30 Works

Data from: The role of the endemic and critically endangered Colorful Puffleg Eriocnemis mirabilis in plant-hummingbird networks of the Colombian Andes

Mónica B. Ramírez-Burbano, F. Gary Stiles, Catalina González, Felipe W. Amorim, Bo Dalsgaard, Pietro K. Maruyama. & Pietro K. Maruyama
Ecological network approaches may contribute to conservation practices by quantifying within-community importance of species. In mutualistic plant-pollinator systems, such networks reflect potential pollination of the plants and a considerable portion of the energy consumption by the pollinators, two key components for each party. Here, we used two different sampling approaches to describe mutualistic plant-hummingbird networks from a cloud forest in the Colombian Western Andes, home to the Colorful Puffleg Eriocnemis mirabilis, an endemic and critically...

Data from: Seasonal cycles, phylogenetic assembly, and functional diversity of orchid bee communities

Santiago R. Ramírez, Carlos Hernández, Andres Link & Margarita M. López-Uribe
Neotropical rainforests sustain some of the most diverse terrestrial communities on Earth. Euglossine (or orchid) bees are a diverse lineage of insect pollinators distributed throughout the American tropics, where they provide pollination services to a staggering diversity of flowering plant taxa. Elucidating the seasonal patterns of phylogenetic assembly and functional trait diversity of bee communities can shed new light into the mechanisms that govern the assembly of bee pollinator communities and the potential effects of...

Data from: DNA barcoding survey of anurans across the Eastern Cordillera of Colombia and the impact of the Andes on cryptic diversity

Carlos E. Guarnizo, Andrea Paz, Astrid Muñoz-Ortiz, Sandra V. Flechas, Javier Mendez-Narváez & Andrew J. Crawford
Colombia hosts the second highest amphibian species diversity on Earth, yet its fauna remains poorly studied, especially using molecular genetic techniques. We present the results of the first wide-scale DNA barcoding survey of anurans of Colombia, focusing on a transect across the Eastern Cordillera. We surveyed 10 sites between the Magdalena Valley to the west and the eastern foothills of the Eastern Cordillera, sequencing portions of the mitochondrial 16S ribosomal RNA and cytochrome oxidase subunit...

Data from: Hybridization promotes color polymorphism in the aposematic harlequin poison frog, Oophaga histrionica

Iliana Medina, Ian J. Wang, Camilo Salazar & Adolfo Amezquita
Whether hybridization can be a mechanism that drives phenotypic diversity is a widely debated topic in evolutionary biology. In poison frogs (Dendrobatidae), assortative mating has been invoked to explain how new color morphs persist despite the expected homogenizing effects of natural selection. Here, we tested the complementary hypothesis that new morphs arise through hybridization between different color morphs. Specifically, we (1) reconstructed the phylogenetic relationships among the studied populations of a dart-poison frog to provide...

Data from: Issues and perspectives in species delimitation using phenotypic data: Atlantean evolution in Darwin's finches

Carlos Daniel Cadena, Felipe Zapata & Iván Jiménez
Progress in the development and use of methods for species delimitation employing phenotypic data lags behind conceptual and practical advances in molecular genetic approaches. The basic evolutionary model underlying the use of phenotypic data to delimit species assumes random mating and quantitative polygenic traits, so that phenotypic distributions within a species should be approximately normal for individuals of the same sex and age. Accordingly, two or more distinct normal distributions of phenotypic traits suggest the...

