Submissions from 2015
Examining evolutionary relationships and shifts in depth preferences in batfishes (Lophiiformes: Ogcocephalidae), Valerie Derouen, William B. Ludt, Hsuan Ching Ho, and Prosanta Chakrabarty
GeauxDock: A novel approach for mixed-resolution ligand docking using a descriptor-based force field, Yun Ding, Ye Fang, Wei P. Feinstein, Jagannathan Ramanujam, David M. Koppelman, Juana Moreno, Michal Brylinski, and Mark Jarrell
Can we identify genes with increased phylogenetic reliability?, Vinson P. Doyle, Randee E. Young, Gavin J.P. Naylor, and Jeremy M. Brown
Can We Identify Genes With Increased Phylogenetic Reliability?, V P. Doyle, R E. Young, G J. Naylor, J M. Brown, and V P. Doyle
Can We Identify Genes With Increased Phylogenetic Reliability?, V P. Doyle, R E. Young, G J. Naylor, J M. Brown, and V P. Doyle
Phylogeography of the military macaw (Ara militaris) and the Great Green Macaw (A. Ambiguus) based on MTDNA sequence data, Jessica R. Eberhard, Eduardo E. Iñigo-Elias, Ernesto Enkerlin-Hoeflich, and E. Paùl Cun
Oncostatin M modulation of lipid storage, Carrie M. Elks, Jacqueline M. Stephens, and Jacqueline M. Stephens
Blueberries improve glucose tolerance without altering body composition in obese postmenopausal mice, Carrie M. Elks, Jennifer D. Terrebonne, Donald K. Ingram, and Jacqueline M. Stephens
Mechanistic species distribution modelling as a link between physiology and conservation, Tyler G. Evans, Sarah E. Diamond, and Morgan W. Kelly
Ocean acidification research in the 'post-genomic' era: Roadmaps from the purple sea urchin Strongylocentrotus purpuratus, Tyler G. Evans, Jacqueline L. Padilla-Gamiño, Morgan W. Kelly, Melissa H. Pespeni, Francis Chan, Bruce A. Menge, Brian Gaylord, Tessa M. Hill, Ann D. Russell, Stephen R. Palumbi, et al.
PHYLUCE is a software package for the analysis of conserved genomic loci, B.C. Faircloth
Target enrichment of ultraconserved elements from arthropods provides a genomic perspective on relationships among hymenoptera, B.C. Faircloth, M.G. Branstetter, N.D. White, and S.G. Brady
Calculating an optimal box size for ligand docking and virtual screening against experimental and predicted binding pockets, Wei P. Feinstein and Michal Brylinski
Accelerating the pace of protein functional annotation with intel xeon phi coprocessors, Wei P. Feinstein, Juana Moreno, Mark Jarrell, and Michal Brylinski
Updating models for restoration and management of fiery ecosystems, Jennifer M. Fill, William J. Platt, Shane M. Welch, Jayme L. Waldron, and Timothy A. Mousseau
Increased phosphate transport of Arabidopsis thalianaPht1;1 by site-directed mutagenesis of tyrosine 312 may be attributed to the disruption of homomeric interactions, Elena B. Fontenot, Sandra Feuer DiTusa, Naohiro Kato, Danielle M. Olivier, Renee Dale, Wei Yi Lin, Tzyy Jen Chiou, Megan A. Macnaughtan, and Aaron P. Smith
The geographic distribution of a tropical montane bird is limited by a tree: Acorn Woodpeckers (Melanerpes formicivorus) and Colombian oaks (Quercus humboldtii) in the Northern Andes, Benjamin G. Freeman and Nicholas A. Mason
Tissue-specific contributions of paternally expressed gene 3 in lactation and maternal care of mus musculus, Wesley D. Frey and Joomyeong Kim
Diosgenin, 4-hydroxyisoleucine, and fiber from fenugreek: Mechanisms of actions and potential effects on metabolic syndrome, Scott Fuller and Jacqueline M. Stephens
Fuels and fires influence vegetation via above- and belowground pathways in a high-diversity plant community, Paul R. Gagnon, Heather A. Passmore, Matthew Slocum, Jonathan A. Myers, Kyle E. Harms, William J. Platt, and C. E.Timothy Paine
