128 Works

Exosomal lncAY927529 enhances prostate cancer cell proliferation and invasion through regulating bone microenvironment

Qi Li, Jinhao Hu, Yibo Shi, Mulun Xiao, Tianxiang Bi, Chaoliang Wang, Liang Yan & Xiaoyan Li
Exosomes mediate the interaction between cancer cells and their microenvironment, and play a key role in tumor development. Although exosomes can package lncRNAs to mediate extracellular communication, the role of exosomal lncRNA AY927529 in prostate cancer (PCa) remains unclear. Exosomes were extracted from normal human prostatic epithelial cell lines (BPH-1 and RWPE-1) and PCa cell lines (VCaP and LNCaP, DU145, PC3) by ultrahigh speed centrifugation. Results of Western blot indicated that Alix, HSC70 and TSGl01...

Whole-exome sequencing reveals novel variants associated with abnormal uterine bleeding caused by copper intrauterine device Supplementary Materials

Yupei Shen, Xiaoli Liu, Linfen Xu, Weiqiang Zhu, Zhaofeng Zhang, Junwei Liu, Lifang Jiang, Yanyan Mao, Jianhua Xu, Xiaoqin Yan, Junjie Sun, Fang Liu, Xiumei Xiong, Xiujuan Chen, Yan Che & Jing Du
Aim: This study aimed to explore the genetic risk factors and validate variants of abnormal uterine bleeding after copper intrauterine device insertion. Methods: Whole-exome sequencing was performed and several variants were validated by Sequenom MassARRAY. Results: Eight variants showed potential clinical damage according to American College of Medical Genetics and Genomics criteria. By combined analysis of screening and validation, NFASC RS2802808 C>G p.Ile971Met (Pallele = 0.009 and Pgenotype = 0.027) and PIGR RS2275531 C>T p.Gly365Ser...

Data from: Positional cloning of rp2 QTL associates the P450 genes CYP6Z1, CYP6Z3 and CYP6M7 with pyrethroid resistance in the malaria vector Anopheles funestus

Helen Irving, Jacob M. Riveron, Sulaiman S. Ibrahim, Neil F. Lobo & Charles S. Wondji
Pyrethroid resistance in Anopheles funestus is threatening malaria control in Africa. Elucidation of underlying resistance mechanisms is crucial to improve the success of future control programs. A positional cloning approach was used to identify genes conferring resistance in the uncharacterised rp2 QTL previously detected in this vector using F6 Advanced Intercross Lines (AIL). A 113 kb BAC clone spanning rp2 was identified and sequenced revealing a cluster of fifteen P450 genes and one salivary protein...

Data from: Genetic hitchhiking and the dynamic buildup of genomic divergence during speciation with gene flow

Samuel Melvin Flaxman, Jeffrey L. Feder & Patrik Nosil
A major issue in evolutionary biology is explaining patterns of differentiation observed in population genomic data, as divergence can be due to both direct selection on a locus and genetic hitchhiking. “Divergence hitchhiking” (DH) theory postulates that divergent selection on a locus reduces gene flow at physically linked sites, facilitating the formation of localized clusters of tightly linked, diverged loci. “Genome hitchhiking” (GH) theory emphasizes genome-wide effects of divergent selection. Past theoretical investigations of DH...

Data from: Social status, immune response, and parasitism in males: a meta-analysis

Bobby Habig & Elizabeth A. Archie
In male vertebrates, two conflicting paradigms—the energetic costs of high dominance rank and the chronic stress of low rank—have been proposed to explain patterns of immune function and parasitism. To date, neither paradigm has provided a complete explanation for status-related differences in male health. Here, we applied meta-analyses to test for correlations between male social status, immune responses, and parasitism. We used an ecomimmunological framework, which proposes that males should re-allocate investment in different immune...

Data from: Human impacted landscapes facilitate hybridization between a native and an introduced tree

Sean M. Hoban, Tim S. McCleary, Scott E. Schlarbaum, Sandra L. Anagnostakis & Jeanne Romero-Severson
Spatial and temporal dynamics of hybridization, in particular the influence of local environmental conditions, are well studied for sympatric species but less is known for native-introduced systems, especially for long-lived species. We used microsatellite and chloroplast DNA markers to characterize the influence of anthropogenic landscapes on the extent, direction, and spatial distribution of hybridization between a native North American tree Juglans cinerea (butternut) and an introduced tree Juglans ailantifolia (Japanese walnut) for 1363 trees at...

