 mtDNA and nDNA (exon) datasets, along with the partition files that were
 generated using IQ-TREE 2 and finally used for a species tree constructed
 using ASTRAL. Moreover, the dataset includes output files of the different
 landscape genetic analyses performed based on the SNP-based dataset in
 Geneland and a Bash script file including commands that were used to
 analyse the data, and several folders used for output files when running
 the two example read files provided.
description: # Data from: Employing exon capture to resolve species-level relationships
 in Australian Arid Zone camaenid land snails Dataset DOI:
 [10.5061/dryad.qfttdz0v8](10.5061/dryad.qfttdz0v8) ## Description of the
 data and file structure mtDNA_IQ-TREE2.zip
 nDNA_770_exons_IQ-TREE2_ASTRAL.zip nDNA_top100_exons-introns_IQ-TREE2.zip
 SNPs_Geneland_Clade_D.zip SNPs_Geneland_Clade_E.zip
 SNPs_Geneland_Clade_E_mod.zip scripts.zip ### Files and variables ####
 File: nDNA_top100_exons-introns_IQ-TREE2.zip **Description:** This file
 contains the input alignment (Phylip) and partition files for different
 partition schemes as well as tree files of the IQ-TREE 2 analyses ####
 File: SNPs_Geneland_Clade_D.zip **Description:** This file contains input
 and output files from the Geneland analyses on Clade D #### File:
 SNPs_Geneland_Clade_E.zip **Description:** This file contains input and
 output files from the Geneland analyses on Clade E #### File:
 SNPs_Geneland_Clade_E_mod.zip **Description:** This file contains input
 and output files from the Geneland analyses on Clade E excluding the
 historical samples of *Catellotrachia euzyga* and *C. filixiana* ####
 File: mtDNA_IQ-TREE2.zip **Description:** This file contains input
 alignment (Phylip) and partition files for the complete and reduced mtDNA
 dataset with different partition schemes as well as tree files of the
 IQ-TREE 2 analyses #### File: nDNA_770_exons_IQ-TREE2_ASTRAL.zip
 **Description:** This file contains the input alignment (Phylip) and
 partition files for different partition schemes as well as tree files of
 the IQ-TREE 2 and ASTRAL analyses #### File: scripts.zip
 **Description:** This file contains a Bash script
 (/base_files/exon_capture_Catellotrachia_scripts.sh) including various
 commands used to analyse the exon-capture data plus required Python
 scripts (/python_scrips). Moreover, it includes exon data for *Thersites
 novaehollandiae* (/Thersites_exons) obtained from Teasdale et al. (2016)
 and used as reference for mapping and phylogenetic analyses (outgroup) ##
 Code/software The majority of files can be opened with a text editor or a
 PDF viewer. The output tree files can be viewed with software such as
 FigTree. The command lines to analyse the data can be run with the
 software mentioned in the Bash script