10 Works

Data from: Loss of genetic diversity and increased embryonic mortality in non-native lizard populations

Sozos N. Michaelides, Geoffrey M. While, Natalia Zajac, Fabien Aubret, Brittny Calsbeek, Roberto Sacchi, Marco A. L. Zuffi & Tobias Uller
Many populations are small and isolated with limited genetic variation and high risk of mating with close relatives. Inbreeding depression is suspected to contribute to extinction of wild populations, but the historical and demographic factors that contribute to reduced population viability are often difficult to tease apart. Replicated introduction events in non-native species can offer insights into this problem because they allow us to study how genetic variation and inbreeding depression are affected by demographic...

Data from: Alcohol discrimination and preferences in two species of nectar-feeding primate

Samuel R. Gochman, Michael B. Brown & Nathaniel J. Dominy
Recent reports suggest that dietary ethanol, or alcohol, is a supplemental source of calories for some primates. For example, slow lorises (Nycticebus coucang) consume fermented nectars with a mean alcohol concentration of 0.6% (range: 0.0–3.8%). A similar behaviour is hypothesized for aye-ayes (Daubentonia madagascariensis) based on a single point mutation (A294V) in the gene that encodes alcohol dehydrogenase class IV (ADH4), the first enzyme to catabolize alcohol during digestion. The mutation increases catalytic efficiency 40-fold...

Data from: A methylation-to-expression feature model for generating accurate prognostic risk scores and identifying disease targets in clear cell kidney cancer

Jeffrey A. Thompson & Carmen J. Marsit
Many researchers now have available multiple high-dimensional molecular and clinical datasets when studying a disease. As we enter this multi-omic era of data analysis, new approaches that combine different levels of data (e.g. at the genomic and epigenomic levels) are required to fully capitalize on this opportunity. In this work, we outline a new approach to multi-omic data integration, which combines molecular and clinical predictors as part of a single analysis to create a prognostic...

Data from: How chimpanzees integrate sensory information to select figs

Nathaniel J. Dominy, Justin D. Yeakel, Uttam Bhat, Lawrence Ramsden, Richard W. Wrangham & Peter W. Lucas
Figs are keystone resources that sustain chimpanzees when preferred fruits are scarce. Many figs retain a green(ish) colour throughout development, a pattern that causes chimpanzees to evaluate edibility on the basis of achromatic accessory cues. Such behaviour is conspicuous because it entails a succession of discrete sensory assessments, including the deliberate palpation of individual figs, a task that requires advanced visuomotor control. These actions are strongly suggestive of domain-specific information processing and decision-making, and they...

Data from: Horizontal gene acquisitions, mobile element proliferation, and genome decay in the host - restricted plant pathogen Erwinia tracheiphila

Lori R. Shapiro, Erin D. Scully, Timothy J. Straub, Jihye Park, Andrew G. Stephenson, Gwyn A. Beattie, Mark L. Gleason, Roberto Kolter, Miguel C. Coelho, Consuelo M. De Moraes, Mark C. Mescher & Olga Zhaxybayeva
Modern industrial agriculture depends on high density cultivation of genetically similar crop plants, creating favorable conditions for the emergence of novel pathogens with increased fitness in managed compared to ecologically intact settings. Here, we present the genome sequence of six strains of the cucurbit bacterial wilt pathogen Erwinia tracheiphila (Enterobacteriaceae) isolated from infected squash plants in New York, Pennsylvania, Kentucky, and Michigan. These genomes exhibit a high proportion of recent horizontal gene acquisitions, invasion and...

Data from: Spatial variation in climate mediates gene flow across an island archipelago

Michael Latter Logan, M. C. Duryea, Orsolya R. Molnar, Benji J. Kessler & Ryan Calsbeek
High levels of gene flow among partially isolated populations can overwhelm selection and limit local adaptation. This process, known as “gene swamping,” can homogenize genetic diversity among populations and reduce the capacity of a species to withstand rapid environmental change. We studied brown anole lizards (Anolis sagrei) distributed across seven islands in The Bahamas. We used microsatellite markers to estimate gene flow among islands and then examined the correlation between thermal performance and island temperature....

Data from: Consequences of a nectar yeast for pollinator preference and performance

Robert N. Schaeffer, Yu Zhu Mei, Jonathan Andicoechea, Jessamyn S. Manson & Rebecca E. Irwin
Pollinators utilize floral resources that vary in colour, scent and reward quality. Variation in such traits, including nectar rewards, in addition to cues associated with their quality, can influence pollinator foraging decisions with consequences for pollinator reproductive success. Nectar is commonly subject to colonization by micro-organisms capable of affecting a suite of traits important for pollinator attraction and fitness; yet, links between microbial presence and changes in pollinator preference and performance remain few. Here, we...

Data from: Rates and processes of aeolian soil erosion in West Greenland

Ruth C. Heindel, Lauren E. Culler & Ross A. Virginia
In arid landscapes across the globe, aeolian processes are key drivers of landscape change, but arid Arctic regions are often overlooked. In the Kangerlussuaq region of West Greenland, strong katabatic winds have removed discrete patches of soil and vegetation, exposing unproductive glacial till and bedrock. Although lake-sediment records suggest that landscape destabilization began approximately 1000 years ago, the upland soil erosion has never been directly dated. We use a novel application of lichenometry to estimate...

Data from: Genomic analysis reveals hidden biodiversity within colugos, the sister group to primates

Victor C. Mason, Gang Li, Patrick Minx, Jurgen Schmitz, Gennady Churakov, Liliya Doronina, Amanda D. Melin, Nathaniel J. Dominy, Norman T-L. Lim, Mark S. Springer, Richard K. Wilson, Wesley C. Warren, Kristofer M. Helgen & William J. Murphy
Colugos are one of the most poorly studied mammals despite their centrality to resolving supraordinal primate relationships. Two described species of these gliding mammals are the sole living members of the order Dermoptera, distributed throughout Southeast Asia. We generated a draft genome sequence for a Sunda colugo and a Philippine colugo reference alignment, and used these to identify colugo-specific genetic changes that were enriched in sensory and musculo-skeletal related genes that likely underlie their nocturnal...

Data from: Dissolved organic carbon modulates mercury concentrations in insect subsidies from streams to terrestrial consumers

Ramsa Chaves-Ulloa, Brad W. Taylor, Hannah J. Broadley, Kathryn L. Cottingham, Nicholas A. Baer, Kathleen C. Weathers, Holly A. Ewing & Celia Y. Chen
Mercury (Hg) concentrations in aquatic environments have increased globally, exposing consumers of aquatic organisms to high Hg levels. For both aquatic and terrestrial consumers, exposure to Hg depends on their food sources as well as environmental factors influencing Hg bioavailability. The majority of the research on the transfer of methylmercury (MeHg), a toxic and bioaccumulating form of Hg, between aquatic and terrestrial food webs has focused on terrestrial piscivores. However, a gap exists in our...

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