Data from: Habitat segregation and ecological character displacement in cryptic African malaria mosquitoes

Billy Tene Fossog, Diego Ayala, Pelayo Acevedo, Pierre Kengne, Ignacio Ngomo Abeso Mebuy, Boris Makanga, Julie Magnus, Parfait Awono-Ambene, Flobert Njiokou, Marco Pombi, Christophe Antonio-Nkondjio, Christophe Paupy, Nora J. Besansky & Carlo Costantini
Understanding how divergent selection generates adaptive phenotypic and population diversification provides a mechanistic explanation of speciation in recently separated species pairs. Toward this goal, we sought ecological gradients of divergence between the cryptic malaria vectors Anopheles coluzzii and An. gambiae, and then looked for a physiological trait that may underlie such divergence. Using a large set of occurrence records and eco-geographical information, we built a distribution model to predict the predominance of the two species...

Data from: Meek mothers with powerful daughters: effects of novel host environments and small trait differences on parasitoid competition

Gabriela Hamerlinck, Nathan P. Lemoine, Glen R. Hood, Karen C. Abbott & Andrew A. Forbes
Outcomes of competition may depend both on subtle differences in traits relevant to fitness and on how those traits are expressed in the context of the environment. Environmental effects on traits impacting population dynamics are often overlooked in studies of parasitic wasp (parasitoid) competition. Lineages of the parasitoid Diachasma alloeum (Hymenoptera: Braconidae) differ in relative ovipositor length (a trait affecting the proportion of hosts available for parasitism). Since the size of natal hosts affects the...

Data from: Calling in sick: impacts of fever on intra-urban human mobility

T. Alex Perkins, Valerie A. Paz-Soldan, Steven T. Stoddard, Amy C. Morrison, Brett M. Forshey, Kanya C. Long, Eric S. Halsey, Tadeusz J. Kochel, John P. Elder, Uriel Kitron, Thomas W. Scott & Gonzalo M. Vazquez-Prokopec
Pathogens inflict a wide variety of disease manifestations on their hosts, yet the impacts of disease on the behaviour of infected hosts are rarely studied empirically and are seldom accounted for in mathematical models of transmission dynamics. We explored the potential impacts of one of the most common disease manifestations, fever, on a key determinant of pathogen transmission, host mobility, in residents of the Amazonian city of Iquitos, Peru. We did so by comparing two...

Data from: Tales from the crypt: a parasitoid manipulates the behaviour of its parasite host

Kelly L. Weinersmith, Sean M. Liu, Andrew A. Forbes & Scott P. Egan
There are many examples of apparent manipulation of host phenotype by parasites, yet few examples of hypermanipulation—where a phenotype-manipulating parasite is itself manipulated by a parasite. Moreover, few studies confirm manipulation is occurring by quantifying whether the host's changed phenotype increases parasite fitness. Here we describe a novel case of hypermanipulation, in which the crypt gall wasp Bassettia pallida (a phenotypic manipulator of its tree host) is manipulated by the parasitoid crypt-keeper wasp Euderus set,...

Data from: Natural selection and the predictability of evolution in Timema stick insects

Patrik Nosil, Romain Villoutreix, Clarissa F. De Carvalho, Tim E. Farkas, Victor Soria-Carrasco, Jeff L. Feder, Bernard J. Crespi & Zachariah Gompert
Predicting evolution remains difficult. We studied the evolution of cryptic body coloration and pattern in a stick insect using 25 years of field data, experiments, and genomics. We found that evolution is more difficult to predict when it involves a balance between multiple selective factors and uncertainty in environmental conditions than when it involves feedback loops that cause consistent back-and-forth fluctuations. Specifically, changes in color-morph frequencies are modestly predictable through time (r2 = 0.14) and...

Data from: Dissecting functional components of reproductive isolation among closely related sympatric species of the Anopheles gambiae complex

Marco Pombi, Pierre Kengne, Geoffrey Gimonneau, Billy Tene-Fossog, Diego Ayala, Colince Kamdem, Federica Santalomazza, Wamdaogo Moussa Guelbeogo, N'Falé Sagnon, Vincenzo Petrarca, Didier Fontenille, Nora J. Besansky, Christophe Antonio-Nkondjio, Roch K. Dabire, Alessandra Della Torre, Frederic Simard & Carlo Costantini
Explaining how and why reproductive isolation evolves and determining which forms of reproductive isolation have the largest impact on the process of population divergence are major goals in the study of speciation. By studying recent adaptive radiations in incompletely isolated taxa, it is possible to identify barriers involved at early divergence before other confounding barriers emerge after speciation is complete. Sibling species of the Anopheles gambiae complex offer opportunities to provide insights into speciation mechanisms....

