A Revision of North American <i>Lactura</i> (Lepidoptera, Zygaenoidea, Lacturidae)

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Abstract

The Lactura Walker, 1854 fauna north of Mexico is revised. Six species are documented, one new species Lactura nalli Matson & Wagner, sp. n. is described, and two new synonymies are proposed: Lactura psammitis (Zeller, 1872), syn. n. and L. rhodocentra (Meyrick, 1913), syn. n. One new subspecies Lactura subfervens sapeloensis Matson & Wagner, ssp. n. is also described. Adult and larval stages, male and female genitalia, are illustrated, a preliminary phylogeny is presented based on nuclear and mitochondrial data, distribution records provided for verified specimens, and the biology and life history for each species is briefly characterized. Phylogenetic analyses, larval phenotypes, and life history information reveal that much of the historic taxonomic confusion rampant across this group in North America traces to the phenotypic variation in just one species, L. subfervens (Walker, 1854).

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IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

Lam-Tung Nguyen, Heiko Schmidt, Arndt von Haeseler … (2014)

Large phylogenomics data sets require fast tree inference methods, especially for maximum-likelihood (ML) phylogenies. Fast programs exist, but due to inherent heuristics to find optimal trees, it is not clear whether the best tree is found. Thus, there is need for additional approaches that employ different search strategies to find ML trees and that are at the same time as fast as currently available ML programs. We show that a combination of hill-climbing approaches and a stochastic perturbation method can be time-efficiently implemented. If we allow the same CPU time as RAxML and PhyML, then our software IQ-TREE found higher likelihoods between 62.2% and 87.1% of the studied alignments, thus efficiently exploring the tree-space. If we use the IQ-TREE stopping rule, RAxML and PhyML are faster in 75.7% and 47.1% of the DNA alignments and 42.2% and 100% of the protein alignments, respectively. However, the range of obtaining higher likelihoods with IQ-TREE improves to 73.3-97.1%.

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Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

Matthew Kearse, Richard Moir, Amy Wilson … (2012)

Summary: The two main functions of bioinformatics are the organization and analysis of biological data using computational resources. Geneious Basic has been designed to be an easy-to-use and flexible desktop software application framework for the organization and analysis of biological data, with a focus on molecular sequences and related data types. It integrates numerous industry-standard discovery analysis tools, with interactive visualizations to generate publication-ready images. One key contribution to researchers in the life sciences is the Geneious public application programming interface (API) that affords the ability to leverage the existing framework of the Geneious Basic software platform for virtually unlimited extension and customization. The result is an increase in the speed and quality of development of computation tools for the life sciences, due to the functionality and graphical user interface available to the developer through the public API. Geneious Basic represents an ideal platform for the bioinformatics community to leverage existing components and to integrate their own specific requirements for the discovery, analysis and visualization of biological data. Availability and implementation: Binaries and public API freely available for download at http://www.geneious.com/basic, implemented in Java and supported on Linux, Apple OSX and MS Windows. The software is also available from the Bio-Linux package repository at http://nebc.nerc.ac.uk/news/geneiousonbl. Contact: peter@biomatters.com

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MrBayes 3: Bayesian phylogenetic inference under mixed models.

Fredrik Ronquist, John P. Huelsenbeck (2003)

MrBayes 3 performs Bayesian phylogenetic analysis combining information from different data partitions or subsets evolving under different stochastic evolutionary models. This allows the user to analyze heterogeneous data sets consisting of different data types-e.g. morphological, nucleotide, and protein-and to explore a wide variety of structured models mixing partition-unique and shared parameters. The program employs MPI to parallelize Metropolis coupling on Macintosh or UNIX clusters.

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Author and article information

Contributors

Tanner A. Matson

Journal

Journal ID (nlm-ta): Zookeys

Journal ID (iso-abbrev): Zookeys

Journal ID (publisher-id): 2

Journal ID (index): urn:lsid:arphahub.com:pub:45048d35-bb1d-5ce8-9668-537e44bd4c7e

Journal ID (aggregator): urn:lsid:zoobank.org:pub:91BD42D4-90F1-4B45-9350-EEF175B1727A

Title: ZooKeys

Publisher: Pensoft Publishers

ISSN (Print): 1313-2989

ISSN (Electronic): 1313-2970

Publication date Collection: 2019

Publication date (Electronic): 16 May 2019

Volume: 846

Pages: 75-116

Affiliations

[1 ] Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut 06269-3043, USA University of Connecticut Storrs United States of America

[2 ] Department of Entomology, National Museum of Natural History, Smithsonian Institution, Washington DC 20013-7012, USA National Museum of Natural History, Smithsonian Institution Washington United States of America

Author notes

Corresponding author: Tanner Matson ( tanner.matson@ 123456uconn.edu )

Academic editor: C. Schmidt

Article

Publisher ID: 31953 Other ID: urn:lsid:arphahub.com:pub:3f285578-82fb-5e10-bc28-cb291549b0f9 Other ID: urn:lsid:zoobank.org:pub:60B30A09-7905-4C60-BE43-ED0DD76D746E

DOI: 10.3897/zookeys.846.31953

PMC ID: 6533213

PubMed ID: 31148929

SO-VID: 862de4b5-0290-45f5-8e7e-f6b1e38b4937

License:

This is an open access article distributed under the terms of the CC0 Public Domain Dedication.

History

Date received : 02 December 2018

Date accepted : 26 March 2019

Funding

University of Connecticut; United States Forest Service; Richard P. Garmany Fund (Hartford Foundation)

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A Revision of North American Lactura (Lepidoptera, Zygaenoidea, Lacturidae)

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Pensoft Biodiversity

Most cited references 38

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

MrBayes 3: Bayesian phylogenetic inference under mixed models.

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