Submissions from 2018
Evaluating Model Performance in Evolutionary Biology, Jeremy M. Brown and Robert C. Thomson
Evaluating Model Performance In Evolutionary Biology, J M. Brown and R C. Thomson
Aromatic interactions at the ligand–protein interface: Implications for the development of docking scoring functions, Michal Brylinski
eRepo-ORP: Exploring the Opportunity Space to Combat Orphan Diseases with Existing Drugs, Michal Brylinski, Misagh Naderi, Rajiv Gandhi Govindaraj, and Jeffrey Lemoine
Pancreatic deletion of the interleukin-1 receptor disrupts whole body glucose homeostasis and promotes islet β-cell de-differentiation, Susan J. Burke, Heidi M. Batdorf, David H. Burk, Thomas M. Martin, Tamra Mendoza, Krisztian Stadler, Wateen Alami, Michael D. Karlstad, Matthew J. Robson, Randy D. Blakely, et al.
Liquid Sucrose Consumption Promotes Obesity and Impairs Glucose Tolerance Without Altering Circulating Insulin Levels, Susan J. Burke, Heidi M. Batdorf, Thomas M. Martin, David H. Burk, Robert C. Noland, Christopher R. Cooley, Michael D. Karlstad, William D. Johnson, and J. Jason Collier
Phylogenomics of pike cichlids (Cichlidae: Crenicichla): the rapid ecological speciation of an incipient species flock, E. D. Burress, F. Alda, A. Duarte, M. Loureiro, J. W. Armbruster, and P. Chakrabarty
Neural and behavioural correlates of repeated social defeat, Julie M. Butler, Sarah M. Whitlow, David A. Roberts, and Karen P. Maruska
Opinion: How to tackle the childcare–conference conundrum, Rebecca M. Calisi and
Synthesis and in vitro PDT evaluation of new porphyrins containing meso-epoxymethylaryl cationic groups, Jaqueline Carneiro, Alan Gonçalves, Zehua Zhou, Kaitlin E. Griffin, Nichole E. Kaufman, and Maria da Vicente
My year as a fed, Prosanta Chakrabarty
Assessing Water Resources Vulnerability by Using a Rough Set Cloud Model: A Case Study of the Huai River Basin, China, Yan Chen, Yazhong Feng, Fan Zhang, and Lei Wang
Gauging support for macroecological patterns in helminth parasites, Tad A. Dallas, A. Alonso Aguirre, Sarah Budischak, Colin Carlson, Vanessa Ezenwa, Barbara Han, Shan Huang, and Patrick R. Stephens
Habitat suitability estimated by niche models is largely unrelated to species abundance, Tad A. Dallas and Alan Hastings
Experimental evidence of a pathogen invasion threshold, Tad A. Dallas, Martin Krkošek, and John M. Drake
Generating DNA sequence data with limited resources for molecular biology: Lessons from a barcoding project in Indonesia, Gillian H. Dean, Rani Asmarayani, Marlina Ardiyani, Yessi Santika, Teguh Triono, Sarah Mathews, and Campbell O. Webb
Phenotypic and transcriptomic responses to salinity stress across genetically and geographically divergent Tigriopus californicus populations, Melissa B. DeBiasse, Yasmeen Kawji, and Morgan W. Kelly
Future research directions in pneumonia, Charles S. Dela Cruz, Richard G. Wunderink, David C. Christiani, Stephania A. Cormier, Kristina Crothers, Claire M. Doerschuk, Scott E. Evans, Daniel R. Goldstein, Purvesh Khatri, Lester Kobzik, et al.
