166 Works

Perdigão: Leaf area index map in 2 m resolution (2019 version)

José Laginha Palma & Vasco Batista

Perdigão: ortophotos in 5cm and 20cm resolution

José Laginha Palma, Vasco Batista, Vitor Costa Gomes, João Correia Lopes, Jakob Mann & Ebba Dellwik

Perdigão: military charts raster map of Perdigão region

José Laginha Palma, Vasco Batista & Vitor Costa Gomes

Data from: The genomic impact of historical hybridization with massive mitochondrial DNA introgression

Fernando A. Seixas, Pierre Boursot & José Melo-Ferreira
Background: The extent to which selection determines interspecific patterns of genetic exchanges enlightens the role of adaptation in evolution and speciation. Often reported extensive interspecific introgression could be selection-driven, but also result from demographic processes, especially in cases of invasive species replacements, which can promote introgression at their front. Because invasion and selective sweeps similarly mold variation, population genetics evidence for selection can only be gathered in an explicit demographic framework. The Iberian hare, Lepus...

Data from: Hybridization patterns between two marine snails, Littorina fabalis and L. obtusata

Diana Costa, Graciela Sotelo, Antigoni Kaliontzopoulou, João Carvalho, Roger Butlin, Johan Hollander & Rui Faria
Characterizing the patterns of hybridization between closely related species is crucial to understand the role of gene flow in speciation. In particular, systems comprising multiple contacts between sister species offer an outstanding opportunity to investigate how reproductive isolation varies with environmental conditions, demography and geographic contexts of divergence. The flat periwinkles, Littorina obtusata and L. fabalis (Gastropoda), are two intertidal sister species with marked ecological differences compatible with late stages of speciation. Although hybridization between...

Data from: The evolutionary pathways for local adaptation in mountain hares

Iwona Giska, João Pimenta, Liliana Farelo, Pierre Boursot, Klaus Hackländer, Hannes Jenny, Neil Reid, W. Ian Montgomery, Paulo A. Prodöhl, Paulo C. Alves & José Melo-Ferreira
Understanding the evolution of local adaptations is a central aim of evolutionary biology and key for the identification of unique populations and lineages of conservation relevance. By combining RAD sequencing and whole-genome sequencing, we identify genetic signatures of local adaptation in mountain hares (Lepus timidus) from isolated and distinctive habitats of its wide distribution: Ireland, the Alps and Fennoscandia. We recovered full mitochondrial DNA sequences from whole-genome sequencing data and used it to recontruct the...

Data from: A low-latitude species pump: Peripheral isolation, parapatric speciation and mating-system evolution converge in a marine radiation

Susana C. Almeida, João Neiva, Filipe Sousa, Neusa Martins, Cymon J. Cox, José Melo-Ferreira, Michael D. Guiry Guiry, Ester A. Serrão & Gareth A. Pearson
Geologically recent radiation can shed light on speciation processes, but incomplete lineage sorting and introgressive gene flow render accurate evolutionary reconstruction and interpretation challenging. Independently evolving metapopulations of low-dispersal taxa may provide an additional level of phylogeographic information, given sufficiently broad sampling and genome-wide sequencing. Evolution in the marine brown algal genus Fucus in the south-eastern Atlantic was shaped by Quaternary climate-driven range shifts. Over this timescale, divergence and speciation occurred against a background of...

Data from: Genetic identification of Iberian rodent species using both mitochondrial and nuclear loci: application to non-invasive sampling

Soraia Barbosa, Joana Pauperio, Jeremy B. Searle & Paulo C. Alves
Species identification through non-invasive sampling is increasingly used in animal conservation genetics, given that it obviates the need to handle free-living individuals. Non-invasive sampling is particularly valuable for elusive and small species such as rodents. Although rodents are not usually assumed to be the most obvious target for conservation, of the 21 species or near-species present in Iberia, three are considered endangered and declining while several others are poorly studied. Here we develop a genetic...