Data from: Effects of sampling effort on biodiversity patterns estimated from environmental DNA metabarcoding surveys

Erin K. Grey, Louis Bernatchez, Phillip Cassey, Kristy Deiner, Marty Deveney, Kimberley L. Howland, Anaïs Lacoursière-Roussel, Sandric Chee Yew Leong, Yiyuan Li, Brett Olds, Michael E. Pfrender, Thomas A. A. Prowse, Mark A. Renshaw & David M. Lodge
Environmental DNA (eDNA) metabarcoding can greatly enhance our understanding of global biodiversity and our ability to detect rare or cryptic species. However, sampling effort must be considered when interpreting results from these surveys. We explored how sampling effort influenced biodiversity patterns and nonindigenous species (NIS) detection in an eDNA metabarcoding survey of four commercial ports. Overall, we captured sequences from 18 metazoan phyla with minimal differences in taxonomic coverage between 18 S and COI primer...

Data from: Local and system-wide adaptation is influenced by population connectivity

Patrik Nosil, Victor Soria-Carrasco, Jeffery L. Feder, Samuel M. Flaxman, Zachariah Gompert, Jeffrey L. Feder & Zach Gompert
Complex systems can be conceptualized and studied as networks of nodes with varying connectivity between nodes. In well-connected systems, local disturbance of individual nodes can be countered by input from neighbouring nodes, buffering the system against local change. Thus, pronounced change in a well-connected system may not occur until the system hits a threshold or ‘tipping point’ that drives a shift to an alternative, system-wide state. In contrast, poorly connected systems are more prone to...

Data from: Spatio-temporal genetic structure of Anopheles gambiae in the Northwestern Lake Victoria Basin, Uganda: implications for genetic control trials in malaria endemic regions

Martin Lukindu, Christina M. Bergey, Rachel M. Wiltshire, Scott T. Small, Brian P. Bourke, Jonathan K. Kayondo & Nora J. Besansky
Background: Understanding population genetic structure in the malaria vector Anopheles gambiae (s.s.) is crucial to inform genetic control and manage insecticide resistance. Unfortunately, species characteristics such as high nucleotide diversity, large effective population size, recent range expansion, and high dispersal ability complicate the inference of genetic structure across its range in sub-Saharan Africa. The ocean, along with the Great Rift Valley, is one of the few recognized barriers to gene flow in this species, but...

Data from: Costs and drivers of helminth parasite infection in wild female baboons

Mercy Y. Akinyi, David Jansen, Bobby Habig, Laurence Gesquiere, Susan C. Alberts & Elizabeth A. Archie
1. Helminth parasites can have wide ranging, detrimental effects on host reproduction and survival. These effects are best documented in humans and domestic animals, while only a few studies in wild mammals have identified both the forces that drive helminth infection risk and their costs to individual fitness. 2. Working in a well-studied population of wild baboons (Papio cynocephalus) in the Amboseli ecosystem in Kenya, we pursued two goals, to: (i) examine the costs of...

Data from: Evidence for spatial clines and mixed geographic modes of speciation for North American cherry-infesting Rhagoletis (Diptera:Tephritidae) flies

Meredith Doellman, Gilbert Saint Jean, Scott Egan, Thomas Powell, Glen Hood, Hannes Schuler, Daniel Bruzzese, Mary Glover, James Smith, Wee Yee, Robert Goughnour, Juan Rull, Martin Aluja & Jeffrey Feder
An important criterion for understanding speciation is the geographic context of population divergence. Three major modes of allopatric, parapatric, and sympatric speciation define the extent of spatial overlap and gene flow between diverging populations. However, mixed modes of speciation are also possible, whereby populations experience periods of allopatry, parapatry, and/or sympatry at different times as they diverge. Here, we report clinal patterns of variation for 21 nuclear-encoded microsatellites and a wing spot phenotype for cherry-infesting...

Neural activity during a simple reaching task in macaques is counter to gating and rebound in basal ganglia-thalamic communication

Bettina Schwab, Daisuke Kase, Andrew Zimnik, Robert Rosenbaum, Marcello Codianni, Jonathan Rubin & Robert Turner
Task-related activity in the ventral thalamus, a major target of basal ganglia output, is often assumed to be permitted or triggered by changes in basal ganglia activity through gating- or rebound-like mechanisms. To test those hypotheses, we sampled single-unit activity from connected basal ganglia output and thalamic nuclei (globus pallidus-internus, GPi, and ventrolateral-anterior nucleus, VLa) in monkeys performing a reaching task. Rate increases were the most common peri-movement change in both nuclei. Moreover, peri-movement changes...

A catastrophic tropical drought kills hydraulically vulnerable tree species

Jennifer Powers, German Vargas-G, Timothy Brodribb, Naomi Schwartz, Daniel Perez-Aviles, Chris Smith-Martin, Justin Becknell, Filippo Aureli, Roger Blanco, Erick Calderón-Morales, Julio César Calvo-Alvarado, Ana Julieta Calvo-Obando, María Marta Chavarría, Dorian Carvajal-Vanegas, César Dionisio Jiménez-Rodríguez, Evin Murillo Chacon, Colleen Schaffner, Leland Werden, Xiangtao Xu & David Medvigy
Drought-related tree mortality is now a widespread phenomenon predicted to increase in magnitude with climate change. However, the patterns of which species and trees are most vulnerable to drought, and the underlying mechanisms have remained elusive, in part due to the lack of relevant data and difficulty of predicting the location of catastrophic drought years in advance. We used long‐term demographic records and extensive databases of functional traits and distribution patterns to understand the responses...

