38 Works

Data from: An experimental demonstration that house finches add cigarette butts in response to ectoparasites

Monserrat Suárez-Rodríguez & Constantino Macías Garcia
Urban species encounter resources that are uncommon in nature, such as materials found in city waste. Many studies have shown that these can be harmful to wildlife. In Mexico City, house finches bring cigarette butts to their nests, which reduces the amount of ectoparasites, but also induces genotoxic damage in chicks and parents. Yet, the reason for this behaviour is unknown. One possibility is that birds extract the cellulose fibres from discarded butts simply because...

Data from: Morphological convergence in a Mexican garter snake associated with the ingestion of a novel prey

Javier Manjarrez, Constantino Macías Garcia & Hugh Drummond
Morphological convergence is expected when organisms which differ in phenotype experience similar functional demands, which lead to similar associations between resource utilization and performance. To consume prey with hard exoskeletons, snakes require either specialized head morphology, or to deal with them when they are vulnerable, e.g. during molting. Such attributes may in turn reduce the efficiency with which they prey on soft-bodied, slippery animals such as fish. Snakes which consume a range of prey may...

Data from: Microbiome symbionts and diet diversity incur costs on the immune system of insect larvae

Indrikis Krams, Sanita Kecko, Priit Jõers, Giedrius Trakimas, Didzis Elferts, Ronalds Krams, Severi Luoto, Markus J. Rantala, Inna Inashkina, Dita Gudrā, Dāvids Fridmanis, Jorge Contreras-Garduño, Lelde Grantiņa-Ieviņa & Tatjana Krama
Communities of symbiotic microorganisms that colonize the gastrointestinal tract play an important role in food digestion and protection against opportunistic microbes. Diet diversity increases the number of symbionts in the intestines, a benefit that is considered to impose no cost for the host organism. However, less is known about the possible immunological investments that hosts have to make in order to control the infections caused by symbiont populations that increase due to diet diversity. By...

Data from: Commonness, rarity and oligarchies of woody plants in the tropical dry forests of Mexico

John N. Williams, Irma Trejo & Mark W. Schwartz
We assessed woody plant communities in two widely separated forests in the tropical dry forest (TDF) biome of Mexico for evidence of similar patterns of species commonness and rarity. We used belt transects laid out along contour lines (i.e., constant elevation) and stratified across elevation gradients at sites in Jalisco and Oaxaca to sample woody plant species diversity, abundance, relative frequency and basal area. We assembled a combined species list and compared species found in...

Data from: A phylogenomic perspective on the biogeography of skinks in the Plestiodon brevirostris group inferred from target enrichment of ultraconserved elements

, Charles W. Linkem, Carlos J. Pavón-Vázquez, Adrián Nieto-Montes De Oca, John Klicka, John E. McCormack & Robert W. Bryson
Aim: The aim of our study was to reconstruct ancestral geographic distributions from time-calibrated phylogenies generated from phylogenomic data to answer three broad questions about the biogeography of skinks in the Plestiodon brevirostris group: (1) Are biogeographic patterns correlated with the formation of the Trans-Mexican Volcanic Belt? (2) Do different methods of phylogenetic estimation result in different topologies? If so, (3) are biogeographic reconstructions impacted by the use of different phylogenetic trees? Location: Mexico. Methods:...

Data from: Compensatory dynamics maintain bird phylogenetic diversity in fragmented tropical landscapes

José Carlos Morante Filho, Víctor Arroyo-Rodríguez, Edyla R. Andrade, Bráulio A. Santos, Eliana Cazetta, Deborah Faria & Edyla R. De Andrade
1.Tropical forest loss can drive the extinction of forest-dependent species. Yet, non-forest species can proliferate in deforested landscapes, thus enabling community-level attributes (e.g., total abundance and richness) to be maintained in the remaining forest patches. Such compensatory dynamics have been, however, poorly investigated regarding the phylogenetic dimension of species diversity. Here, we assessed whether compensatory dynamics can stabilize the phylogenetic richness, divergence and structure of bird communities in response to forest loss in two regions...

