13 Works

Data from: Idenitfying hybrids & the genomics of hybridization: mallards & American black ducks of Eastern North America

Philip Lavretsky, Thijs Janzen & Kevin G. McCracken
Resolving evolutionary relationships and establishing population structure depends on molecular diagnosability that is often limited for closely related taxa. Here, we use 3,200 ddRAD-seq loci across 290 mallards, American black ducks, and putative hybrids to establish population structure and estimate hybridization rates. We test between traditional assignment probability and accumulated recombination events based analyses to assign hybrids to generational classes. For hybrid identification, we report the distribution of recombination events complements ADMIXTURE simulation by extending...

Data from: Seed-dispersal networks in tropical forest fragments: area effects, remnant species, and interaction diversity

Carine Emer, Pedro Jordano, Marco Aurélio Pizo, Milton Cezar Ribeiro, Fernanda Ribeiro Da Silva & Mauro Galetti
Seed dispersal interactions involve key ecological processes in tropical forests that help to maintain ecosystem functioning. Yet this functionality may be threatened by increasing habitat loss, defaunation and fragmentation. However, generalist species, and their interactions, can benefit from the habitat change caused by human disturbance while more specialized interactions mostly disappear. Therefore changes in the structure of the local, within fragment, networks can be expected. Here we investigated how the structure of seed-dispersal networks changes...

Data from: Revised Airlie House consensus guidelines for design and implementation of ALS clinical trials

Leonard H Van Den Berg, Eric Sorenson, Gary Gronseth, Eric A. Macklin, Jinsy Andrews, Robert H. Baloh, Michael Benatar, James D. Berry, Adriano Chio, Philippe Corcia, Angela Genge, Amelie K. Gubitz, Catherine Lomen-Hoerth, Christopher J. McDermott, Erik P. Pioro, Jeffrey Rosenfeld, Vincenzo Silani, Martin R. Turner, Markus Weber, Benjamin Rix Brooks, Robert G. Miller & Hiroshi Mitsumoto
Objective: To revise the 1999 Airlie House consensus guidelines for the design and implementation of preclinical therapeutic studies and clinical trials in amyotrophic lateral sclerosis (ALS). Methods: A consensus committee comprising 140 key members of the international ALS community (ALS researchers, clinicians, patient representatives, research funding representatives, industry and regulatory agencies) addressed nine areas of need within ALS research: 1. Pre-clinical studies; 2. Biological and phenotypic heterogeneity; 3. Outcome measures; 4. Disease-modifying and symptomatic interventions;...

Data from: Ionome and elemental transport kinetics shaped by parallel evolution in threespine stickleback

Seth M. Rudman, Jared M. Goos, Joseph B. Burant, Kevin V. Brix, Taylor C. Gibbons, Colin J. Brauner & Punidan D. Jeyasingh
Evidence that organisms evolve rapidly enough to alter ecological dynamics necessitates investigation of the reciprocal links between ecology and evolution. Data that link genotype to phenotype to ecology are needed to understand both the process and ecological consequences of rapid evolution. Here we quantified the suite of elements in individuals (i.e., ionome) and the fluxes of key nutrients across populations of threespine stickleback. We find that allelic variation associated with freshwater adaptation that controls bony...

Initial application of the noise-sorted scanning clustering algorithm to the analysis of composition-dependent organic aerosol thermal desorption measurements

Christopher Cappa, Ziyue Li, Emma D'Ambro, Siegfried Schobesberger, John Shilling, Felipe Lopez-Hilfiker, Jiumeng Liu, Cassandra Gaston & Joel Thornton
The FIGAERO-CIMS (Filter Inlet for Gases and AEROsols + chemical ionization mass spectrometer) measures thermal desorption profiles for individual ions evolved from evaporation of organic aerosol components. Often, hundreds of individual thermograms are obtained, reflecting the compositional complexity of organic aerosol. We have developed a novel clustering algorithm, Noise-Sorted Scanning Clustering (NSSC), that provides a robust, reproducible analysis of the FIGAERO temperature-dependent mass spectral data. The NSSC allows for determination of thermal profiles for compositionally...