Geographical variation in the trait-based assembly patterns of multitrophic invertebrate communities

Diane S. Srivastava, A. Andrew M. MacDonald, Valério D. Pillar, Pavel Kratina, Vanderlei J. Debastiani, Laura Melissa Guzman, M. Kurtis Trzcinski, Olivier Dézerald, Ignacio M. Barberis, Paula M. De Omena, Gustavo Q. Romero, Fabiola Ospina Bautista, Nicholas A. C. Marino, Céline Leroy, Vinicius F. Farjalla, Barbara A. Richardson, Ana Z. Gonçalves, Bruno Corbara, Jana S. Petermann, Michael J. Richardson, Michael C. Melnychuk, Merlijn Jocqué, Jacqueline T. Ngai, Stanislas Talaga, Gustavo C. O. Piccoli … & Régis Céréghino
It has been argued that the mechanisms structuring ecological communities may be more generalizable when based on traits than on species identities. If so, patterns in the assembly of community-level traits along environmental gradients should be similar in different places in the world. Alternatively, geographic change in the species pool and regional variation in climate might result in site-specific relationships between community traits and local environments. These competing hypotheses are particularly untested for animal communities....

Data from: Genetic diversity and population structure of the Pelagic Thresher Shark (Alopias pelagicus) in the Pacific Ocean: evidence for two evolutionarily significant units

Diego Cardeñosa, John Hyde & Susana Caballero
There has been an increasing concern about shark overexploitation in the last decade, especially for open ocean shark species, where there is a paucity of data about their life histories and population dynamics. Little is known regarding the population structure of the pelagic thresher shark, Alopias pelagicus. Though an earlier study using mtDNA control region data, showed evidence for differences between eastern and western Pacific populations, the study was hampered by low sample size and...

Data from: Conservation genetics of the scalloped hammerhead shark in the Pacific coast of Colombia

Sonia Quintanilla, Alberto Gomez, Camila Mariño-Ramírez, Carolina Sorzano, Sandra Bessudo, German Soler, Jaime E. Bernal & Susana Caballero
Previous investigations of the population genetics of the scalloped hammerhead sharks (Sphyrna lewini) in the Eastern Tropical Pacific have lacked information about nursery areas. Such areas are key to promoting conservation initiatives that can protect young sharks from threats such as overfishing. Here, we investigated the genetic diversity, phylogeography, and connectivity of S. lewini found in 3 areas of Colombia’s Pacific coast: around Malpelo Island and in 2 National Natural Parks on the Colombian Pacific...

Plant dispersal strategies of high tropical alpine communities across the Andes

Carolina Tovar, Inga Melcher, Buntarou Kusumoto, Francisco Cuesta, Antoine Cleef, Rosa Isela Meneses, Stephan Halloy, Luis Daniel Llambi, Stephan Beck, Priscilla Muriel, Ricardo Jaramillo, Jorge Jacome & Julieta Carilla
• Dispersal is a key ecological process that influences plant community assembly. Therefore, understanding whether dispersal strategies are associated with climate is of utmost importance, particularly in areas greatly exposed to climate change. We examined alpine plant communities located in the mountain summits of the tropical Andes across a 4000 km latitudinal gradient. We investigated species dispersal strategies and tested their association with climatic conditions and their evolutionary history. • We used dispersal-related traits (dispersal...

Data from: Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: new approaches to long-standing problems

Andrea M. Quattrini, Brant C. Faircloth, Luisa F. Dueñas, Thomas C.L. Bridge, Mercer R. Brügler, Ivan F. Calixto-Botía, Danielle M. DeLeo, Sylvain Foret, Santiago Herrera, Simon M.Y. Lee, David J. Miller, Carlos Prada, Gandhi Rádis-Baptista, Catalina Ramírez-Portilla, Juan A. Sánchez, Estefania Rodriguez, Catherine S. McFadden, Tom C. L. Bridge & Simon M. Y. Lee
Anthozoans (e.g., corals, anemones) are an ecologically important and diverse group of marine metazoans that occur from shallow to deep waters worldwide. However, our understanding of the evolutionary relationships among the ~7500 species within this class is hindered by the lack of phylogenetically informative markers that can be reliably sequenced across a diversity of taxa. We designed and tested 16,308 RNA baits to capture 720 Ultraconserved Element loci and 1,071 exon loci. Library preparation and...