Ecological drivers of song evolution in birds: Disentangling the effects of habitat and morphology, Elizabeth Perrault Derryberry, Nathalie Seddon, Graham Earnest Derryberry, Santiago Claramunt, Glenn Fairbanks Seeholzer, Robb Thomas Brumfield, and Joseph Andrew Tobias
The many types of carbonic anhydrases in photosynthetic organisms, Robert J. DiMario, Marylou C. Machingura, Grover L. Waldrop, and James V. Moroney
Contrasting impacts of competition on ecological and social trait evolution in songbirds, Jonathan P. Drury, Joseph A. Tobias, Kevin J. Burns, Nicholas A. Mason, Allison J. Shultz, and Hélène Morlon
Inhibition of endocytosis suppresses the nitric oxide-dependent release of Cl- in retinal amacrine cells, Vernon K. Dunn and Evanna Gleason
No appendix necessary: Fecal transplants and antibiotics can resolve Clostridium difficile infection, Bret Elderd
Overdispersed Spatial Patterning of Dominant Bunchgrasses in Southeastern Pine Savannas, Bret Elderd
Climate change and an invasive, tropical milkweed: an ecological trap for monarch butterflies, Matthew J. Faldyn, Mark D. Hunter, and Bret D. Elderd
Transcriptomic view of survival during early seedling growth of the extremophyte Haloxylon ammodendron, Ligang Fan, Guannan Wang, Wei Hu, Pramod Pantha, Kieu-Nga Tran, Hua Zhang, Lizhe An, and Maheshi Dassanayake
Sexually-relevant visual and chemosensory signals induce distinct behaviors and neural activation patterns in the social african cichlid, astatotilapia burtoni, Karen E. Field, Christopher T. McVicker, and Karen P. Maruska
Gymnosperms on the EDGE, Félix Forest, Justin Moat, Elisabeth Baloch, Neil A. Brummitt, Steve P. Bachman, Steffi Ickert-Bond, Peter M. Hollingsworth, Aaron Liston, Damon P. Little, Sarah Mathews, et al.
Oxytocin receptor is regulated by Peg3, Wesley D. Frey, Kaustubh Sharma, Terri L. Cain, Katsuhiko Nishimori, Ryoichi Teruyama, and Joomyeong Kim
Genome‐wide signals of drift and local adaptation during rapid lineage divergence in a songbird, Guillermo Friis, Guillermo Fandos, Amanda J. Zellmer, John E. McCormack, Brant C. Faircloth, and Borja Milá
Endocannabinoid Metabolome Characterization of Transitional and Mature Human Milk, Adriana V. Gaitán, JodiAnne T. Wood, Fan Zhang, Alexandros Makriyannis, and Carol J. Lammi-Keefe
The polyphyly of Plasmodium: Comprehensive phylogenetic analyses of the malaria parasites (Order Haemosporida) reveal widespread taxonomic conflict, Spencer C. Galen, Janus Borner, Ellen S. Martinsen, Juliane Schaer, Christopher C. Austin, Christopher J. West, and Susan L. Perkins
Expression of an 8R-Lipoxygenase From the Coral Plexaura homomalla, Nathaniel C. Gilbert, David B. Neau, and Marcia E. Newcomer
Comparative assessment of strategies to identify similar ligand-binding pockets in proteins, Rajiv Gandhi Govindaraj and Michal Brylinski
Large-scale computational drug repositioning to find treatments for rare diseases, Rajiv Gandhi Govindaraj, Misagh Naderi, Manali Singha, Jeffrey Lemoine, and Michal Brylinski
The causes of disproportionate non-random mortality among life-cycle stages, Peter T. Green and Kyle E. Harms
Control of RNA polymerase II-transcribed genes by direct binding of TOR kinase, Anne Grove
Challenges during diapause and anhydrobiosis: Mitochondrial bioenergetics and desiccation tolerance, Steven C. Hand, Daniel S. Moore, and Yuvraj Patil
Advancing dendrochronological studies of fire in the United States, Grant L. Harley, Christopher H. Baisan, Peter M. Brown, Donald A. Falk, William T. Flatley, Henri D. Grissino-Mayer, Amy Hessl, Emily K. Heyerdahl, Margot W. Kaye, Charles W. Lafon, et al.
