Data from: Museum specimens provide phylogenomic data to resolve relationships of sack-bearer moths (Lepidoptera, Mimallonoidea, Mimallonidae)

St Laurent, Ryan A.1; Hamilton, Chris A.1; Kawahara, Akito Y.1

Published Mar 20, 2019 on Dryad. https://doi.org/10.5061/dryad.q0b6297

Data files

Mar 20, 2019 version files 22.73 GB

datasets_and_tree_files.zip

11.89 MB
StLaurent_et_al_RAW_sequence_data.tar.gz

22.71 GB

Abstract

Mimallonidae, the sack‐bearer moths, are a family of predominantly Neotropical moths containing nearly 300 described species. Mimallonidae feed on over 40 host plant families and are found in a variety of environments, but phylogenetic relationships of species within the family have never been investigated. We sequenced 515 loci using anchored hybrid enrichment target capture on ethanol‐preserved and dried museum specimens, with dates of collection ranging from 1985 to 2017. We sampled 47 species, representing 32 of the 36 described mimallonid genera. By incorporating 19 dry museum specimens, and recovering an average of over 400 loci for each, we illustrate the utility of natural history collections in anchored hybrid enrichment‐based phylogenomics. Maximum likelihood and multi‐species coalescent analyses provide robust support for the recognition of six higher‐level groups within Mimallonidae, which we designate as subfamilies: Zaphantinae St Laurent & Kawahara subfam.n., Aurorianinae St Laurent & Kawahara subfam.n., Mimalloninae Burmeister, Lacosominae Dyar, Druenticinae St Laurent & Kawahara subfam.n. and Cicinninae Schaus stat.n. Our phylogenetic results also robustly support eight new tribes: Lacosominae: Trogopterini St Laurent & Kawahara tribe n., Lacosomini Dyar stat.n., Alheitini St Laurent & Kawahara tribe n.; Druenticinae: Luramini St Laurent & Kawahara tribe n., Druenticini St Laurent & Kawahara tribe n.; Cicinninae: Bedosiini St Laurent & Kawahara tribe n., Psychocampini St Laurent & Kawahara tribe n., Cicinnini Schaus stat.n. Three new genera are also described based on our phylogenetic results: Herbinalla St Laurent & Kawahara, gen.n., Ulaluma St Laurent & Kawahara, gen.n., Bedosiallo St Laurent & Kawahara, gen.n. Naniteta Franclemont, syn.n. is a synonym of Lacosoma Grote. Six genera are paraphyletic, and in total 19 new combinations are proposed: Macessoga laxa comb.n., Lacosoma elassa comb.n., Thaelia anysia comb.n., Thaelia subrubiginosa comb.n., Herbinalla caudina comb.n., Druentica brosica comb.n., Ulaluma valva comb.n., Cicinnus eminens comb.n., Roelmana pluridiscata comb.n., Roelmana laguerrei comb.n., Psychocampa joanna comb.n., Psychocampa unalca comb.n., Psychocampa hamata comb.n., Psychocampa marona comb.n., Bedosiallo eugenia comb.n., Bedosiallo forbesi comb.n., Bedosiallo moengus comb.n., Bedosiallo styx comb.n. and Bedosiallo sylvia comb.n. This study is the first to implement the LEP1 probe set on a comprehensive taxonomic dataset that includes many museum specimens, and our results demonstrate that museum specimens can be used in anchored hybrid enrichment studies. Importantly, these data produce a robust phylogeny that will serve as a foundation for future studies on mimallonid evolution, such as host plant relationships and biogeography.

Usage notes

datasets_and_tree_files

This file contains all datasets and tree files generated and used in the publication titled: "Museum specimens provide phylogenomic data to resolve relationships of sack-bearer moths (Lepidoptera, Mimallonoidea, Mimallonidae)". The subfolders and their contents are as follows: 1) dataset1_probes: individual probe region nucleotide alignments for all 515 loci, a concatenated supermatrix of all alignments together, a partition file for the PART1 partitioning scheme with these data, a partition file for the PART2 partitioning scheme with these data, and a summary file from AMAS. 2) dataset2_probes_flanks: a concatenated supermatrix of all locus probe regions together with the flanking regions of the same loci included at the end of the supermatrix, a partition file for the PART1 partitioning scheme with these data, a partition file for the PART2 partitioning scheme with these data. 3) dataset3_AA: individual translated probe regions (AA residues) alignments for all 515 loci, a concatenated supermatrix of all alignments together, and a partition file for the PART partitioning scheme with these data. 4) tree_files: .tre files for all IQ-TREE and ASTRAL analyses used for Fig. 1, the supplemental figures, and phylogenetic discussions in the article.

Replace_StLaurent_et_al_RAW_sequence_data.tar.gz

This file contains all Anchored Hybrid Enrichment (AHE)-derived raw sequencing reads for the article "Museum specimens provide phylogenomic data to resolve relationships of sack-bearer moths (Lepidoptera, Mimallonoidea, Mimallonidae)". These specimens were sequenced with the use of the LEP1 AHE probe set as outlined in the article. These raw reads can be processed for phylogenomic studies using the pipeline published in Breinholt et al. (2018): Systematic Biology 67(1):78-93. Not included in this file are sequences from other sources: the BMORI reference genome and transcriptome-derived data used in the article.

StLaurent_et_al_RAW_sequence_data.tar.gz