Data from: The role of livestock intensification and landscape structure in maintaining tropical biodiversity

Fredy Alvarado, Federico Escobar, David R. Williams, Víctor Arroyo-Rodríguez & Fernando Escobar-Hernández
1. As tropical cattle ranching continues to expand, successful conservation will require an improved understanding of the relative impacts of different livestock systems and landscape structure on biodiversity. Here, we provide the first empirical and multi-scale assessment of the relative effects of livestock intensification and landscape structure on biodiversity in the threatened tropical dry forests of Mesoamerica. 2. We used a dataset of dung beetles (169 372 individuals from 33 species) collected from twenty 1-km2...

Data from: When homoplasy is not homoplasy: dissecting trait evolution by contrasting composite and reductive coding

Alejandro Torres-Montúfar, Thomas Borsch & Helga Ochoterena
The conceptualization and coding of characters is a difficult issue in phylogenetic systematics, no matter which inference method is used when reconstructing phylogenetic trees or if the characters are just mapped onto a specific tree. Complex characters are groups of features that can be divided into simpler hierarchical characters (reductive coding), although the implied hierarchical relational information may change depending on the type of coding (composite vs reductive). Up to now, there is no common...

Data from: Canopy height variation and environmental heterogeneity in the tropical dry forests of coastal Oaxaca, Mexico

Silvia H. Salas-Morales, Edgar J. González, J.A. Meave & Jorge A. Meave
Despite its importance for carbon storage and other ecosystem functions, the variation of vegetation canopy height is not yet well understood. We examined the relationship between this community attribute and environmental heterogeneity in a tropical dry forest of southern Mexico. We sampled vegetation in 15 sites along a 100-km coastal stretch of Oaxaca State, and measured the heights of all woody plants (excluding lianas). The majority of the ca. 4000 individuals recorded concentrated in the...

Data from: Genomic footprints of adaptation in a cooperatively breeding tropical bird across a vegetation gradient

Flavia Termignoni-Garcia, Juan P. Jaramillo-Correa, Juan Chablé-Santos, Mark Liu, Allison J. Shultz, Scott V. Edwards, Patricia Escalante Pliego & Patricia Escalante-Pliego
Identifying the genetic basis of phenotypic variation and its relationship with the environment is key to understanding how local adaptations evolve. Such patterns are especially interesting among populations distributed across habitat gradients, where genetic structure can be driven by isolation by distance (IBD) and/or isolation by environment (IBE). Here, we used variation in ~1,600 high-quality SNPs derived from paired-end sequencing of double-digest restriction site-associated DNA (ddRAD-Seq) to test hypotheses related to IBD and IBE in...

Data from: Herbivory facilitates growth of a key reef-building Caribbean coral

Adam Suchley & Lorenzo Alvarez-Filip
The decline of reef-building corals in conjunction with shifts to short-lived opportunistic species has prompted concerns that Caribbean reef framework-building capacity has substantially diminished. Restoring herbivore populations may be a potential driver of coral recovery; however, the impact of herbivores on coral calcification has been little studied. We performed an exclusion experiment to evaluate the impact of herbivory on Orbicella faveolata coral growth over 14 months. The experiment consisted of three treatments: full exclusion cages;...

Data from: Sexual dimorphism and retinal mosaic diversification following the evolution of a violet receptor in butterflies

Kyle J. McCulloch, Furong Yuan, Ying Zhen, Matthew L. Aardema, Gilbert Smith, Jorge Llorente-Bousquets, Peter Andolfatto & Adriana D. Briscoe
Numerous animal lineages have expanded and diversified the opsin-based photoreceptors in their eyes underlying color vision behavior. However, the selective pressures giving rise to new photoreceptors and their spectral tuning remain mostly obscure. Previously, we identified a violet receptor (UV2) that is the result of a UV opsin gene duplication specific to Heliconius butterflies. At the same time the violet receptor evolved, Heliconius evolved UV-yellow coloration on their wings, due to the pigment 3-hydroxykynurenine (3-OHK)...

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...