Data associated with manuscript \"Predicting wave-induced sediment resuspension at the perimeter of lakes using a steady-state spectral wave model\"

Derek Roberts, S. Geoffrey Schladow, Simon Hook, Shohei Watanabe & Patricio Moreno-Casas
This repository includes data associated with the manuscript, "Predicting wave-induced sediment resuspension at the perimeter of lakes using a steady-state spectral wave model," currently in press at Water Resources Research as of January 2019. Following American Geophysical Union standards, this repository serves to publically share all data associated with the manuscript. Plain lanuage summary of the manuscript: A tool that describes lake-wide wave conditions as a function of combinations of wind speeds and directions is...

Data from: Constraints on the evolution of toxin-resistant Na,K-ATPases have limited dependence on sequence divergence

Shabnam Mohammadi, Santiago Herrera-Álvarez, Lu Yang, María Del Pilar Rodríguez-Ordoñez, Karen Zhang, Jay F. Storz, Susanne Dobler, Andrew J. Crawford & Peter Andolfatto
A growing body of theoretical and experimental evidence suggests that intramolecular epistasis is a major determinant of rates and patterns of protein evolution and imposes a substantial constraint on the evolution of novel protein functions. Here, we examine the role of intramolecular epistasis in the recurrent evolution of resistance to cardiotonic steroids (CTS) across tetrapods, which occurs via specific amino acid substitutions to the α-subunit family of Na,K-ATPases (ATP1A). After identifying a series of recurrent...

Data from: Conspicuousness, color resemblance, and toxicity in geographically diverging mimicry: the pan-Amazonian frog Allobates femoralis

Adolfo Amézquita, Óscar Ramos, Mabel Cristina González, Camilo Rodríguez, Iliana Medina, Pedro Ivo Simões & Albertina Pimentel Lima
Predation risk is allegedly reduced in Batesian and Müllerian mimics, because their coloration resembles the conspicuous coloration of unpalatable prey. The efficacy of mimicry is thought to be affected by variation in the unpalatability of prey, the conspicuousness of the signals, and the visual system of predators that see them. Many frog species exhibit small colorful patches contrasting against an otherwise dark body. By measuring toxicity and color reflectance in a geographically variable frog species...

Human perturbations reduce dung beetle diversity and dung removal ecosystem function

Jorge Ari Noriega
Biodiversity drives ecological functioning, ultimately providing ecosystem services. Ecosystem processes are favored by greater functional diversity, particularly when groups of functionally different species interact synergistically. Many of such functions are performed by insects, among which dung beetles stand out for their important role in dung decomposition. However, anthropogenic disturbances are negatively affecting their ecological dynamics and ecosystem services. We conducted a manipulative field study, to evaluate the effect of human disturbance on dung beetle diversity...

Dataset: Local hydrological conditions influence tree diversity and composition across the Amazon basin

Manuel J. Marca-Zevallos, Gabriel M. Moulatlet, Thaiane R. Sousa, Juliana Schietti, Luiz De Souza Coelho, José Ferreira Ramos, Diogenes De Andrade Lima Filho, Iêda Leão Amaral, Francisca Dionízia De Almeida Matos, Lorena M. Rincón, Juan David Cardenas Revilla, Marcelo Petratti Pansonato, Rogerio Gribel, Edelcilio Marques Barbosa, Ires Paula De Andrade Miranda, Luiz Carlos De Matos Bonates, Juan Ernesto Guevara, Rafael P. Salomão, Leandro Valle Ferreira, Dário Dantas Do Amaral, Nigel C.A. Pitman, Corine Vriesendorp, Tim R. Baker, Roel Brienen, Marcelo De Jesus Veiga Carim … & Flávia R.C. Costa
Tree diversity and composition in Amazonia are known to be strongly determined by the water supplied by precipitation. Nevertheless, within the same climatic regime, water availability is modulated by local topography and soil characteristics (hereafter referred to as local hydrological conditions), varying from saturated and poorly drained to well-drained and potentially dry areas. While these conditions may be expected to influence species distribution, the impacts of local hydrological conditions on tree diversity and composition remain...