Data from: Conservation implications of the evolutionary history and genetic diversity hotspots of the snowshoe hare

Ellen Cheng, Karen E. Hodges, José Melo-Ferreira, Paulo C. Alves & L. Scott Mills
With climate warming, the ranges of many boreal species are expected to shift northward and to fragment in southern peripheral ranges. To understand the conservation implications of losing southern populations, we examined range-wide genetic diversity of the snowshoe hare (Lepus americanus), an important prey species that drives boreal ecosystem dynamics. We analysed microsatellite (8 loci) and mitochondrial DNA sequence (cytochrome b and control region) variation in almost 1000 snowshoe hares. A hierarchical structure analysis of...

Data from: Disruptive viability selection on a black plumage trait associated with dominance

Paul Acker, Arnaud Grégoire, Margaux Rat, Claire N. Spottiswoode, René E. Van Dijk, Matthieu Paquet, Jennifer C. Kaden, Roger Pradel, Ben J. Hatchwell, Rita Covas & Claire Doutrelant
Traits used in communication, such as colour signals, are expected to have positive consequences for reproductive success, but their associations with survival are little understood. Previous studies have mainly investigated linear relationships between signals and survival, but both hump-shaped and U-shaped relationships can also be predicted, depending on the main costs involved in trait expression. Furthermore, few studies have taken the plasticity of signals into account in viability selection analyses. The relationship between signal expression...

Data from: Winter coat color polymorphisms identify global hotspots for evolutionary rescue from climate change

L. Scott Mills, Eugenia V. Bragina, Alexander V. Kumar, Marketa Zimova, Diana J.R. Lafferty, Jennifer Feltner, Brandon M. Davis, Klaus Hacklander, Paulo C. Alves, Jeffrey M. Good, Jose Melo-Ferreira, Andreas Dietz, Alexei V. Abramov, Natalia Lopatina & Kairsten Fay
Maintenance of biodiversity in a rapidly changing climate will depend on the efficacy of evolutionary rescue, whereby population declines due to abrupt environmental change are reversed by shifts in genetically-driven adaptive traits. However, a lack of traits known to be under direct selection by anthropogenic climate change has limited the incorporation of evolutionary processes into global conservation efforts. In 22 vertebrate species, some individuals undergo a seasonal color molt from summer brown to winter white...

Data from: Dressed to impress: breeding plumage as a reliable signal of innate immunity

Sara Pardal, Jose A. Alves, Paulo G. Mota & Jaime A. Ramos
Animal signals involved in sexual selection are often indicators of individual quality. The assumption that sexual characters such as breeding plumage may indicate immune state has rarely been tested in free-living migratory birds, particularly in relation to innate immunity. If sexual characters indeed reflect immune condition, then these could be used to evaluate individual quality. Melanin is a common pigment used in animal communication that mitigates the effects of oxidative stress and has positive effects...

Data from: Stable isotopes reveal differences in diet among reed bunting subspecies that vary in bill size

Júlio Manuel Neto, Luís De Oliveira Gordinho, Benjamin Vollot, Marcial Marín, Juan S. Monrós & Jason Newton
Reed bunting (Emberiza schoeniclus) subspecies vary considerably in bill size and shape and seem to be at an early stage of speciation, in which bill might be indirectly causing reproductive isolation. Hence, we evaluated whether bill size, as well as age and sex, are associated with foraging niche in three West European subspecies of reed bunting: the thin-billed schoeniclus, the intermediate-billed lusitanica and the thick-billed witherbyi. Blood sampling was undertaken at three sites in southwest...

Data from: Large birds travel farther in homogeneous environments

Marlee A. Tucker, Olga Alexandrou, , Keith L. Bildstein, Katrin Böhning-Gaese, Chloe Bracis, John N. Brzorad, Evan R. Buechley, David Cabot, Justin M. Calabrese, Carlos Carrapato, André Chiaradia, Lisa C. Davenport, Sarah C. Davidson, Mark Desholm, Christopher R. DeSorbo, Robert Domenech, Peter Enggist, William F. Fagan, Nina Farwig, Wolfgang Fiedler, Christen H. Fleming, Alastair Franke, John M. Fryxell, Clara García-Ripollés … & João Paulo Silva
Aim: Animal movement is an important determinant of individual survival, population dynamics, and ecosystem structure and function. Yet it is still unclear how local movements are related to resource availability and the spatial arrangement of resources. Using resident bird species and migratory bird species outside of the migratory period, we examined how the distribution of resources affect the movement patterns of both large terrestrial birds (e.g., raptors, bustards, hornbills) and waterbirds (e.g., cranes, storks, ducks,...