Synthesis, spectroscopic, and in vitro investigations of 2,6-diiodo-BODIPYs with PDT and bioimaging applications, Jaime H. Gibbs, Zehua Zhou, David Kessel, Frank R. Fronczek, Svetlana Pakhomova, and M. Graҫa H. Vicente
Genome-wide ultraconserved elements exhibit higher phylogenetic informativeness than traditional gene markers in percomorph fishes, P.S. Gilbert, J. Chang, C. Pan, E.M. Sobel, J.S. Sinsheimer, B.C. Faircloth, and M.E. Alfaro
Finding the best predictor of reproductive performance of Leach's Storm-Petrels, Morgan E. Gilmour, Christine R. Lattin, L. Michael Romero, Mark F. Haussmann, Robert A. Mauck, and Donald C. Dearborn
Inhibition of cell adhesion and immune responses in the mouse model of collagen-induced arthritis with a peptidomimetic that blocks CD2-CD58 interface interactions, Ameya S. Gokhale, Rushikesh Sable, Jason D. Walker, Leslie McLaughlin, Konstantin G. Kousoulas, and Seetharama D. Jois
Fat in flames: Influence of cytokines and pattern recognition receptors on adipocyte lipolysis, Ryan W. Grant and Jacqueline M. Stephens
A second corticotropin-releasing hormone gene (CRH2) is conserved across vertebrate classes and expressed in the hindbrain of a basal Neopterygian fish, the spotted gar (Lepisosteus oculatus), Brian P. Grone and Karen P. Maruska
Divergent evolution of two corticotropin-releasing hormone (CRH) genes in teleost fishes, Brian P. Grone and Karen P. Maruska
Determining the role of metal binding in protein cage assembly, A. Grove, A.K. Kushwaha, and K.H. Nguyen
Comparison of dppf-Supported Nickel Precatalysts for the Suzuki-Miyaura Reaction: The Observation and Activity of Nickel(I), Louise M. Guard, Megan Mohadjer Beromi, Gary W. Brudvig, Nilay Hazari, and David J. Vinyard
Molecular approaches for improving desiccation tolerance: insights from the brine shrimp Artemia franciscana, Steven C. Hand and Michael A. Menze
Localisation of 11β-Hydroxysteroid Dehydrogenase Type 2 in Mineralocorticoid Receptor Expressing Magnocellular Neurosecretory Neurones of the Rat Supraoptic and Paraventricular Nuclei, M. Haque, R. Wilson, K. Sharma, N. J. Mills, and R. Teruyama
Immediate chromatin immunoprecipitation and on-bead quantitative PCR analysis: A versatile and rapid ChIP procedure, Kayla M. Harmeyer, Paul F. South, Brett Bishop, Joe Ogas, and Scott D. Briggs
Genomic variation in a widespread Neotropical bird (Xenops minutus) reveals divergence, population expansion, and gene flow, Michael G. Harvey and Robb T. Brumfield
Similarity thresholds used in DNA sequence assembly fromshort reads can reduce the comparability of population histories across species, Michael G. Harvey, Caroline Duffie Judy, Glenn F. Seeholzer, James M. Maley, Gary R. Graves, and Robb T. Brumfield
Particulate matter containing environmentally persistent free radicals induce aryl hydrocarbon receptor-dependent cytokine production in human bronchial epithelial cells, V. Hebert, S. Cormier, R. Reed, W. Backes, and T. Dugas
Phylogenetics, divergence times and diversification from three genomic partitions in monocots, Kate L. Hertweck, Michael S. Kinney, Stephanie A. Stuart, Olivier Maurin, Sarah Mathews, Mark W. Chase, Maria A. Gandolfo, and J. Chris Pires
Comparative gut microbiota of 59 neotropical bird species, Sarah M. Hird, César Sánchez, Bryan C. Carstens, and Robb T. Brumfield
Acute Lung Injury Results from Innate Sensing of Viruses by an ER Stress Pathway, Eike R. Hrincius, Swantje Liedmann, David Finkelstein, Peter Vogel, Shane Gansebom, Amali E. Samarasinghe, Dahui You, Stephania A. Cormier, and Jonathan A. McCullers