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: Multiple scaling behavior and nonlinear traits in music scores

Alfredo González-Espinoza, Hernan Larralde, Gustavo Martinez-Mekler & Markus Mueller
We present a statistical analysis of music scores from different composers using detrended fluctuation analysis. We find different fluctuation profiles that correspond to distinct auto-correlation structures of the musical pieces. Further, we reveal evidence for the presence of nonlinear auto-correlations by estimating the detrended fluctuation analysis of the magnitude series, a result validated by a corresponding study of appropriate surrogate data. The amount and the character of nonlinear correlations vary from one composer to another....

Data from: A phylogenetic, biogeographic, and taxonomic study of all extant species of Anolis (Squamata; Iguanidae)

Steven Poe, Adrian Nieto-Montes De Oca, Omar Torres-Carvajal, Kevin De Queiroz, Julian A. Velasco, Brad Truett, Levi N. Gray, Mason J. Ryan, Gunther Kohler, Fernando Ayala-Varela & Ian Latella
Anolis lizards (anoles) are textbook study organisms in evolution and ecology. Although several topics in evolutionary biology have been elucidated by the study of anoles, progress in some areas has been hampered by limited phylogenetic information on this group. Here we present a phylogenetic analysis of all 379 extant species of Anolis, with new phylogenetic data for 139 species including new DNA data for 101 species. We use the resulting estimates as a basis for...

Data from: Experiencing El Niño conditions during early life reduces recruiting probabilities but not adult survival

Sergio Ancona, J. Jaime Zúñiga-Vega, Cristina Rodríguez & Hugh Drummond
In wild long-lived animals, analysis of impacts of stressful natal conditions on adult performance has rarely embraced the entire age-span, and the possibility that costs are expressed late in life has seldom been examined. Using 26 years of data from 8,541 fledglings and 1,310 adults of the blue-footed booby (Sula nebouxii), a marine bird that can live up to 23 years, we tested whether experiencing the warm waters and food scarcity associated with El Niño...

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: A new subfamily classification of the Leguminosae based on a taxonomically comprehensive phylogeny

, Anne Bruneau, Nasim Azani, Marielle Babineau, Edeline Gagnon, Carole Sinou, Royce Steeves, Erin Zimmerman, C. Donovan Bailey, Lynsey Kovar, Madhugiri Nageswara-Rao, Hannah Banks, RuthP. Clark, Manuel De La Estrella, Peter Gasson, GeoffreyC. Kite, BenteB. Klitgaard, GwilymP. Lewis, Danilo Neves, Gerhard Prenner, María De Lourdes Rico-Arce, ArianeR. Barbosa, Maria Cristina López-Roberts, Luciano Paganucci De Queiroz, PétalaG. Ribeiro … & Tingshuang Yi
The classification of the legume family proposed here addresses the long-known non-monophyly of the traditionally recognised subfamily Caesalpinioideae, by recognising six robustly supported monophyletic subfamilies. This new classification uses as its framework the most comprehensive phylogenetic analyses of legumes to date, based on plastid matK gene sequences, and including near-complete sampling of genera (698 of the currently recognised 765 genera) and ca. 20% (3696) of known species. The matK gene region has been the most...

Data from: Connecting genomic patterns of local adaptation and niche suitability in teosintes

Jonas Aguirre-Liguori, Maud Tenaillon, Alejandra Vázquez-Lobo, Brandon Gaut, Juan Jaramillo-Correa, Salvador Montes-Hernandez, Valeria Souza, L. E. Eguiarte, J. P. Jaramillo-Correa & M. I. Tenaillon
The central-abundance hypothesis predicts that local adaptation is a function of the distance to the center of a species’ geographic range. To test this hypothesis, we gathered genomic diversity data from 49 populations, 646 individuals and 33,464 SNPs of two wild relatives of maize, the teosintes Zea mays ssp. parviglumis and Zea. mays. ssp. mexicana. We examined the association between the distance to their climatic and geographic centroids and the enrichment of SNPs bearing signals...