Data from: Naturalized plants decrease diet similarity between an invasive bird and its most similar native species

Gonçalo C. Rodrigues, Paulo Alves, Joana R. Vicente, João P. Honrado & Gonçalo C. Cardoso
Although invasive animals can compete with native species for resources, detrimental competition for food is seldom reported in the avian invasions literature. In temperate climates, food limitation and energetic stress are higher during winter and, thus, winter diets might reveal competition that is not apparent during the rest of the year. We compared autumn and winter diets of the invasive common waxbill (Estrilda astrild) in northwest Iberia, and of the native bird most similar to...

Data from: Stimulation of dopamine D1 receptor improves learning capacity in cooperating cleaner fish

João P. M. Messias, Teresa P. Santos, Maria Pinto & Marta C. Soares
Accurate contextual decision-making strategies are important in social environments. Specific areas in the brain are tasked to process these complex interactions and generate correct follow-up responses. The dorsolateral and dorsomedial parts of the telencephalon in the teleost fish brain are neural substrates modulated by the neurotransmitter dopamine (DA), and are part of an important neural circuitry that drives animal behaviour from the most basic actions such as learning to search for food, to properly choosing...

Data from: Genetic basis for red coloration in birds

Ricardo J Lopes, James D Johnson, Matthew B Toomey, Mafalda S Ferreira, Pedro M Araújo, José Melo-Ferreira, Leif Andersson, Geoffrey E Hill, Joseph C Corbo & Miguel Carneiro
The yellow and red feather pigmentation of many bird species [1] plays pivotal roles in social signaling and mate choice [2, 3]. To produce red pigments, birds ingest yellow carotenoids and endogenously convert them into red ketocarotenoids via an oxidation reaction catalyzed by a previously unknown ketolase [4–6]. We investigated the genetic basis for red coloration in birds using whole-genome sequencing of red siskins (Spinus cucullata), common canaries (Serinus canaria), and ‘‘red factor’’ canaries, which...

Data from: Female dietary bias towards large migratory moths in the European free-tailed bat (Tadarida teniotis)

Vanessa A. Mata, Francisco Amorim, Martin F. V. Corley, Gary F. McCracken, Hugo Rebelo & Pedro Beja
In bats, sexual segregation has been described in relation to differential use of roosting and foraging habitats. It is possible that variation may also exist between genders in the use of different prey types. However, until recently this idea was difficult to test owing to poorly resolved taxonomy of dietary studies. Here, we use high-throughput sequencing to describe gender-related variation in diet composition of the European free-tailed bat (Tadarida teniotis), while controlling for effects of...

Data from: Systematic site selection for multispecies monitoring networks

Silvia B. Carvalho, João Gonçalves, Antoine Guisan & João Honrado
The importance of monitoring biodiversity to detect and understand changes throughout time and to inform management is increasingly recognized. Monitoring schemes should be globally unified, spatially integrated across scales, long term, and cost-efficient. We propose a framework to design optimized multispecies-targeted monitoring networks over large areas. The method builds upon previous developments on systematic conservation planning in terms of optimizing resource allocation in space, and comprises seven steps: (a) determine which questions will be addressed,...

Data from: Recovery of large carnivores in Europe’s modern human-dominated landscapes

Guillaume Chapron, Petra Kaczensky, John D. C. Linnell, Manuela Von Arx, Djuro Huber, Henrik Andrén, José Vicente López-Bao, Michal Adamec, Francisco Álvares, Ole Anders, Linas Balčiauskas, Vaidas Balys, Péter Bedő, Ferdinand Bego, Juan Carlos Blanco, Urs Breitenmoser, Henrik Brøseth, Luděk Bufka, Raimonda Bunikyte, Paolo Ciucci, Alexander Dutsov, Thomas Engleder, Christian Fuxjäger, Claudio Groff, Katja Holmala … & Luigi Boitani
The conservation of large carnivores is a formidable challenge for biodiversity conservation. Using a data set on the past and current status of brown bears (Ursus arctos), Eurasian lynx (Lynx lynx), gray wolves (Canis lupus), and wolverines (Gulo gulo) in European countries, we show that roughly one-third of mainland Europe hosts at least one large carnivore species, with stable or increasing abundance in most cases in 21st-century records. The reasons for this overall conservation success...

