DOI: 10.5061/dryad.kv898
title: Data from: Are Miquihuana rhadiniformis Barr, 1982 and Pseudamara arenaria (LeConte, 1847) (Coleoptera, Carabidae) sphodrines? Phylogenetic analysis of data from next-generation sequencing of museum specimens resolves the tribal-group relationships of these enigmatic taxa

description: Miquihuana rhadiniformis Barr, 1982 and Pseudamara arenaria (LeConte,
 1847) are enigmatic North American carabid beetles whose tribal-group
 placement has been in doubt. Both are currently placed in Sphodrini,
 although Pseudamara has typically been placed in Zabrini by most authors.
 As these species are relatively rarely collected, neither Miquihuana Barr,
 1982 nor Pseudamara Lindroth, 1968 have been sampled in previous
 phylogenetic studies and attempts to obtain DNA sequences through standard
 PCR of available specimens failed. We used Illumina sequencing to recover
 nuclear gene fragments (18S rDNA, 28S rDNA, wingless, and CAD) from pinned
 M. rhadiniformis and 70%-ethanol-preserved P. arenaria. Combining these
 data with data from exemplar taxa from Sphodrini, Zabrini, Pterostichini,
 Platynini, and other, putatively related tribes, we examine the tribal
 relationships of Miquihuana and Pseudamara. The phylogenetic
 reconstructions consistently and with high support place M. rhadiniformis
 with other sphodrines excluding Atranopsina. There is evidence that
 Miquihuana is a distinct lineage from Sphodrina, but its placement varies
 among the single gene analyses. Pseudamara arenaria is not a sphodrine, as
 it nests within Zabrini, supporting the traditional placement. We transfer
 Pseudamara back to Zabrini based on these molecular data and we present
 additional morphological insights corroborating these results.
description: Pseudamara and
 Miquihuana sequence data matrix with ML and bootstrap
 treesThis file contains all
 trimmed and aligned DNA sequence data analyzed for the paper as well as
 maximum likelihood bootstrap trees and maximum likelihood trees. It is
 formatted as a NEXUS file, and is compatible with Mesquite version
 3.10Pseudamara_Miquihuana_trimmed_5gene_FULLMATRIX.nexPseudamara Miquihuana untrimmed DNA sequence matrixThis file contains all of the untrimmed DNA sequence data gathered for the paper. It is formatted as a NEXUS file, and is compatible with Mesquite version 3.10Pseudamara_Miquihuana_UNtrimmed_5gene.nexMiquihuana rhadiniformis kww999 CLC de novo assemblyThis assembly was built using CLC Genomics Workbench v. 8.5.1 and the default de novo assembly options after using CLC's default trimming of the input reads. The input data consisted of 100-base paired-end Illumina HiSeq 2000 reads and were imported into CLC as paired-end reads. The raw reads are accessible through the NCBI Sequence Read Archive with the accession number SRP073745.Miquihuana_rhadiniformis_kww999_clc_assembly.fastaPseudamara arenaria kww998 CLC de novo assemblyThis assembly was built using CLC Genomics Workbench v. 8.5.1 and the default de novo assembly options after using CLC's default trimming of the input reads. The input data consisted of 150-base paired-end Illumina HiSeq 3000 reads and were imported into CLC as paired-end reads. The raw reads are accessible through the NCBI Sequence Read Archive with the accession number SRP073745.Pseudamara_arenaria_kww998_CLC_assembly.fasta