Data from: Taxonomic and functional ant diversity along a secondary successional gradient in a tropical forest

Maya Rocha-Ortega, Xavier Arnan, José Domingos Ribeiro-Neto, Inara R. Leal, Mario E. Favila & Miguel Martínez-Ramos
The taxonomic diversity (TD) of tropical flora and fauna tends to increase during secondary succession. This increase may be accompanied by changes in functional diversity (FD), although the relationship between TD and FD is not well understood. To explore this relationship, we examined the correlations between the TD and FD of ants and forest age in secondary forests at the α- and β-diversity levels using single- and multi-trait-based approaches. Our objectives were to understand ant...

Data from: Long-term in situ persistence of biodiversity in tropical sky-islands revealed by landscape genomics

Alicia Mastretta-Yanes, Alexander T. Xue, Alejandra Moreno-Letelier, Tove H. Jørgensen, Nadir Alvarez, Daniel Piñero, Brent C. Emerson & Tove H. Jorgensen
Tropical mountains are areas of high species richness and endemism. Two historical phenomena may have contributed to this: (1) fragmentation and isolation of habitats may have promoted the genetic differentiation of populations and increased the possibility of allopatric divergence and speciation, and; (2) the mountain areas may have allowed long-term population persistence during global climate fluctuations. These two phenomena have been studied using either species occurrence data or estimating species divergence times. However, only few...

Data from: Habitat fragmentation and the prevalence of parasites (Diptera, Streblidae) on three Phyllostomid bat species

Beatriz Bolívar-Cimé, Alan Cuxim-Koyoc, Enrique Reyes-Novelo, Juan B. Morales-Malacara, Javier Laborde & Rafael Flores-Peredo
Ectoparasitism in bats seems to be influenced strongly by the type of roost preferred by the hosts, and group size; however, the effect of habitat loss and fragmentation on the prevalence of ectoparasites in bats has scarcely been studied. In northeastern Yucatan, Mexico, we estimated the prevalence of infestation by Streblidae flies in three phyllostomid bat species with different roost preferences (caves, trees, or both) in two types of landscape matrices (tropical semi-deciduous forest and...

Data from: High fidelity: extra-pair fertilisations in eight Charadrius plover species are not associated with parental relatedness or social mating system

Kathryn H. Maher, Luke J. Eberhart-Phillips, András Kosztolányi, Natalie Dos Remedios, María Cristina Carmona-Isunza, Medardo Cruz-López, Sama Zefania, James J. H. St Clair, Monif AlRashidi, Michael A. Weston, Martín A. Serrano-Meneses, Oliver Krüger, Joseph I. Hoffmann, Tamás Székely, Terry Burke, Clemens Küpper & Joseph I. Hoffman
Extra-pair paternity is a common reproductive strategy in many bird species. However, it remains unclear why extra-pair paternity occurs and why it varies among species and populations. Plovers (Charadrius spp.) exhibit considerable variation in reproductive behaviour and ecology, making them excellent models to investigate the evolution of social and genetic mating systems. We investigated inter- and intra-specific patterns of extra-pair parentage and evaluated three major hypotheses explaining extra-pair paternity using a comparative approach based on...

Data from: Finding a needle in a haystack: distinguishing Mexican maize landraces using a small number of SNPs

Jose Luis Caldu-Primo, Alicia Mastretta-Yanes, Ana Wegier & Daniel Piñero
In Mexico's territory, the center of origin and domestication of maize (Zea mays), there is a large phenotypic diversity of this crop. This diversity has been classified into “landraces.” Previous studies have reported that genomic variation in Mexican maize is better explained by environmental factors, particularly those related with altitude, than by landrace. Still, landraces are extensively used by agronomists, who recognize them as stable and discriminatory categories for the classification of samples. In order...

Registration Year

  • 2017

Resource Types

  • Dataset


  • National Autonomous University of Mexico
  • Instituto de Ecología
  • National Commission for the Knowledge and Use of Biodiversity
  • University of Edinburgh
  • Smithsonian Institution
  • Wageningen University & Research
  • Max Planck Institute for Ornithology
  • University of Bath
  • Universidade Federal de Goiás