282 Works

Data from: Understanding the formation of ancient intertropical disjunct distributions using Asian and Neotropical hinged-teeth snakes (Sibynophis and Scaphiodontophis: Serpentes: Colubridae)

Xin Chen, Song Huang, Peng Guo, Guarino R. Colli, Adrián Nieto Montes De Oca, Laurie J. Vitt, R. Alexander Pyron & Frank T. Burbrink
Numerous taxa show ancient intertropical disjunct distributions. Many can be explained by well-known processes of historical vicariance, such as the breakup of Gondwanaland. Others, such as Asian–Neotropical divergences are not as well understood. To clarify the phylogenetic position and understand biogeographic and temporal origins the geographically disjunct and morphologically unique genera of hinged-teeth snakes, Scaphiodontophis (n = 1) and Sibynophis (n = 9; Colubridae), we inferred a time-calibrated phylogeny with additional 107 taxa representing the...

Data from: Conformational dynamics in TRPV1 channels reported by an encoded coumarin amino acid

Ximena Steinberg, Marina A. Kasimova, Deny Cabezas-Bratesco, Jason D. Galpin, Ernesto Ladron-De-Guevara, Federica Villa, Vincenzo Carnevale, Leon Islas, Christopher A. Ahern & Sebastian E Brauchi
TRPV1 channels support the detection of noxious and nociceptive input. Currently available functional and structural data suggest that TRPV1 channels have two gates within their permeation pathway: one formed by a ′bundle-crossing′ at the intracellular entrance and a second constriction at the selectivity filter. To describe conformational changes associated with channel gating, the fluorescent non-canonical amino acid coumarin-tyrosine was genetically encoded at Y671, a residue proximal to the selectivity filter. Total internal reflection fluorescence microscopy...

Data from: Contemporaneous radiations of fungi and plants linked to symbiosis

François Lutzoni, Michael D. Nowak, Michael E. Alfaro, Valérie Reeb, Jolanta Miadlikowska, Michael Krug, A. Elizabeth Arnold, Louise A. Lewis, David L. Swofford, David Hibbett, Khidir Hilu, Timothy Y. James, Dietmar Quandt & Susana Magallón
Interactions between fungi and plants, including parasitism, mutualism, and saprotrophy, have been invoked as key to their respective macroevolutionary success. Here we evaluate the origins of plant-fungal symbioses and saprotrophy using a time-calibrated phylogenetic framework that reveals linked and drastic shifts in diversification rates of each kingdom. Fungal colonization of land was associated with at least two origins of terrestrial green algae and preceded embryophytes (as evidenced by losses of fungal flagellum, ca. 720 Ma),...

Data from: Genomewide genotyping of a novel Mexican Chile Pepper collection illuminates the history of landrace differentiation after Capsicum annuum L. domestication

Nathan Taitano, Vivian Bernau, Lev Jardón-Barbolla, Brian Leckie, Michael Mazourek, Kristin Mercer, Leah McHale, Andrew Michel, David Baumler, Michael Kantar, Esther Van Der Knapp & Esther Van Der Knaap
Studies of genetic diversity among phenotypically distinct crop landraces improve our understanding of fruit evolution and genome structure under domestication. Chile peppers (Capsicum spp. L.) are economically valuable and culturally important species, and extensive phenotypic variation among landraces exists in southern Mexico, a center of C. annuum diversity. We collected 103 chile pepper seed accessions from 22 named landraces across 27 locations in southern Mexico. We genotyped these accessions with genotyping-by-sequencing (GBS), yielding 32,623 filtered...

Data from: Larger brain size indirectly increases vulnerability to extinction in mammals

Alejandro Gonzalez-Voyer, Manuela González-Suárez, Carles Vilà & Eloy Revilla
Although previous studies have addressed the question of why large brains evolved, we have limited understanding of potential beneficial or detrimental effects of enlarged brain size in the face of current threats. Using novel phylogenetic path analysis, we evaluated how brain size directly and indirectly, via its effects on life-history and ecology, influences vulnerability to extinction across 474 mammalian species. We found that larger brains, controlling for body size, indirectly increase vulnerability to extinction by...

Data from: EDAPHOLOG monitoring system: automatic, real-time detection of soil microarthropods

Miklós Dombos, Oxána Bánszegi, Katalin Szlávecz & Andrés Kosztolányi
Soil microarthropods as organic matter decomposers play an important role in soil functioning thus providing ecosystem services. However, ecosystem scale investigations on their abundance and dynamics are scarce because their high spatio-temporal heterogeneity requires huge sample size. Processing and identifying large number of individuals are extremely labour-intensive. We prototyped a device called EDAPHOLOG monitoring system that consists of (1) a probe that catches and detects microarthropods and estimates their body size; (2) a data logger...