Data from: Genome-wide evidence reveals that African and Eurasian Golden Jackals are distinct species

Klaus-Peter Koepfli, John Pollinger, Raquel Godinho, Jacqueline Robinson, Amanda Lea, Sarah Hendricks, Rena M. Schweizer, Olaf Thalmann, Pedro Silva, Zhenxin Fan, Andrey A. Yurchenko, Pavel Dobrynin, Alexey Makunin, James A. Cahill, Beth Shapiro, Francisco Álvares, José C. Brito, Eli Geffen, Jennifer A. Leonard, Kristofer M. Helgen, Warren E. Johnson, Stephen J. O'Brien, Blaire Van Valkenburgh & Robert K. Wayne
The golden jackal of Africa (Canis aureus) has long been considered a conspecific of jackals distributed throughout Eurasia, with the nearest source populations in the Middle East. However, two recent reports found that mitochondrial haplotypes of some African golden jackals aligned more closely to gray wolves (Canis lupus), which is surprising given the absence of gray wolves in Africa and the phenotypic divergence between the two species. Moreover, these results imply the existence of a...

Data from: The hidden history of the snowshoe hare, Lepus americanus: extensive mitochondrial DNA introgression inferred from multilocus genetic variation

José Melo-Ferreira, Fernando A. Seixas, Ellen Cheng, L. Scott Mills & Paulo C. Alves
Hybridization drives the evolutionary trajectory of many species or local populations, and assessing the geographic extent and genetic impact of interspecific gene flow may provide invaluable clues to understand population divergence or the adaptive relevance of admixture. In North America, hares (Lepus spp.) are key species for ecosystem dynamics and their evolutionary history may have been affected by hybridization. Here we reconstructed the speciation history of the three most widespread hares in North America -...

Data from: Not the time or the place: the missing spatio-temporal link in publicly available genetic data

Lisa C. Pope, Libby Liggins, Jude Keyse, Silvia B. Carvalho & Cynthia Riginos
Genetic data are being generated at unprecedented rates. Policies of many journals, institutions and funding bodies aim to ensure that these data are publicly archived so that published results are reproducible. Additionally, publicly archived data can be ‘repurposed’ to address new questions in the future. In 2011, along with other leading journals in ecology and evolution, Molecular Ecology implemented mandatory public data archiving (the Joint Data Archiving Policy). To evaluate the effect of this policy,...

Data from: The evolution of colour pattern complexity: selection for conspicuousness favours contrasting within-body colour combinations in lizards

Guillem Pérez I De Lanuza & Enrique Font
Many animals display complex colour patterns that comprise several adjacent, often contrasting colour patches. Combining patches of complementary colours increases the overall conspicuousness of the complex pattern, enhancing signal detection. Therefore, selection for conspicuousness may act not only on the design of single colour patches, but also on their combination. Contrasting long- and short-wavelength colour patches are located on the ventral and lateral surfaces of many lacertid lizards. As the combination of long- and short-wavelength-based...

Data from: The ‘golden kelp’ Laminaria ochroleuca under global change: integrating multiple eco-physiological responses with species distribution models

João N. Franco, Fernando Tuya, Iacopo Bertocci, Laura Rodriguez, Brezo Martinez, Isabel Sousa-Pinto & Francisco Arenas
1. The loss of marine foundation species, in particular kelps at temperate latitudes, has been linked to climatic drivers and co-occurring human perturbations. Ocean temperature and nutrients typically co-vary over local and regional scales and play a crucial role on kelp dynamics. Examining their independent and interactive effects on kelp physiological performance is essential to understand and predict patterns of kelp distribution, particularly under scenarios of global change. 2. Crossed combinations of ocean temperatures and...

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