Data for: Epistatic effects between amino acid insertions and substitutions mediate toxin-resistance of vertebrate Na+, K+-ATPases

Shabnam Mohammadi, Halil Özdemir, Pemra Ozbek, Fidan Sumbul, Josefin Stiller, Yuan Deng, Andrew Crawford, Hannah Rowland, Jay Storz, Peter Andolfatto & Susanne Dobler
The recurrent evolution of resistance to cardiotonic steroids (CTS) across diverse animals most frequently involves convergent amino-acid substitutions in the H1-H2 extracellular loop of Na+, K+-ATPase (NKA). Previous work revealed that hystricognath rodents (e.g. chinchilla) and pterocliform birds (sandgrouse) have convergently evolved amino-acid insertions in the H1-H2 loop, but their functional significance was not known. Using protein engineering, we show that these insertions have distinct effects on CTS resistance in homologs of each of the...

Data from: Multi-trait aposematic signal in Batesian mimicry

David Outomuro, Pedro Ángel-Giraldo, Alberto Corral-Lopez & Emilio Realpe
Batesian mimics can parasitize Müllerian mimicry rings mimicking the warning color signal. The evolutionary success of Batesian mimics can increase adding complexity to the signal by behavioral and locomotor mimicry. We investigated three fundamental morphological and locomotor traits in a Neotropical mimicry ring based on Ithomiini butterflies and parasitized by Polythoridae damselflies: wing color, wing shape, and flight style. The study species have wings with a subapical white patch, considered the aposematic signal, and a...

Data from: Sharp genetic discontinuity across a unimodal Heliconius hybrid zone

Carlos F. Arias, Claudia Rosales, Camilo Salazar, Jully Castano, Eldredge Bermingham, Mauricio Linares & W. Owen McMillan
Hybrid zones are powerful natural systems to study evolutionary processes to gain an understanding of adaptation and speciation. In the Cauca Valley (Colombia), two butterfly races, Heliconius cydno cydnides and Heliconius cydno weymeri, meet and hybridize. We characterized this hybrid zone using a combination of mitochondrial DNA (mtDNA) sequences, Amplified Fragment Length Polymorphisms (AFLPs), microsatellites, and sequences for nuclear loci within and outside of the genomic regions that cause differences in wing color pattern. The...

Data from: Stepwise colonization of the Andes by Ruddy Ducks and the evolution of novel β-globin variants

Violeta Muñoz-Fuentes, Maria Cortazar-Chinarro, Maria Lozano & Kevin G. McCracken
Andean uplift played a key role in Neotropical bird diversification, yet past dispersal and genetic adaptation to high-altitude environments remain little understood. Here we use multilocus population genetics to study population history and historical demographic processes in the ruddy duck (Oxyura jamaicensis), a stiff-tailed diving duck comprising three subspecies distributed from Canada to Tierra del Fuego and inhabiting wetlands from sea level to 4500 m in the Andes. We sequenced the mitochondrial DNA, four autosomal...

Data from: Environmental drivers of forest structure and stem turnover across Venezuelan tropical forests

Emilio Vilanova, Hirma Ramirez-Angulo, Armando Torres-Lezama, Gerardo Aymard, Luis Gámez, Cristabel Durán, Lionel Hernández, Rafael Herrera, Geertje Van Der Heijden, Oliver L. Phillips & Gregory J. Ettl
Using data from 50 long-term permanent plots from across Venezuelan forests in northern South America, we explored large-scale patterns of stem turnover, aboveground biomass (AGB) and woody productivity (AGWP), and the relationships between them and with potential climatic drivers. We used principal component analysis coupled with generalized least squares models to analyze the relationship between climate, forest structure and stem dynamics. Two major axes associated with orthogonal temperature and moisture gradients effectively described more than...

