Submissions from 2014
Adaptation to ephemeral habitat may overcome natural barriers and severe habitat fragmentation in a fire-dependent species, the Bachman's Sparrow (Peucaea aestivalis), Blain Cerame, James A. Cox, Robb T. Brumfield, James W. Tucker, and Sabrina S. Taylor
The Hoosier cavefish, a new and endangered species (Amblyopsidae, Amblyopsis) from the caves of southern Indiana, Prosanta Chakrabarty, Jacques A. Prejean, and Matthew L. Niemiller
Phenylalanine residues at the carboxyl terminus of the herpes simplex virus 1 UL20 membrane protein regulate cytoplasmic virion envelopment and infectious virus production, Anu-Susan Charles, Vladimir N. Chouljenko, Nithya Jambunathan, Ramesh Subramanian, Peter Mottram, and Konstantin G. Kousoulas
Iron and zinc binding activity of Escherichia coli topoisomerase I homolog YrdD, Zishuo Cheng, Guoqiang Tan, Wu Wang, Xiaolu Su, Aaron P. Landry, Jianxin Lu, and Huangen Ding
Human genomic regions with exceptionally high levels of population differentiation identified from 911 whole-genome sequences, V. Colonna, Q. Ayub, Y. Chen, L. Pagani, P. Luisi, M. Pybus, E. Garrison, Y. Xue, C. Tyler-Smith, G. R. Abecasis, et al.
Limited type I interferons and plasmacytoid dendritic cells during neonatal respiratory syncytial virus infection permit immunopathogenesis upon reinfection, Stephania A. Cormier, Bishwas Shrestha, Jordy Saravia, Greg I. Lee, Li Shen, John P. DeVincenzo, Young In Kim, and Dahui You
Maternal exposure to EPFR-containing PM predisposes to enhanced allergic asthma in offspring, S. Cormier, P. L. Wang, D. H. You, and J. Soravia
Comparative genomics reveals insights into avian genome evolution and adaptation, Guojie Correction Zhang, Cai Li, Qiye Li, Bo Li, Denis M. Larkin, Chul Lee, Jay F. Storz, Agostinho Antunes, Matthew J. Greenwold, Robert W. Meredith, et al.
An integrative approach to understanding host-parasitoid population dynamics in real landscapes, James T. Cronin and John D. Reeve
Geographic variation and phylogenetic relationships of Myiopagis olallai (Aves: Passeriformes; Tyrannidae), with the description of two new taxa from the Northern Andes, Andres M. Cuervo, F. Gary Stiles, Miguel Lentino, Robb T. Brumfield, and Elizabeth P. Derryberry
Metacom: An R package for the analysis of metacommunity structure, Tad Dallas
Nitrate enrichment alters a Daphnia-microparasite interaction through multiple pathways, Tad Dallas and John M. Drake
Relative importance of environmental, geographic, and spatial variables on zooplankton metacommunities, Tad Dallas and John M. Drake
Relative importance of host environment, transmission potential and host phylogeny to the structure of parasite metacommunities, Tad Dallas and Steven J. Presley
Plastid phylogenomics and green plant phylogeny: Almost full circle but not quite there, Charles C. Davis, Zhenxiang Xi, and Sarah Mathews
Evaluating summary statistics used to test for incomplete lineage sorting: Mito-nuclear discordance in the reef sponge Callyspongia vaginalis, Melissa B. DeBiasse, Bradley J. Nelson, and Michael E. Hellberg
Integrating sequence and array data to create an improved 1000 Genomes Project haplotype reference panel, Olivier Delaneau, Jonathan Marchini, Gil A. McVeanh, Peter Donnelly, Gerton Lunter, Jonathan L. Marchini, Simon Myers, Anjali Gupta-Hinch, Zamin Iqbal, Iain Mathieson, et al.