Evaluating the effects of large marine predators on mobile prey behavior across subtropical reef ecosystems

Lindsay Phenix, Dana Tricarico, Mark Bond, Simon Brandl & Austin Gallagher
The indirect effect of predators on prey behavior, recruitment, and spatial relationships continues to attract considerable attention. However, top predators like sharks or large, mobile teleosts, which can have substantial top-down effects in ecosystems, are often difficult to study due to their large size and mobility. This has created a knowledge gap in understanding how they affect their prey through non-consumptive effects. Here we investigated how different functional groups of predators affected potential prey fish...

Bottomfish fishery-independent survey in Hawaii: Season and gear effects on abundance

Dione W. Swanson, Steven G. (Steven Glen) Smith, Benjamin L. Richards, Annie Yau & Jerald S. Ault
NOAA technical memorandum NMFS-PIFSC ; 88

Data from: Gradual evolution towards flightlessness in Steamer-Ducks

Leonardo Campagna, Kevin G McCracken & Irby J. Lovette
Flightlessness in birds is the product of changes in suites of characters--including increased body size and reduced anterior limbs--that have evolved repeatedly and independently under similar ecological conditions (generally insularity). It remains unknown whether this phenotypic convergence extends to the genomic level, partially because many losses of flight occurred long ago (such as in penguins or ratites), thus complicating the study of the genetic pathways to flightlessness. Here we use genome sequencing to study the...

Data from: Rapid, complete reproductive isolation in two closely-related Zosterops White-eye bird species despite broadly overlapping ranges

Sarah A Cowles & J Albert C Uy
Examining what happens when two closely-related species come into secondary contact provides insight into the later stages of the speciation process. The Zosteropidae family of birds is one of the most rapidly speciating vertebrate lineages. Members of this family are highly vagile and geographically widespread, raising the question of how divergence can occur if populations can easily come into secondary contact. On the small island of Kolombangara, two closely-related non-sister species of White-eyes, Zosterops kulambangrae...

Sounds of senescence: Male swamp sparrows respond less aggressively to the song of older individuals

Matthew Zipple, Susan Peters, William Searcy & Stephen Nowicki
Age-related changes in assessment signals occur in a diverse array of animals, including humans. Age-related decline in vocal quality in humans is known to affect perceived attractiveness by potential mates and voters, but whether such changes have functional implications for non-human animals is poorly understood. Most studies of age-related change in animal signals focus on increases in signal quality that occur soon after the age of first breeding (“delayed maturation”), but a few have shown...

Data from: ddRAD‐seq data reveal significant genome‐wide population structure and divergent genomic regions that distinguish the mallard and close relatives in North America

Philip Lavretsky, Jeffrey M. DaCosta, Michael D. Sorenson, Kevin G. McCracken & Jeffrey L. Peters
Recently evolved species typically share genetic variation across their genomes due to incomplete lineage sorting and/or ongoing gene flow. Given only subtle allele frequency differences at most loci and the expectation that divergent selection may affect only a tiny fraction of the genome, distinguishing closely related species based on multi‐locus data requires substantial genomic coverage. In this study, we used ddRAD‐seq to sample the genomes of five recently diverged, New World “mallards” (Anas spp.), a...

Water quality and coral reef monitoring along the southeast Florida coast.

Christopher D. Sinigalliano, Ian C. Enochs, S. Jack (Speridon Jack) Stamates, Paul R. Jones, Charles M. Featherstone, Gidley, Stephanie M. Rosales, Lewis J. Gramer, Chris Staley & Thomas P. Carsey
NOAA Technical Report OAR AOML 47

Data from: Clonal diversity impacts coral cover in Acropora cervicornis thickets: potential relationships between density, growth and polymorphisms

Crawford Drury, Justin B. Greer, Iliana Baums, Brooke Gintert & Diego Lirman
As coral reefs decline, cryptic sources of resistance and resilience to stress may be increasingly important for the persistence of these communities. Among these sources, inter‐ and intraspecific diversity remain understudied on coral reefs but extensively impact a variety of traits in other ecosystems. We use a combination of field and sequencing data at two sites in Florida and two in the Dominican Republic to examine clonal diversity and genetic differentiation of high‐ and low‐density...

Registration Year

  • 2019

Resource Types

  • Dataset
  • Text


  • University of Miami
  • The University of Texas at El Paso
  • Massachusetts General Hospital
  • Estación Biológica de Doñana
  • Sao Paulo State University
  • University of Pennsylvania
  • University of Washington
  • University of Eastern Finland
  • Stanford University
  • Kantonsspital St. Gallen