Particulate matter containing environmentally persistent free radicals induces AhRdependent cytokine and reactive oxygen species production in human bronchial epithelial cells, Ashlyn C. Harmon, Valeria Y. Hebert, Stephania A. Cormier, Balamurugan Subramanian, James R. Reed, Wayne L. Backes, and Tammy R. Dugas
Phylogenetic taxon definitions for and, David S. Hibbett, Meredith Blackwell, Timothy Y. James, Joseph W. Spatafora, John W. Taylor, and Rytas Vilgalys
Type I Interferon Potentiates IgA Immunity to Respiratory Syncytial Virus Infection During Infancy, Diego R. Hijano, David T. Siefker, Bishwas Shrestha, Sridhar Jaligama, Luan D. Vu, Heather Tillman, David Finkelstein, Jordy Saravia, Dahui You, and Stephania A. Cormier
P3: Phylogenetic posterior prediction in RevBayes, Sebastian Höhna, Lyndon M. Coghill, Genevieve G. Mount, Robert C. Thomson, and Jeremy M. Brown
The interface between the EGF1 and EGF2 domains is critical in integrin affinity regulation, Ping Hu and Bing-Hao Luo
TREK1 Deficiency Abrogates LPS-Induced Alveolar Macrophage Inflammasome Priming and Activation, C. N. Immanuel, B. Teng, B. Dong, J. Kennedy, J. Tatum, C. Luellen, E. A. Fitzpatrick, S. Cormier, A. Schwingshackl, and C. M. Waters
rr2: An R package to calculate $R^2$s for regression models, Anthony Ives and Daijiang Li
Radical containing combustion derived particulate matter enhance pulmonary Th17 inflammation via the aryl hydrocarbon receptor, Sridhar Jaligama, Vivek S. Patel, Pingli Wang, Asmaa Sallam, Jeffrey Harding, Matthew Kelley, Skylar R. Mancuso, Tammy R. Dugas, and Stephania A. Cormier
Relief of the Dma1-mediated checkpoint requires Dma1 autoubiquitination and dynamic localization, Christine M. Jones, Jun Song Chen, Alyssa E. Johnson, Zachary C. Elmore, Sierra N. Cullati, Janel R. Beckley, and Kathleen L. Gould
A computational reconstruction of Papio phylogeny using Alu insertion polymorphisms, Vallmer E. Jordan, Jerilyn A. Walker, Thomas O. Beckstrom, Cody J. Steely, Cullen L. McDaniel, Corey P. St Romain, Kim C. Worley, Jane Phillips-Conroy, Clifford J. Jolly, Jeffrey Rogers, et al.
Morphological And Genetic Variation Across A Narrow Hybrid Zone Between Jamaican Endemic Streamertail Hummingbirds (Trochilus Polytmus And T. Scitulus), C D. Judy, R T. Brumfield, and G R. Graves
Halophytism: What Have We Learnt From Arabidopsis thaliana Relative Model Systems?, Yana Kazachkova, Gil Eshel, Pramod Pantha, John M. Cheeseman, Maheshi Dassanayake, and Simon Barak
Ablation of Ezh2 in neural crest cells leads to aberrant enteric nervous system development in mice, Hana Kim, Ingeborg M. Langohr, Mohammad Faisal, Margaret McNulty, Caitlin Thorn, and Joomyeong Kim
Microbial community structure and functional potential of lava-formed Gotjawal soils in Jeju, Korea, Jong Shik Kim, Dae Shin Kim, Keun Chul Lee, Jung Sook Lee, Gary M. King, and Sanghoon Kang
Enhancer-driven alternative promoters of imprinted genes, Joomyeong Kim, Bambarendage P.U. Perera, and Subash Ghimire
New mouse model of pulmonary hypertension induced by respiratory syncytial virus bronchiolitis, Dai Kimura, Jordy Saravia, Sridhar Jaligama, Isabella McNamara, Luan D. Vu, Ryan D. Sullivan, Salvatore Mancarella, Dahui You, and Stephania A. Cormier
Microbiomes of the Enteropneust, , and Associated Marine Intertidal Sediments of Cod Cove, Maine, Gary M. King
Identification and optimization of soluble epoxide hydrolase inhibitors with dual potency towards fatty acid amide hydrolase, Sean D. Kodani, Saavan Bhakta, Sung Hee Hwang, Svetlana Pakhomova, Marcia E. Newcomer, Christophe Morisseau, and Bruce D. Hammock
Phylogenomic analysis on the exceptionally diverse fish clade Gobioidei (Actinopterygii: Gobiiformes) and data-filtering based on molecular clocklikeness, Ting Kuang, Luke Tornabene, Jingyan Li, Jiamei Jiang, Prosanta Chakrabarty, John S. Sparks, Gavin J.P. Naylor, and Chenhong Li
Functional analysis of short linear motifs in the plant cyclin-dependent kinase inhibitor SIAMESE, Narender Kumar, Renee Dale, Daniel Kemboi, Elizabeth A. Zeringue, Naohiro Kato, and John C. Larkin
A 3D-printed modular device for imaging the brain of small birds, C.R. Lattin, M.A. Emerson, J.-D. Gallezot, T. Mulnix, J.E. Brown, and R.E. Carson
An Amazonian rainforest and its fragments as a laboratory of global change, William F. Laurance, José L. Camargo, Philip M. Fearnside, Thomas E. Lovejoy, G Bruce Williamson, Rita C. Mesquita, Christoph F. Meyer, and Paulo E. Bobrowiec
Endothelial Cell Autonomous Role of Akt1, Monica Y. Lee, Ana Gamez-Mendez, Jiasheng Zhang, Zhenwu Zhuang, David J. Vinyard, Jan Kraehling, Heino Velazquez, Gary W. Brudvig, Themis R. Kyriakides, Michael Simons, et al.