Helicase and its interacting factors: Regulation mechanism, characterization, structure, and application for drug design, Cheng Yang Huang, Yoshito Abe, Huangen Ding, and I. Fang Chung
The regulatory role of Streptomyces coelicolor TamR in central metabolism, H. Huang, S. Sivapragasam, and A. Grove
Impaired gamma delta T cell-derived IL-17A and inflammasome activation during early respiratory syncytial virus infection in infants, Huaqiong Huang, Jordy Saravia, Dahui You, Aaron J. Shaw, and Stephania A. Cormier
Integrin αiiβ3 transmembrane domain separation mediates Bi-directional signaling, Ping Hu and Bing Hao Luo
Exposure to Deepwater Horizon Crude Oil Burnoff Particulate Matter Induces Pulmonary Inflammation and Alters Adaptive Immune Response, Sridhar Jaligama, Zaili Chen, Jordy Saravia, Nikki Yadav, Slawomir M. Lomnicki, Tammy R. Dugas, and Stephania A. Cormier
Randomized, placebo-controlled trial of acetaminophen for the reduction of oxidative injury in severe sepsis: the Acetaminophen for the Reduction of Oxidative Injury in Severe Sepsis trial, David R. Janz, Julie A. Bastarache, Todd W. Rice, Gordon R. Bernard, Melissa A. Warren, Nancy Wickersham, Gillian Sills, and John A. Oates
Phylogenomic analyses data of the avian phylogenomics project, E.D. Jarvis, S. Mirarab, A.J. Aberer, B. Li, P. Houde, C. Li, S.Y.W. Ho, B.C. Faircloth, B. Nabholz, J.T. Howard, et al.
Erratum: Thermodynamic Characterization of a Thermostable Antibiotic Resistance Enzyme, the Aminoglycoside Nucleotidyltransferase (4′) (Biochemistry 51:45 (9147-9155)), Xiaomin Jing, Edward Wright, Amber N. Bible, Cynthia B. Peterson, Gladys Alexandre, Barry D. Bruce, and Engin H. Serpersu
Manganese is an additional cation that enhances colonial phase variation of Vibrio vulnificus, Zelam M. Kaluskar, Katherine L. Garrison-Schilling, Kevin S. Mccarter, Bliss Lambert, Shelby R. Simar, and Gregg S. Pettis
The ubiquitin ligase Siah2 regulates obesity-induced adipose tissue inflammation, Gail Kilroy, Lauren E. Carter, Susan Newman, David H. Burk, Justin Manuel, Andreas Möller, David D. Bowtell, Randall L. Mynatt, Sujoy Ghosh, and Z. Elizabeth Floyd
Retrotransposon-derived promoter of mammalian Aebp2, Hana Kim, Arundhati Bakshi, and Joomyeong Kim
AEBP2 as a transcriptional activator and its role in cell migration, Hana Kim, Muhammad B. Ekram, Arundhati Bakshi, and Joomyeong Kim
Epigenetic instability of imprinted genes in human cancers, Joomyeong Kim, Corey L. Bretz, and Suman Lee
Plant neighborhood effects on herbivory: Damage is both density and frequency dependent, Tania N. Kim, Nora Underwood, and J. T. Cronin
Host promiscuity in symbiont associations can influence exotic legume establishment and colonization of novel ranges, Metha M. Klock, Luke G. Barrett, Peter H. Thrall, and Kyle E. Harms
Sequence analysis and characterization of active human alu subfamilies based on the 1000 genomes pilot project, Miriam K. Konkel, Jerilyn A. Walker, Ashley B. Hotard, Megan C. Ranck, Catherine C. Fontenot, Jessica Storer, Chip Stewart, Gabor T. Marth, and Mark A. Batzer
Metabolic and photosynthetic consequences of blocking starch biosynthesis in the green alga Chlamydomonas reinhardtii sta6 mutant, Anagha Krishnan, G. Kenchappa Kumaraswamy, David J. Vinyard, Huiya Gu, Gennady Ananyev, Matthew C. Posewitz, and G. Charles Dismukes
Nitric oxide releases Cl− from acidic organelles in retinal amacrine cells, Vijai Krishnan and Evanna Gleason
Functional conservation in the SIAMESE-RELATED family of cyclin-dependent kinase inhibitors in land plants, Narender Kumar, Hirofumi Harashima, Shweta Kalve, Jonathan Bramsiepe, Kai Wang, Bulelani L. Sizani, Laura L. Bertrand, Matthew C. Johnson, Christopher Faulk, Renee Dale, et al.
