Journal ArticleDOI
Genealogical trees, coalescent theory and the analysis of genetic polymorphisms
TLDR
Improvements in genotyping technologies have led to the increased use of genetic polymorphism for inference about population phenomena, such as migration and selection, which presents a challenge in analysis of polymorphism data.Abstract:
Improvements in genotyping technologies have led to the increased use of genetic polymorphism for inference about population phenomena, such as migration and selection. Such inference presents a challenge, because polymorphism data reflect a unique, complex, non-repeatable evolutionary history. Traditional analysis methods do not take this into account. A stochastic process known as the 'coalescent' presents a coherent statistical framework for analysis of genetic polymorphisms.read more
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DnaSP v5
Pablo Librado,Julio Rozas +1 more
TL;DR: Version 5 implements a number of new features and analytical methods allowing extensive DNA polymorphism analyses on large datasets, including visualizing sliding window results integrated with available genome annotations in the UCSC browser.
Journal Article
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.
TL;DR: It is suggested that the natural selection against large insertion/deletion is so weak that a large amount of variation is maintained in a population.
Journal ArticleDOI
DnaSP, DNA polymorphism analyses by the coalescent and other methods.
TL;DR: The present version of DnaSP introduces several new modules and features which, among other options, allow handling big data sets and conducting a large number of coalescent-based tests by Monte Carlo computer simulations.
Journal ArticleDOI
Sequence-Based Species Delimitation for the DNA Taxonomy of Undescribed Insects
Joan Pons,Joan Pons,Timothy G. Barraclough,Timothy G. Barraclough,Jesús Gómez-Zurita,Jesús Gómez-Zurita,Anabela Cardoso,Anabela Cardoso,Daniel P. Duran,Steaphan Hazell,Steaphan Hazell,Sophien Kamoun,William D. Sumlin,Alfried P. Vogler,Alfried P. Vogler +14 more
TL;DR: In this paper, the authors use mitochondrial DNA variation to delimit species in a poorly known beetle radiation in the genus Rivacindela from arid Australia, using a new likelihood method that determines the point of transition from species-level (speciation and extinction) to population-level evolutionary processes.
Journal ArticleDOI
The incomplete natural history of mitochondria
TL;DR: A critical examination of the neglected biology of mitochondria is carried out and several surprising gaps in the state of the authors' knowledge about this important organelle are pointed out.
References
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Journal Article
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.
TL;DR: It is suggested that the natural selection against large insertion/deletion is so weak that a large amount of variation is maintained in a population.
Journal ArticleDOI
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.
TL;DR: The relationship between the two estimates of genetic variation at the DNA level, namely the number of segregating sites and the average number of nucleotide differences estimated from pairwise comparison, is investigated in this article.
Journal ArticleDOI
Mutations of bacteria from virus sensitivity to virus resistance
Salvador E. Luria,Max Delbrück +1 more
TL;DR: This article reported Luria and Delbruck's breakthrough study in which they established that viruses do not induce mutations in bacteria, but that virus-resisting mutations are spontaneous.
Journal ArticleDOI
Evolutionary relationship of dna sequences in finite populations
TL;DR: These studies indicate that the estimates of the average number of nucleotide differences and nucleon diversity have a large variance, and a large part of this variance is due to stochastic factors.
Journal ArticleDOI
Gene Trees in Species Trees
TL;DR: When gene copies are sampled from various species, the gene tree relating these copies might disagree with the species phylogeny, and discord can arise from horizontal transfer, lineage sorting, and gene duplication and ex- tinction.