An overview of extant conifer evolution from the perspective of the fossil record, Andrew B. Leslie, Jeremy Beaulieu, Garth Holman, Christopher S. Campbell, Wenbin Mei, Linda R. Raubeson, and Sarah Mathews
Host-targeted rad-seq reveals genetic changes in the coral oculina patagonica associated with range expansion along the spanish mediterranean coast, Karine Posbic Leydet, Carsten G.B. Grupstra, Rafel Coma, Marta Ribes, and Michael E. Hellberg
hillR: taxonomic, functional, and phylogenetic diversity and similarity through Hill Numbers, Daijiang Li
Species richness and phylogenetic diversity of native and non-native species respond differently to area and environmental factors, Daijiang Li, William B. Monahan, and Benjamin Baiser
Homogenization of species composition and species association networks are decoupled, Daijiang Li, Timothée Poisot, Donald M. Waller, and Benjamin Baiser
NKG2D regulation of lung pathology and dendritic cell function following respiratory syncytial virus infection, Huan Liu, Andrew R. Osterburg, Jennifer Flury, Shuo Huang, Francis X. McCormack, Stephania A. Cormier, and Michael T. Borchers
Electron transfer kinetics of the mitochondrial outer membrane protein mitoNEET, X. Li, Y. Wang, G. Tan, J. Lyu, and H. Ding
Transgene-assisted genetic screen identifies rsd-6 and novel genes as key components of antiviral RNA interference in Caenorhabditis elegans, Tianyun Long, Fei Meng, and Rui Lu
Optimal data partitioning, multispecies coalescent and Bayesian concordance analyses resolve early divergences of the grape family (Vitaceae), Limin Lu, Cymon J. Cox, Sarah Mathews, Wei Wang, Jun Wen, and Zhiduan Chen
Carbon fixation: Closing the circle, Marylou C. Machingura and James V. Moroney
TRPC5 is required for the NO-dependent increase in dendritic Ca 2+ and GABA release from chick retinal amacrine cells, J. Wesley Maddox, Nikka Khorsandi, and Evanna Gleason
Using a phiC31 "disintegrase" to make new attP sites in the Drosophila genome at locations showing chromosomal position effects, Mukesh Maharjan, Robert K. Maeda, François Karch, and Craig M. Hart
Astatotilapia burtoni: A Model System for Analyzing the Neurobiology of Behavior, Karen P. Maruska and Russell D. Fernald
Hidden endemism, deep polyphyly, and repeated dispersal across the Isthmus of Tehuantepec: Diversification of the White-collared Seedeater complex (Thraupidae: Sporophila torqueola), Nicholas A. Mason, Arturo Olvera-Vital, Irby J. Lovette, and Adolfo G. Navarro-Sigüenza
Aldosterone Mediated Regulation of Epithelial Sodium Channel (ENaC) Subunits in the Rat Hypothalamus, Natalie J. Mills, Kaustubh Sharma, Masudul Haque, Meagan Moore, and Ryoichi Teruyama
Effect of dietary salt intake on epithelial Na+ channels (ENaCs) in the hypothalamus of Dahl salt-sensitive rats, Natalie J. Mills, Kaustubh Sharma, Katie Huang, and Ryoichi Teruyama
Energy Expenditure in Pregnant Women with Obesity Does Not Support Energy Intake Recommendations, Jasper Most, Porsha M. Vallo, L Anne Gilmore, Marshall St Amant, Daniel S. Hsia, Abby D. Altazan, Robbie A. Beyl, and Eric Ravussin
eModel-BDB: a database of comparative structure models of drug-target interactions from the Binding Database, Misagh Naderi, Rajiv Gandhi Govindaraj, and Michal Brylinski
The dual role of Amazonian rivers in the generation and maintenance of avian diversity, Luciano N. Naka and Robb T. Brumfield
NextGen VOICES: Research resolutions, Felicia Olmeta-Schult, Lauren Massa Segal, Sam Tyner, Twila Alexandra Moon, Ryan Dz Wei Chow, Prosanta Chakrabarty, Martin Pacesa, Anna Igorevna Podgornaia, Jennifer Chen, Bipin Singh, et al.