Escherichia coli YqjA, a member of the conserved DedA/Tvp38 membrane protein family, is a putative osmosensing transporter required for growth at alkaline pH, Sujeet Kumar and William T. Doerrler
A moonlighting function of Mycobacterium smegmatis Ku in zinc homeostasis?, Ambuj K. Kushwaha, Dinesh K. Deochand, and Anne Grove
Synopsis of Couepia (Chrysobalanaceae) in Costa Rica, with a description of two new species, Laura Lagomarsino
Two New Species of Burmeistera (Campanulaceae: Lobelioideae) from the Cordillera de Talamanca of Costa Rica and Panama, with a Key to the Central American Species, Laura P. Lagomarsino, Daniel Santamaría Aguilar, and Nathan Muchhala
Lectotypification of Peruvian Campanulaceae Names Associated with Collections Made by Augusto Weberbauer, Laura P. Lagomarsino and Daniel Santamaría-Aguilar
Enhancing MSn mass spectrometry strategy for carbohydrate analysis: A b2 ion spectral library, Roger A Laine
Reduction of mitochondrial protein mitoNEET [2Fe-2S] clusters by human glutathione reductase, Aaron P. Landry, Zishuo Cheng, and Huangen Ding
Are receptor concentrations correlated across tissues within individuals? A case study examining glucocorticoid and mineralocorticoid receptor binding, Christine R. Lattin, Daniel E. Keniston, J. Michael Reed, and L. Michael Romero
Seasonal variation in glucocorticoid and mineralocorticoid receptors in metabolic tissues of the house sparrow (Passer domesticus), Christine R. Lattin and L. Michael Romero
Wounding alters blood chemistry parameters and skin mineralocorticoid receptors in house sparrows (Passer domesticus), C.R. Lattin, S.E. Durant, and L.M. Romero
DNA-binding motif of the imprinted transcription factor PEG3, Suman Lee, An Ye, and Joomyeong Kim
Environmental gradients and the evolution of successional habitat specialization: A test case with 14 Neotropical forest sites, Susan G. Letcher, Jesse R. Lasky, Robin L. Chazdon, Natalia Norden, S. Joseph Wright, Jorge A. Meave, Eduardo A. Pérez-García, Rodrigo Muñoz, Eunice Romero-Pérez, Ana Andrade, et al.
The invasive coral Oculina patagonica has not been recently introduced to the Mediterranean from the western Atlantic Speciation and evolutionary genetics, Karine Posbic Leydet and Michael E. Hellberg
Drivers of observed biotic homogenization in pine barrens of central wisconsin, Daijiang Li and Donald Waller
Phytochrome diversity in green plants and the origin of canonical plant phytochromes, Fay Wei Li, Michael Melkonian, Carl J. Rothfels, Juan Carlos Villarreal, Dennis W. Stevenson, Sean W. Graham, Gane Ka Shu Wong, Kathleen M. Pryer, and Sarah Mathews
The origin and evolution of phototropins, Fay Wei Li, Carl J. Rothfels, Michael Melkonian, Juan C. Villarreal, Dennis W. Stevenson, Sean W. Graham, Gane K.S. Wong, Sarah Mathews, and Kathleen M. Pryer
High-resolution Digital Mapping of N-Methylpurines in Human Cells Reveals Modulation of Their Induction and Repair by Nearest-neighbor Nucleotides, Mingyang Li, Tengyu Ko, and Shisheng Li
Transcription coupled nucleotide excision repair in the yeast Saccharomyces cerevisiae: The ambiguous role of Rad26, Shisheng Li
Lectotypification of Peruvian Campanulaceae Names Associated with Collections Made by Augusto Weberbauer, Lagomarsino LP and Santamaría-Aguilar D
Predicted binding site information improves model ranking in protein docking using experimental and computer-generated target structures, Surabhi Maheshwari and Michal Brylinski
Predicting protein interface residues using easily accessible on-line resources, Surabhi Maheshwari and Michal Brylinski
Centimeter-long electron transport in marine sediments via conductive minerals, Nikhil S. Malvankar, Gary M. King, and Derek R. Lovley