Data from: Locating evolutionary precursors on a phylogenetic tree

Brigitte Marazzi, Cecile M. Ane, Marcelo F. Simon, Melissa A. Luckow, Alfonso Delgado-Salinas & Michael J. Sanderson
Conspicuous innovations in the history of life are often preceded by more cryptic genetic and developmental precursors. In many cases, these appear to be associated with recurring origins of very similar traits in close relatives (parallelisms) or striking convergences separated by deep time (“deep homologies”). Although the phylogenetic distribution of gain and loss of traits hints strongly at the existence of such precursors, no models of trait evolution currently permit inference about their location on...

Data from: Reproductive ecology and isolation of Psittacanthus calyculatus and P. auriculatus mistletoes (Loranthaceae)

Sergio Díaz Infante, Carlos Lara, María Del Coro Arizmendi, Luis E. Eguiarte & Juan Francisco Ornelas
Background: Relationships between floral biology and pollinator behavior are important to understanding species diversity of hemiparasitic Psittacanthus mistletoes (c. 120 species). We aimed to investigate trait divergence linked to pollinator attraction and reproductive isolation (RI) in two hummingbird-pollinated and bird-dispersed Psittacanthus species with range overlap. Methods: We investigated the phylogenetic relationships, floral biology, pollinator assemblages, seed dispersers and host usage, and the breeding system and female reproductive success of two sympatric populations of P. calyculatus...

Data from: Mycorrhizal symbiosis increases the benefits of plant facilitative interactions

Alicia Montesinos Navarro, Alfonso Valiente-Banuet & Miguel Verdu
The diversity of pathways through which mycorrhizal fungi alter plant coexistence hinders the understanding of their effects on plant-plant interactions. The outcome of plant facilitative interactions can be indirectly affected by mycorrhizal symbiosis, ultimately shaping biodiversity patterns. We tested whether mycorrhizal symbiosis enhances plant facilitative interactions and whether its effect is consistent across different methodological approaches and biological scenarios. We conducted a meta-analysis of 215 cases (involving 21 nurse and 29 facilitated species), in which...

Data from: Better stay together: pair bond duration increases individual fitness independent of age-related variation

Oscar Sánchez-Macouzet, Cristina Rodríguez & Hugh Drummond
Prolonged pair bonds have the potential to improve reproductive performance of socially monogamous animals by increasing pair familiarity and enhancing coordination and cooperation between pair members. However, this has proved very difficult to test robustly because of important confounds such as age and reproductive experience. Here, we address limitations of previous studies and provide a rigorous test of the mate familiarity effect in the socially monogamous blue-footed booby, Sula nebouxii, a long-lived marine bird with...

Data from: Timing of rapid diversification and convergent origins of active pollination within Agavoideae (Asparagaceae)

Michael R. McKain, Joel R. McNeal, P. Roxanne Kellar, Luis E. Eguiarte, J. Chris Pires, James Leebens-Mack & Jim Leebens-Mack
PREMISE OF THE STUDY: Yucca species are ideal candidates for the study of coevolution due to the obligate mutualism they form with yucca moth pollinators (genera Tegeticula and Parategeticula). Yuccas are not the only species to exhibit a mutualism with yucca moths; the genus Hesperoyucca is pollinated by the California yucca moth (Tegeticula maculata). Relationships among yuccas, Hesperoyucca, and other members of subfamily Agavoideae are necessary to understand the evolution of this unique pollination syndrome....

Data from: Species diversification in a lineage of Mexican red oak (Quercus section Lobatae subsection Racemiflorae)—the interplay between distance, habitat, and hybridization

Ross A. McCauley, Aurea C. Cortés-Palomec & Ken Oyama
In widespread taxa in which hybridization is suspected of being an important aspect of species biology, the patterns and drivers of lineage diversification are not always clear. Here, we examine the patterns of species diversification in a monophyletic lineage of oaks endemic to western Mexico, a center of global oak diversity. This group of four species inhabits a variety of soil types and exhibits varying patterns of species distribution ranging from widespread to restricted, with...

Data from: Infection with Batrachochytrium dendrobatidis is common in tropical lowland habitats: implications for amphibian conservation

Hector Zumbado-Ulate, Adrián García-Rodríguez, Vance T. Vredenburg & Catherine Searle
Numerous species of amphibians declined in Central America during the 1980s and 1990s. These declines mostly affected highland stream amphibians and have been primarily linked to chytridiomycosis, a deadly disease caused by the chytrid fungus Batrachochytrium dendrobatidis (Bd). Since then, the majority of field studies on Bd in the Tropics have been conducted in midland and highland environments (>800 m) mainly because the environmental conditions of mountain ranges match the range of ideal abiotic conditions...

