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How to fail at species delimitation.

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TLDR
Researchers should apply a wide range of species delimitation analyses to their data and place their trust in delimitations that are congruent across methods, for in most contexts it is better to fail to delimit species than it is to falsely delimit entities that do not represent actual evolutionary lineages.
Abstract
Species delimitation is the act of identifying species-level biological diversity. In recent years, the field has witnessed a dramatic increase in the number of methods available for delimiting species. However, most recent investigations only utilize a handful (i.e. 2–3) of the available methods, often for unstated reasons. Because the parameter space that is potentially relevant to species delimitation far exceeds the parameterization of any existing method, a given method necessarily makes a number of simplifying assumptions, any one of which could be violated in a particular system. We suggest that researchers should apply a wide range of species delimitation analyses to their data and place their trust in delimitations that are congruent across methods. Incongruence across the results from different methods is evidence of either a difference in the power to detect cryptic lineages across one or more of the approaches used to delimit species and could indicate that assumptions of one or more of the methods have been violated. In either case, the inferences drawn from species delimitation studies should be conservative, for in most contexts it is better to fail to delimit species than it is to falsely delimit entities that do not represent actual evolutionary lineages.

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Multilocus phylogeny and phylogenomics of Eriochrysis P. Beauv. (Poaceae-Andropogoneae): Taxonomic implications and evidence of interspecific hybridization.

TL;DR: The set of low-copy nuclear genes used in this study seems to be sufficient to resolve phylogenetic relationships and define the circumscriptions of other species complexes in the grass family and relatives, even in the presence of polyploidy and reticulate evolution.
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Exploring the Leaf Beetle Fauna (Coleoptera: Chrysomelidae) of an Ecuadorian Mountain Forest Using DNA Barcoding.

TL;DR: This study suggests that when applied to species communities on a regionally limited level with high amount of rare species, the choice of species delimitation method can be of minor relevance for assessing species numbers and turnover in tropical insect communities.
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Sampling related individuals within ponds biases estimates of population structure in a pond-breeding amphibian.

TL;DR: It is found that reduced sample sizes influenced parameter estimates more than the inclusion of siblings, but that within‐pond relatedness led to the inference of spurious population structure when analyses depended on allele frequencies.
Journal ArticleDOI

Genomic data reveal deep genetic structure but no support for current taxonomic designation in a grasshopper species complex.

TL;DR: This study highlights the importance of integrative approaches to identify taxonomic units and elucidate the evolutionary history of species and shows how traditional taxonomy has led to species designations that are supported neither by high throughput sequencing data nor by the quantitative integration of genomic information with other sources of evidence.
References
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Book

Model Selection and Multimodel Inference: A Practical Information-Theoretic Approach

TL;DR: The second edition of this book is unique in that it focuses on methods for making formal statistical inference from all the models in an a priori set (Multi-Model Inference).
Journal ArticleDOI

Inference of population structure using multilocus genotype data

TL;DR: Pritch et al. as discussed by the authors proposed a model-based clustering method for using multilocus genotype data to infer population structure and assign individuals to populations, which can be applied to most of the commonly used genetic markers, provided that they are not closely linked.
Book

On the Origin of Species by Means of Natural Selection, or, The Preservation of Favoured Races in the Struggle for Life

TL;DR: The "Penguin Classics" edition of "On the Origin of Species" as discussed by the authors contains an introduction and notes by William Bynum, and features a cover designed by Damien Hirst.
Book

Phylogeography: The History and Formation of Species

John C. Avise
TL;DR: This chapter discusses the history and Purview of Phylogeography, Genealogical Concordance, and Speciation Processes and Extended Genealogy Works and its applications to Speciation and Beyond.
Journal ArticleDOI

The Origin of Species by means of Natural Selection; or the Preservation of Favoured Races in the Struggle for Life

Alfred W. Bennett
- 01 Feb 1872 - 
TL;DR: A man is unworthy of the name of a man of science who, whatever may be his special branch of study, has not materially altered his views on some important points within the last twelve years.
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