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Alvarez P.,MATIS | Arthofer W.,University of Innsbruck | Coelho M.M.,University of Lisbon | Conklin D.,University of the Basque Country | And 15 more authors.
Molecular Ecology Resources | Year: 2015

This article documents the public availability of (i) microbiomes in diet and gut of larvae from the dipteran Dilophus febrilis using massive parallel sequencing, (ii) SNP and SSR discovery and characterization in the transcriptome of the Atlantic mackerel (Scomber scombrus, L) and (iii) assembled transcriptome for an endangered, endemic Iberian cyprinid fish (Squalius pyrenaicus). © 2015 John Wiley & Sons Ltd.

Gilbert K.J.,University of British Columbia | Andrew R.L.,University of British Columbia | Bock D.G.,University of British Columbia | Franklin M.T.,University of British Columbia | And 10 more authors.
Molecular Ecology | Year: 2012

Reproducibility is the benchmark for results and conclusions drawn from scientific studies, but systematic studies on the reproducibility of scientific results are surprisingly rare. Moreover, many modern statistical methods make use of 'random walk' model fitting procedures, and these are inherently stochastic in their output. Does the combination of these statistical procedures and current standards of data archiving and method reporting permit the reproduction of the authors' results? To test this, we reanalysed data sets gathered from papers using the software package structure to identify genetically similar clusters of individuals. We find that reproducing structure results can be difficult despite the straightforward requirements of the program. Our results indicate that 30% of analyses were unable to reproduce the same number of population clusters. To improve this, we make recommendations for future use of the software and for reporting structure analyses and results in published works. © 2012 Blackwell Publishing Ltd.

Students of speciation have long recognized that hybridization between populations does not affect all parts of the genome in the same way (Key 1968, Bazykin 1969, Wu 2001, Nosil et al. 2009). For example, divergence is expected to be high at loci involved in Dobzhansky-Muller incompatibilities or at loci under divergent natural selection, while those that are effectively neutral should show only weak divergence. Studies that examine geographical clines at divergent loci in a hybrid zone can be particularly powerful, as here one can estimate how net selection is affecting each locus (Payseur 2010). An excellent example of this approach appears in this issue (Larson et al. 2014) for a hybrid zone between the crickets Gryllus firmus and Gryllus pennsylvanicus in the eastern United States. © 2014 John Wiley & Sons Ltd.

Agata K.,6270 University Blvd | Agata K.,Kyoto University | Alasaad S.,CSIC - Donana Biological Station | Alasaad S.,University of Jaen | And 80 more authors.
Molecular Ecology Resources | Year: 2011

This article documents the addition of 238 microsatellite marker loci to the Molecular Ecology Resources Database. Loci were developed for the following species: Alytes dickhilleni, Arapaima gigas, Austropotamobius italicus, Blumeria graminis f. sp. tritici, Cobitis lutheri, Dendroctonus ponderosae, Glossina morsitans morsitans, Haplophilus subterraneus, Kirengeshoma palmata, Lysimachia japonica, Macrolophus pygmaeus, Microtus cabrerae, Mytilus galloprovincialis, Pallisentis (Neosentis) celatus, Pulmonaria officinalis, Salminus franciscanus, Thais chocolata and Zootoca vivipara. These loci were cross-tested on the following species: Acanthina monodon, Alytes cisternasii, Alytes maurus, Alytes muletensis, Alytes obstetricans almogavarii, Alytes obstetricans boscai, Alytes obstetricans obstetricans, Alytes obstetricans pertinax, Cambarellus montezumae, Cambarellus zempoalensis, Chorus giganteus, Cobitis tetralineata, Glossina fuscipes fuscipes, Glossina pallidipes, Lysimachia japonica var. japonica, Lysimachia japonica var. minutissima, Orconectes virilis, Pacifastacus leniusculus, Procambarus clarkii, Salminus brasiliensis and Salminus hilarii. © 2011 Blackwell Publishing Ltd.

Andrew R.L.,University of British Columbia | Bernatchez L.,Laval University | Bonin A.,CNRS Alpine Ecology Laboratory | Buerkle C.A.,University of Wyoming | And 15 more authors.
Molecular Ecology | Year: 2013

The discipline of molecular ecology has undergone enormous changes since the journal bearing its name was launched approximately two decades ago. The field has seen great strides in analytical methods development, made groundbreaking discoveries and experienced a revolution in genotyping technology. Here, we provide brief perspectives on the main subdisciplines of molecular ecology, describe key questions and goals, discuss common challenges, predict future research directions and suggest research priorities for the next 20 years. © 2013 Blackwell Publishing Ltd.

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