Precision mapping of snail habitat provides a powerful indicator of human schistosomiasis transmission

Chelsea Wood, Susanne Sokolow, Isabel Jones, Andrew Chamberlin, Kevin Lafferty, Armand Kuris, Merlijn Jocque, Skylar Hopkins, Grant Adams, Julia Buck, Andrea Lund, Ana Garcia-Vedrenne, Evan Fiorenza, Jason Rohr, Fiona Allan, Bonnie Webster, Muriel Rabone, Joanne Webster, Lydie Bandagny, Raphael Ndione, Simon Senghor, Anne-Marie Schacht, Nicolas Jouanard, Gilles Riveau & Giulio De Leo
Recently, the World Health Organization recognized that efforts to interrupt schistosomiasis transmission through mass drug administration have been ineffective in some regions; one of their new recommended strategies for global schistosomiasis control emphasizes targeting the freshwater snails that transmit schistosome parasites. We sought to identify robust indicators that would enable precision targeting of these snails. At the site of the world’s largest recorded schistosomiasis epidemic—the Lower Senegal River Basin in Senegal—intensive sampling revealed positive relationships...

The application of community ecology theory to co-infections in wildlife hosts

Chloe Ramsay & Jason Rohr
Priority effect theory, a foundational concept from community ecology, states that the order and timing of species arrival during species assembly can affect species composition. Although this theory has been applied to co-infecting parasite species, it has almost always been with a single time lag between co-infecting parasites. Thus, how the timing of parasite species arrival affects co-infections and disease remains poorly understood. To address this gap in the literature, we exposed post-metamorphic Cuban tree...

Data from: Ecology shapes epistasis in a genotype-phenotype-fitness map for stick insect colour

Zachariah Gompert, Patrik Nosil, Romain Villoutreix, Clarissa De Carvalho, Jeffrey Feder & Thomas Parchman
Genetic interactions such as epistasis are widespread in nature and can shape evolutionary dynamics. Epistasis occurs due to non-linearity in biological systems, which can arise via cellular processes that convert genotype to phenotype and via selective processes that connect phenotype to fitness. Few studies in nature have connected genotype to phenotype to fitness for multiple potentially interacting genetic variants. Thus, the causes of epistasis in the wild remain poorly understood. Here, we show that epistasis...

Inversions and genomic differentiation after secondary contact: when drift contributes to maintenance, not loss, of differentiation

Marina Rafajlovic, Jordi Rambla, Jeffrey L. Feder, Arcadi Navarro & Rui Faria
Due to their effects on reducing recombination, chromosomal inversions may play an important role in speciation by establishing and/or maintaining linked blocks of genes causing reproductive isolation (RI) between populations. This view fits empirical data indicating that inversions typically harbour loci involved in RI. However, previous computer simulations of infinite populations with 2-4 loci involved in RI implied that, even with gene flux as low as 10^(-8) per gamete, per generation between alternative arrangements, inversions...

Beyond leaf habit: generalities in plant function across 97 tropical dry forest tree species

German Vargas G., Tim J. Brodribb, Juan M. Dupuy, Roy González‐M., Catherine M. Hulshof, David Medvigy, Tristan A. P. Allerton, Camila Pizano, Beatriz Salgado‐Negret, Naomi B. Schwartz, Skip J. Van Bloem, Bonnie G. Waring & Jennifer S. Powers
Leaf habit has been hypothesized to define a linkage between the slow-fast plant economic spectrum and the drought resistance-avoidance trade-off in tropical forests (‘slow-safe versus fast-risky’). However, variation in hydraulic traits as a function of leaf habit has rarely been explored for a large number of species. We sampled leaf and branch functional traits of 97 tropical dry forest tree species from four sites to investigate whether patterns of trait variation varied consistently in relation...

Aboveground net primary productivity in regenerating seasonally dry tropical forest: contributions of rainfall, forest age, and soil

Justin Becknell, German Vargas, Daniel Pérez‐Aviles, David Medvigy & Jennifer Powers
Identifying factors controlling forest productivity is critical to understanding forest-climate change feedbacks, modeling vegetation dynamics, and carbon finance schemes. However, little research has focused on productivity in regenerating tropical forest which are expanding in their fraction of global area have an order of magnitude larger carbon uptake rates relative to older forest. We examined aboveground net primary productivity (ANPP) and its components (wood production and litterfall) over ten years in forest plots that vary in...

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  • University of Notre Dame
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