Data from: Abortion legislation, maternal healthcare, fertility, female literacy, sanitation, violence against women, and maternal deaths: a natural experiment in 32 Mexican states

Elard Koch, Monique Chireau, Fernando Pliego, Joseph Stanford, Sebastián Haddad, Byron Calhoun, Paula Aracena, Miguel Bravo, Sebastián Gatica & John Thorp
Objective: To test whether there is an association between abortion legislation and maternal mortality outcomes after controlling for other factors thought to influence maternal health. Design: Population-based natural experiment. Setting and data sources: Official maternal mortality data from 32 federal states of Mexico between 2002 and 2011. Main outcomes: Maternal mortality ratio (MMR), MMR with any abortive outcome (MMRAO) and induced abortion mortality ratio (iAMR). Independent variables: Abortion legislation grouped as less (n=18) or more...

Data from: A metadata approach to evaluate the state of ocean knowledge: strengths, limitations, and application to Mexico

Juliano Palacios-Abrantes, Andrés M. Cisneros-Montemayor, Miguel A. Cisneros-Mata, Laura Rodríguez, Francisco Arreguín-Sánchez, Veronica Aguilar, Santiago Domínguez-Sánchez, Stuart Fulton, Raquel López-Sagástegui, Hector Reyes-Bonilla, Rocio Rivera-Campos, Silvia Salas, Nuno Simoes & William W. L. Cheung
Climate change, mismanaged resource extraction, and pollution are reshaping global marine ecosystems with direct consequences on human societies. Sustainable ocean development requires knowledge and data across disciplines, scales and knowledge types. Although several disciplines are generating large amounts of data on marine socio-ecological systems, such information is often underutilized due to fragmentation across institutions or stakeholders, limited standardization across scale, time or disciplines, and the fact that information is often not searchable within existing databases....

Data from: Genetic diversity and population history of the endangered killifish Aphanius baeticus

Elena G. Gonzalez, Carlos Pedraza-Lara & Ignacio Doadrio
The secondary freshwater fish fauna of the western-Iberian Peninsula basin is primarily restricted to local coastal streams, and man-made salt evaporation ponds, etc., which are susceptible to periodical flood and drought events. Despite its uniqueness in ecological adaptation to high saltwater tolerance, very little is known about this fauna’s population dynamics and evolutionary history. The killifish, Aphanius baeticus (Cyprinodontidae) is an endemic species restricted to river basins on Spain’s southern Atlantic coastline, considered as “Endangered.”...

Data from: Sweat bees on hot chillies: provision of pollination services by native bees in traditional slash-and-burn agriculture in the Yucatán Peninsula of tropical Mexico

Patricia Landaverde-González, José Javier G. Quezada-Euán, Panagiotis Theodorou, Tomás E. Murray, Martin Husemann, Ricardo Ayala, Humberto Moo-Valle, Rémy Vandame & Robert J. Paxton
Traditional tropical agriculture often entails a form of slash-and-burn land management that may adversely affect ecosystem services such as pollination, which are required for successful crop yields. The Yucatán Peninsula of Mexico has a >4000 year history of traditional slash-and-burn agriculture, termed ‘milpa’. Hot ‘Habanero’ chilli is a major pollinator-dependent crop that nowadays is often grown in monoculture within the milpa system. We studied 37 local farmers’ chilli fields (sites) to evaluate the effects of...

Data from: Evolution of the MHC-DQB exon 2 in marine and terrestrial mammals

María José Villanueva-Noriega, Charles Scott Baker & Luis Medrano-González
On the basis of a general low polymorphism, several studies suggest that balancing selection in the class II major histocompatibility complex (MHC) is weaker in marine mammals as compared with terrestrial mammals. We investigated such differential selection among Cetacea, Artiodactyla, and Primates at exon 2 of MHC-DQB gene by contrasting indicators of molecular evolution such as occurrence of transpecific polymorphisms, patterns of phylogenetic branch lengths by codon position, rates of nonsynonymous and synonymous substitutions as...

Data from: Dietary overlap and seasonality in three species of mormoopid bats from a tropical dry forest

Valeria B. Salinas-Ramos, Luis Gerardo Herrera Montalvo, Virginia León-Regagnon, Aitor Arrizabalaga-Escudero & Elizabeth L. Clare
Competing hypotheses explaining species’ use of resources have been advanced. Resource limitations in habitat and/or food are factors that affect assemblages of species. These limitations could drive the evolution of morphological and/or behavioural specialization, permitting the coexistence of closely related species through resource partitioning and niche differentiation. Alternatively, when resources are unlimited, fluctuations in resources availability will cause concomitant shifts in resource use regardless of species identity. Here, we used next-generation sequencing to test these...