Social Transitions Cause Rapid Behavioral and Neuroendocrine Changes, Karen P. Maruska
Directional sound sensitivity in utricular afferents in the toadfish Opsanus tau, Karen P. Maruska and Allen F. Mensinger
The effect of habitat and body size on the evolution of vocal displays in Thraupidae (tanagers), the largest family of songbirds, Nicholas A. Mason and Kevin J. Burns
Differentially expressed genes match bill morphology and plumage despite largely undifferentiated genomes in a Holarctic songbird, Nicholas A. Mason and Scott A. Taylor
Derivation of the freshwater fish fauna of Central America revisited: Myers's hypothesis in the twenty-first century, Wilfredo A. Matamoros, Caleb D. Mcmahan, Prosanta Chakrabarty, James S. Albert, and Jacob F. Schaefer
Motoneuron axon pathfinding errors in zebrafish: Differential effects related to concentration and timing of nicotine exposure, Evdokia Menelaou, Latoya T. Paul, Surangi N. Perera, and Kurt R. Svoboda
Identification of the Substrate Access Portal of 5-Lipoxygenase, Sunayana Mitra, Sue G. Bartlett, and Marcia E. Newcomer
Serotonin 5-HT2 receptor activation prevents allergic asthma in a mouse model, Felix Nau, Justin Miller, Jordy Saravia, Terry Ahlert, Bangning Yu, Kyle I. Happel, Stephania A. Cormier, and Charles D. Nichols
A Kazal-type serine protease inhibitor from the defense gland secretion of the subterranean termite Coptotermes formosanus Shiraki, Horia Negulescu, Youzhong Guo, Thomas P. Garner, Octavia Y. Goodwin, Gregg Henderson, Roger A. Laine, and Megan A. Macnaughtan
Deflating trees: Improving bayesian branch-length estimates using informed priors, Bradley J. Nelson, John J. Andersen, and Jeremy M. Brown
The structural basis for specificity in lipoxygenase catalysis, Marcia E. Newcomer and Alan R. Brash
Thriving in the cold: Glacial expansion and post-glacial contraction of a temperate terrestrial salamander (Plethodon serratus), Catherine E. Newman and Christopher C. Austin
Fishes of the Eastern Johor Strait, Heok Hee Ng, Heok Hui Tan, Kelvin K.P. Lim, William B. Ludt, and Prosanta Chakrabarty
Successional dynamics in Neotropical forests are as uncertain as they are predictable, Natalia Norden, Héctor A. Angarita, Frans Bongers, Miguel Martínez-Ramos, Iñigo Granzow-de la Cerda, Michiel van Breugel, Edwin Lebrija-Trejos, and Jorge A. Meave
How global biodiversity hotspots may go unrecognized: Lessons from the North American Coastal Plain, Reed F. Noss, William J. Platt, Bruce A. Sorrie, Alan S. Weakley, D. Bruce Means, Jennifer Costanza, and Robert K. Peet
Cell type-specific responses to salinity - the epidermal bladder cell transcriptome of Mesembryanthemum crystallinum, Dong Ha Oh, Bronwyn J. Barkla, Rosario Vera-Estrella, Omar Pantoja, Sang Yeol Lee, Hans J. Bohnert, and Maheshi Dassanayake
Redesigning photosynthesis to sustainably meet global food and bioenergy demand, Donald R. Ort, Sabeeha S. Merchant, Jean Alric, Alice Barkan, Robert E. Blankenship, Ralph Bock, Roberta Croce, Maureen R. Hanson, Julian M. Hibberd, Stephen P. Long, et al.
The Human Shoulder Suspension Apparatus: A Causal Explanation for Bilateral Asymmetry and a Fresh Look at the Evolution of Human Bipedality, Michelle L. Osborn and Dominique G. Homberger
Using an external exposome framework to examine pregnancy-related morbidities and mortalities: Implications for health disparities research, Tonny J. Oyana, Patricia Matthews-Juarez, Stephania A. Cormier, Xiaoran Xu, and Paul D. Juarez
Induction of reactive oxygen species in marine phytoplankton under crude oil exposure, Koray Ozhan, Sara Zahraeifard, Aaron P. Smith, and Sibel Bargu