Latitudinal variation of freeze tolerance in intertidal marine snails of the genus melampus (Gastropoda: Ellobiidae), A. B. Dennis, S. H. Loomis, and M. E. Hellberg
hzar: hybrid zone analysis using an R software package, Elizabeth P. Derryberry, Graham E. Derryberry, James M. Maley, and Robb T. Brumfield
Molecular and biogeochemical evidence for methane cycling beneath the western margin of the Greenland Ice Sheet, Markus Dieser, Erik L.J.E. Broemsen, Karen A. Cameron, Gary M. King, Amanda Achberger, Kyla Choquette, Birgit Hagedorn, Ron Sletten, Karen Junge, and Brent C. Christner
Untangling the influences of unmodeled evolutionary processes on phylogenetic signal in a forensically important HIV-1 transmission cluster, Vinson P. Doyle, John J. Andersen, Bradley J. Nelson, Michael L. Metzker, and Jeremy M. Brown
Untangling The Influences Of Unmodeled Evolutionary Processes On Phylogenetic Signal In A Forensically Important Hiv-1 Transmission Cluster, V P. Doyle, J J. Andersen, B J. Nelson, M L. Metzker, and V P. Doyle
Two New Species of Freziera (Pentaphylacaceae) from Costa Rica, Santamaría-Aguilar D, Monro AK, Jiménez-Madrigal Q, and Lagomarsino LP
Zombie bugs? The fungus Purpureocillium cf. lilacinum may manipulate the behavior of its host bug Edessa rufomarginata, William Eberhard, Jessica Pacheco-Esquivel, Farah Carrasco-Rueda, Yuliana Christopher, Cely Gonzalez, Daniel Ramos, Hector Urbina, and Meredith Blackwell
High-Throughput Targeted Repeat Element Bisulfite Sequencing (HT-TREBS): Genome-wide DNA methylation analysis of IAP LTR retrotransposon, Muhammad B. Ekram and Joomyeong Kim
Warmer temperatures increase disease transmission and outbreak intensity in a host-pathogen system, Bret D. Elderd and James R. Reilly
A new species of shrew (Soricomorpha: Crocidura) from West Java, Indonesia, Jacob A. Esselstyn, Anang S. Achmadi, and Maharadatunkamsi
Reduced representation genome sequencing suggests low diversity on the sex chromosomes of tonkean macaque monkeys, Ben J. Evans, Kai Zeng, Jacob A. Esselstyn, Brian Charlesworth, and Don J. Melnick
Sexual differences of imprinted genes' expression levels, Mohammad Faisal, Hana Kim, and Joomyeong Kim
EFindSite: Enhanced fingerprint-based virtual screening against predicted ligand binding sites in protein models, Wei P. Feinstein and Michal Brylinski
Historical and recent processes shaping the geographic range of a rocky intertidal gastropod: Phylogeography, ecology, and habitat availability, Phillip B. Fenberg, Karine Posbic, and Michael E. Hellberg
APeg3: Regulation of Peg3 through an evolutionarily conserved ncRNA, Wesley D. Frey and Joomyeong Kim
Split luciferase complementation assay to detect regulated protein-protein interactions in rice protoplasts in a large-scale format, Yukichi Fujikawa, Takahiro Nakanishi, Hiroko Kawakami, Kanako Yamasaki, Masa H. Sato, Hiroyuki Tsuji, Makoto Matsuoka, and Naohiro Kato
St. John's Wort Has Metabolically Favorable Effects on Adipocytes In Vivo, Scott Fuller, Allison J. Richard, David M. Ribnicky, Robbie Beyl, Randall Mynatt, and Jacqueline M. Stephens
Genetic analysis and prevalence studies of the brp exopolysaccharide locus of Vibrio vulnificus, Katherine L. Garrison-Schilling, Zelam M. Kaluskar, Bliss Lambert, and Gregg S. Pettis
Gastrointestinal helminths in two species of geckos, gekko vittatus, gehyra oceanica, and five species of skinks, caledoniscincus atropunctatus, Emoia cyanogaster, Emoia erronan, Emoia nigra, Emoia sanfordi (Squamata) from the republic of Vanuatu, Oceania, Stephen R. Goldberg, Charles R. Bursey, Alison M. Hamilton, and Christopher C. Austin
Speciation in Western Scrub-Jays, Haldane's rule, and genetic clines in secondary contact, F.C. Gowen, J.M. Maley, C. Cicero, A.T. Peterson, B.C. Faircloth, T.C. Warr, and J.E. McCormack
Nonrandom, diversifying processes are disproportionately strong in the smallest size classes of a tropical forest, Peter T. Green, Kyle E. Harms, and Joseph H. Connell
Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs, R.E. Green, E.L. Braun, J. Armstrong, D. Earl, N. Nguyen, G. Hickey, M.W. Vandewege, J.A. St John, S. Capella-Gutiérrez, T.A. Castoe, et al.