Data from: Do male fish prefer them big and colourful? Non-random male courtship effort in a viviparous fish with negligible paternal investment

Marcela Méndez-Janovitz & Constantino Macías Garcia
In the majority of sexual species, there are asymmetries in reproductive effort, with males typically investing more in securing matings and females investing more in producing offspring. This causes males to mate less discriminately than females. Yet males may also become choosy if the following conditions are met: (a) that females vary in their reproductive value, (b) that males can perceive this variation, and (c) that mating with one female reduces the possibility of mating...

Data from: Successional dynamics of the bee community in a tropical dry forest: insights from taxonomy and functional ecology

Melbi A. Ramos-Fabiel, Eduardo A. Pérez-García, Edgar J. González, Olivia Yáñez-Ordoñez & Jorge A. Meave
Despite the recent rapid growth of tropical dry forest succession ecology, most studies on this topic have focused on plant community attribute recovery, whereas animal community successional dynamics has been largely overlooked, and the few existing studies have used taxonomic approaches. Here, we analyze the successional changes in the bee community in a Mexican tropical dry forest, by integrating taxonomic (species, genus, and family diversity) and functional (sociability, nesting strategy, and body size) information for...

Data from: Differences in nitrogen cycling between tropical dry forests with contrasting precipitation revealed by stable isotopes of nitrogen in plants and soils

Anaitzi Rivero-Villar, Pamela H. Templer, Víctor Parra-Tabla, Julio Campo. & Julio Campo
Despite the known links between climate and biogeochemical cycling of N in tropical forests, fundamental knowledge of N cycling is still far from complete. Our objective was to ascertain differences in the N cycle of two tropical dry forests under contrasting precipitation regime (1240 or 642 mm of mean annual rainfall). To do so, we examined a short-term metric of N cycling (N concentration) and a more integrated metric of N cycling (natural abundance 15N)...

Data from: Biotic and abiotic variables influencing plant litter breakdown in streams: a global study

Luz Boyero, Richard Pearson, Cang Hui, Mark Gessner, Javier Perez, Markos Alexandrou, Manuel Graça, Bradley Cardinale, Ricardo Albariño, M. Arunachalam, Leon Barmuta, Andrew Boulton, Andreas Bruder, Marcos Callisto, Eric Chauvet, Russell Death, David Dudgeon, Andrea Encalada, Veronica Ferreira, Ricardo Figueroa, Alex Flecker, , Julie Helson, Tomoya Iwata, Tajang Jinggut … & Catherine Yule
Plant litter breakdown is a key ecological process in terrestrial and freshwater ecosystems. Streams and rivers, in particular, have high rates of carbon dioxide evasion and they contribute substantially to global carbon fluxes. However, there is little information available on the relative roles of different drivers of plant litter breakdown in fresh waters, particularly at large scales. We present a global-scale study of litter breakdown in streams to compare the roles of biotic, climatic and...

Data from: Drivers of the spatial scale that best predict primate responses to landscape structure

Carmen Galán-Acedo, Victor Arroyo-Rodriguez, Alejandro Estrada & Gabriel Ramos-Fernández
Understanding the effect of landscape structure on biodiversity is critically needed to improve management strategies. To accurately evaluate such effect, landscape metrics need to be assessed at the correct scale, i.e. considering the spatial extent at which species‐landscape relationship is strongest (scale of effect, SE). Although SE is highly variable, its drivers are poorly known, but of key relevance to understand the way species use the landscape. In this study, we evaluate whether and how...

Data from: Epigenomic study identifies a novel mesenchyme homeobox2-GLI1 transcription axis involved in cancer drug resistance, overall survival and therapy prognosis in lung cancer patients

Leonel Armas-López, Patricia Piña-Sanchez, Oscar Arrieta, Enrique Guzman De Alba, Blanca Ortiz-Quintero, Patricio Santillán-Doherty, David C. Christiani, Joaquín Zúñiga & Federico Ávila-Moreno
Several homeobox-related gene (HOX) transcription factors such as mesenchyme HOX-2 (MEOX2) have previously been associated with cancer drug resistance, malignant progression and/or clinical prognostic responses in lung cancer patients; however, the mechanisms involved in these responses have yet to be elucidated. Here, an epigenomic strategy was implemented to identify novel MEOX2 gene promoter transcription targets and propose a new molecular mechanism underlying lung cancer drug resistance and poor clinical prognosis. Chromatin immunoprecipitation (ChIP) assays derived...

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