Data from: Population structure of riverine and coastal dolphins Sotalia fluviatilis and Sotalia guianensis: PATTERNS of nuclear and mitochondrial diversity AND implications for conservation

Susana Caballero, Claudia Hollatz, Sebastian Rodríguez, Fernando Trujillo & C. Scott Baker
Coastal and freshwater cetaceans are particularly vulnerable due to their proximity to human activity, localized distributions and small home ranges. These species include Sotalia guianensis, found in the Atlantic and Caribbean coastal areas of central and South America, and Sotalia fluviatilis, distributed in the Amazon River and tributaries. We investigated the population structure and genetic diversity of these two species by analyses of mtDNA control region and 8-10 microsatellite loci. MtDNA analyses revealed strong regional...

Data from: Range-wide populations of a long-distance migratory songbird converge during stopover in the tropics

Camila Gomez, Sara L. Guerrero, Alyssa M. FitzGerald, Nicholas J. Bayly, Keith A. Hobson & Carlos Daniel Cadena
Geographic convergence during migration influences the extent to which animal populations may experience carry-over effects across periods of the annual cycle. When most individuals of a population share geographic areas during a given period, carry-over effects are likely stronger than when individuals occupy multiple areas. We used genetic data and stable isotope (δ2H) measurements from feathers and claws to describe the likely breeding and wintering geographic origins of a long-distance migratory songbird (Gray-cheeked Thrush, Catharus...

Litter decomposition rates across tropical montane and lowland forests are controlled foremost by climate

Rebecca Ostertag, Carla Restrepo, Iveren Abeim, Roxana Aragón, Michelle Ataroff, Hazel Chapman, Belen Fadrique, Grizelle González, Achim Häger, Jürgen Homeier, Luis Daniel Llambí, Rikke Reese Næsborg, Laura Nohemy Poma López, Jorge Andrés Ramirez Correa, Klara Scharnagl, Conrado Tobón, James W. Dalling, Patrick H. Martin, Iveren Abiem, Shin‐Ichiro Aiba, Esteban Alvarez‐Dávila, Augusta Y. Cueva‐Agila, Romina D. Fernández, Sybil G. Gotsch, Carlos Iñiguez‐Armijos … & Cameron B. Williams
The “hierarchy of factors” hypothesis states that decomposition rates are controlled primarily by climatic, followed by biological and soil variables. Tropical montane forests (TMF) are globally important ecosystems, yet there have been limited efforts to provide a biome-scale characterization of litter decomposition. We designed a common litter decomposition experiment replicated in 23 tropical montane sites across the Americas, Asia, and Africa and combined these results with a previous study of 23 sites in tropical lowland...

Data from: Connectivity of Caribbean coral populations: complementary insights from empirical and modelled gene flow

Nicola L. Foster, Claire B. Paris, Johnathan T. Kool, Iliana B. Baums, Jamie R. Stevens, Juan A. Sánchez, Carolina Bastidas, Claudia Agudelo, Phillippe Bush, Owen Day, Renata Ferrari, Patricia Gonzalez, Shannon Gore, Reia Guppy, Michael A. McCartney, Croy McCoy, Judith Mendes, Ashwanth Srinivasan, Sascha Steiner, Mark J. A. Vermeij, Ernesto Weil & Peter J. Mumby
Understanding patterns of connectivity among populations of marine organisms is essential for the development of realistic, spatially explicit models of population dynamics. Two approaches, theoretical and empirical population genetic models, have been used to estimate levels of evolutionary connectivity among marine populations but rarely have their potentially-complementary insights been combined. Here, a spatially-realistic Lagrangian model of larval dispersal and a theoretical genetic model are integrated with the most extensive study of gene flow in a...

Data from: Spatial and temporal patterns of genetic variation in the widespread antitropical deep-sea coral Paragorgia arborea

Santiago Herrera, Timothy M. Shank & Juan A. Sánchez
Numerous deep-sea species have apparent widespread and discontinuous distributions. Many of these are important foundation species, structuring hard-bottom benthic ecosystems. Theoretically, differences in the genetic composition of their populations vary geographically and with depth. Previous studies have examined the genetic diversity of some of these taxa in a regional context, suggesting that genetic differentiation does not occur at scales of discrete features such as seamounts or canyons, but at larger scales (e.g. ocean basins). However,...

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