Molecular data and analysis specifications for a study on Atriophallophorus parasites from New Zealand
Data files
Jun 08, 2022 version files 1.40 MB
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Alignment_Mascot_NADH5_16random.fasta
111.10 KB
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Alignment_MrBayes_NADH5_ALLunique.fasta
182.19 KB
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Atriophallophorus_spp._NZ_28S.fasta
31.86 KB
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Atriophallophorus_spp._NZ_COI.fasta
791 B
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Atriophallophorus_spp._NZ_ITS2.fasta
12.93 KB
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Atriophallophorus_spp._NZ_NADH5.fasta
382.74 KB
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Atriophalloporus_MASCOT.xml
154.57 KB
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BEAST2_DivergenceDating.xml
54.50 KB
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BFD_Model_1.xml
17.66 KB
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BFD_Model_2.xml
17.74 KB
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BFD_Model_3.xml
17.58 KB
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BFD_Model_4.xml
17.66 KB
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DivergenceDatingAlignment28S.fasta
17.46 KB
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DivergenceDatingAlignmentCOI.fasta
11.95 KB
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DryadData_Atriophallophorus.xlsx
168.61 KB
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ND5_BayesianPhylogeny.nex
182.24 KB
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SpeciesTreeEstimation.xml
18.20 KB
Abstract
This dataset accompanies the manuscript "Phylogeography and Cryptic Species Structure of a Locally Adapted Parasite in New Zealand". In our study we have shown that multiple species of the trematode parasite from the Atriophallophorus genus co-exist within the same lakes. When focusing on the most common of these species, Atriophallophorus winterbourni, we found that the Southern Alps and Pleistocene glaciation are a likely explanation for its phylogeographic patterns.
This dataset consists of three parts: (I) An Excel file containing SNP data, all sample information and the output of phylogeographic analysis with MASCOT1, (II) all sequence alignments, including NADH5, 28S, ITS2 and COI, as they are used for the manuscript and (III) input files for the various analyses as they were prepared for the analysis.
1MASCOT: marginal approximation of the structured coalescent as implemented in BEAST2
DNA was extracted from a single patasite metacercaria from Potamopyrgus antipodarum snails from different lakes on New Zealand's South Island. The genetic structure of these parasites was characterised using both mitochondrial NADH5 sequence data and multilocus SNP data.
BEAST2: http://www.beast2.org/