Modeling the influence of eutrophication and redox conditions on Mercury cycling at the sediment-water interface in the Berre lagoon, Svetlana Pakhomova, Evgeniy Yakushev, Elizaveta Protsenko, Sylvain Rigaud, Daniel Cossa, Joel Knoery, Raoul Marie Couture, Olivier Radakovitch, Shamil Yakubov, Dominika Krzeminska, et al.
Gene regulation by redox-sensitive Burkholderia thailandensis OhrR and its role in bacterial killing of Caenorhabditis elegans, Anuja Pande, Todd C. Veale, and Anne Grove
Characterizing the phylogenetic specialism-generalism spectrum of mammal parasites, A. W. Park, M. J. Farrell, J. P. Schmidt, S. Huang, T. A. Dallas, P. Pappalardo, J. M. Drake, P. R. Stephens, R. Poulin, C. L. Nunn, et al.
Genome-wide linkage scan for loci influencing plasma triglyceride levels, Juan M. Peralta, Nicholas B. Blackburn, Arthur Porto, John Blangero, and Jac Charlesworth
Circular RNA identified from Peg3 and Igf2r, Bambarendage P.U. Perera, Subash Ghimire, and Joomyeong Kim
Global environmental change effects on plant community composition trajectories depend upon management legacies, Michael P. Perring, Markus Bernhardt-Römermann, Lander Baeten, Gabriele Midolo, Haben Blondeel, Leen Depauw, Dries Landuyt, Sybryn L. Maes, Emiel De Lombaerde, Maria Mercedes Carón, et al.
Understanding context dependency in the response of forest understorey plant communities to nitrogen deposition, Michael P. Perring, Martin Diekmann, Gabriele Midolo, David Schellenberger Costa, Markus Bernhardt-Römermann, Johanna C.J. Otto, Frank S. Gilliam, Per Ola Hedwall, Annika Nordin, Thomas Dirnböck, et al.
Spreading the news about the novel conjugation mechanism in Streptomyces bacteria, Gregg S. Pettis
Conflicting Evolutionary Histories of the Mitochondrial and Nuclear Genomes in New World Myotis Bats, Roy N. Platt, Brant C. Faircloth, Kevin A. Sullivan, Troy J. Kieran, Travis C. Glenn, Michael W. Vandewege, Thomas E. Lee, and Robert J. Baker
Adult energy requirements predicted from doubly labeled water, Andrew Plucker, Diana M. Thomas, Nick Broskey, Corby K. Martin, Dale Schoeller, Robin Shook, Steven B. Heymsfield, and James A. Levine
Variational Approaches to Evolvability: Short- and Long-Term Perspectives, Arthur Porto
Reliability of genomic predictions of complex human phenotypes, Arthur Porto, Juan M. Peralta, Nicholas B. Blackburn, and John Blangero
Universal target‐enrichment baits for anthozoan (Cnidaria) phylogenomics: New approaches to long‐standing problems, Andrea M. Quattrini, Brant C. Faircloth, Luisa F. Dueñas, Tom C. L. Bridge, Mercer R. Brugler, Iván F. Calixto‐Botía, Danielle M. DeLeo, Sylvain Forêt, Santiago Herrera, Simon M. Y. Lee, et al.
Linear Bidentate Ligands (L) with Two Terminal Pyridyl N-Donor Groups Forming Pt(II)LCl2 Complexes with Rare Eight-Membered Chelate Rings, Kokila Ranasinghe, Patricia A. Marzilli, Svetlana Pakhomova, and Luigi G. Marzilli
Biogeography and diversification of Rhegmatorhina (Aves: Thamnophilidae): Implications for the evolution of Amazonian landscapes during the Quaternary, Camila C. Ribas, Alexandre Aleixo, Chrysoula Gubili, Fernando M. d'Horta, Robb T. Brumfield, and Joel Cracraft
Biogeography And Diversification Of Rhegmatorhina (Aves: Thamnophilidae): Implications For The Evolution Of Amazonian Landscapes During The Quaternary, C C. Ribas, A Aleixo, C Gubili, F M. d'Horta, C C. Ribas, and J Cracraft
Variation Across Mitochondrial Gene Trees Provides Evidence For Systematic Error: How Much Gene Tree Variation Is Biological?, E J. Richards, J M. Brown, A J. Barley, R A. Chong, and E J. Richards
Variation Across Mitochondrial Gene Trees Provides Evidence For Systematic Error: How Much Gene Tree Variation Is Biological?, E J. Richards, J M. Brown, A J. Barley, R A. Chong, and E J. Richards