DOI: 10.5061/dryad.m3t8r8v
title: Data from: Intragenomic ITS2 variation in a genus of parasitoid wasps (Hymenoptera: Braconidae): implications for accurate species delimitation and phylogenetic analysis

description: A recent DNA barcoding study of Australian microgastrines (Hymenoptera:
 Braconidae) sought to use next generation sequencing of the cytochrome c
 oxidase subunit 1 (COI) barcoding gene region, the wingless (WG) gene and
 the internal transcribed spacer 2 (ITS2) to delimit molecular species in a
 highly diverse group of parasitic wasps. Large intragenomic distances
 between ITS2 variants, often larger than the average interspecific
 variation, caused difficulties in using ITS2 for species delimitation in
 both threshold and tree‐based approaches, and the gene was not included in
 the reported results of the previous DNA barcoding study. We here report
 on the intragenomic, and the intra‐ and interspecies, variation in ITS2 in
 the microgastrine genus Diolcogaster to further investigate the value of
 ITS2 as a marker for species delimitation and phylogenetics of the
 Microgastrinae. Distinctive intragenomic variant patterns were found in
 different species of Diolcogaster, with some species possessing a single
 major variant, and others possessing many divergent variants.
 Characterising intragenomic variation of ITS2 is critical as it is a
 widely used marker in hymenopteran phylogenetics and species delimitation,
 and large intragenomic distances such as those found in this study may
 obscure phylogenetic signal.
description: Raw illumina files for
 E1-E50Raw Illumina data files
 for the Illumina Miseq sequencing of a library of tagged specimens of
 Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons),
 Wingless and ITS2. This file contains Extraction codes E1-E50. Sample
 information for all specimens can be found as supporting information at:
 https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The
 original data was generated for the paper: Fagan-Jeffries, E.P., Cooper,
 S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA
 barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae)
 using high-throughput methods more than doubles the number of species
 known for Australia. Molecular Ecology Resources 18,
 1132–1143.E1-E50 raw illumina
 files.zipE51-E100 raw illumina
 filesRaw Illumina data files
 for the Illumina Miseq sequencing of a library of tagged specimens of
 Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons),
 Wingless and ITS2. This file contains Extraction codes E51-E100. Sample
 information for all specimens can be found as supporting information at:
 https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The
 original data was generated for the paper: Fagan-Jeffries, E.P., Cooper,
 S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA
 barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae)
 using high-throughput methods more than doubles the number of species
 known for Australia. Molecular Ecology Resources 18,
 1132–1143.E101-E150 raw illumina
 filesRaw Illumina data files
 for the Illumina Miseq sequencing of a library of tagged specimens of
 Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons),
 Wingless and ITS2. This file contains Extraction codes E101-E150. Sample
 information for all specimens can be found as supporting information at:
 https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The
 original data was generated for the paper: Fagan-Jeffries, E.P., Cooper,
 S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA
 barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae)
 using high-throughput methods more than doubles the number of species
 known for Australia. Molecular Ecology Resources 18,
 1132–1143.E101-E150.zipE151-E200 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E151-E200. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E201-E250 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E201-E250. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E251-E300 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E251-E300. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E301-E350 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E301-E350. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E351-E450 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E351-E450. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E451-E550 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E451-E550. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E551-E650 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E551-E650. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.E551-E650.zipE651-E727 raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains Extraction codes E651-E727, plus duplicates of earlier extractions (numbers appended with a 2). Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.Blank samples raw illumina filesRaw Illumina data files for the Illumina Miseq sequencing of a library of tagged specimens of Microgastrinae (Hymenoptera: Braconidae) for COI (in two amplicons), Wingless and ITS2. This file contains blank extractions and PCRs as negative controls. Sample information for all specimens can be found as supporting information at: https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12904 . The original data was generated for the paper: Fagan-Jeffries, E.P., Cooper, S.J.B., Bertozzi, T., Bradford, T.M. & Austin, A.D. (2018) DNA barcoding of microgastrine parasitoid wasps (Hymenoptera: Braconidae) using high-throughput methods more than doubles the number of species known for Australia. Molecular Ecology Resources 18, 1132–1143.All ITS2 variants (greater than 10 reads)This folder contains ITS2 variants with greater than 10 reads, clustered at 98% read sequence identity. The files are labelled with the extraction code (See supplementary data 2 of the paper) and within the files, each variant contains the numbers of reads (size= ). There is also a file of the alignment of all variants from all specimens that were sequenced in greater than 1% relative abundance within an individual specimen.All variants (greater than 10 reads).zip