Ligand-binding pocket bridges DNA-binding and dimerization domains of the urate-responsive marr homologue MftR from Burkholderia thailandensis, Ashish Gupta and Anne Grove
Anatomical and physiological studies of bigheaded carps demonstrate that the epibranchial organ functions as a pharyngeal taste organ, Anne Hansen, Ratna Ghosal, John Caprio, Aaron W. Claus, and Peter W. Sorensen
Do the BEAF insulator proteins regulate genes involved in cell polarity and neoplastic growth?, Craig M. Hart
Two new species of Philippine forest mice (Apomys, Muridae, Rodentia) from Lubang and Luzon Islands, with a redescription of Apomys sacobianus Johnson, 1962, Lawrence R. Heaney, Danilo S. Balete, Maria Josefa Veluz, Scott J. Steppan, Jacob A. Esselstyn, Andrew W. Pfeiffer, and Eric A. Rickart
Regulation and function of the peg3 imprinted domain, Hongzhi He and Joomyeong Kim
Sampling locality is more detectable than taxonomy or ecology in the gut microbiota of the brood-parasitic Brown-headed Cowbird (Molothrus ater), Sarah M. Hird, Bryan C. Carstens, Steven W. Cardiff, Donna L. Dittmann, and Robb T. Brumfield
Influence of season and method of topkill on resprouting characteristics and biomass of Quercus nigra saplings from a southeastern U.S. pine-grassland ecosystem, Tracy L. Hmielowski, Kevin M. Robertson, and William J. Platt
Exploring local adaptation and the ocean acidification seascape - Studies in the California Current Large Marine Ecosystem, G. E. Hofmann, T. G. Evans, M. W. Kelly, J. L. Padilla-Gamiño, C. A. Blanchette, L. Washburn, F. Chan, M. A. McManus, B. A. Menge, B. Gaylord, et al.
Syntaxin of plant proteins SYP123 and SYP132 mediate root hair tip growth in arabidopsis thaliana, Mie Ichikawa, Tomoko Hirano, Kazuhiko Enami, Taylor Fuselier, Naohiro Kato, Chian Kwon, Boris Voigt, Paul Schulze-Lefert, František Baluška, and Masa H. Sato
Inundicola Bravo, Isler, and Brumfield 2013 is a junior synonym of Akletos Dunajewski 1948 (Aves: Passeriformes: Thamnophilidae), Morton L. Isler, Gustavo A. Bravo, and Robb T. Brumfield
Systematics of the obligate ant-following clade of antbirds (Aves: Passeriformes: Thamnophilidae), Morton L. Isler, Gustavo A. Bravo, and Robb T. Brumfield
Herpes simplex virus 1 protein UL37 interacts with viral glycoprotein gK and membrane protein UL20 and functions in cytoplasmic virion envelopment, Nithya Jambunathan, Dmitry Chouljenko, Prashant Desai, Anu-Susan Charles, Ramesh Subramanian, Vladimir N. Chouljenko, and Konstantin G. Kousoulas
Nucleolar stress with and without p53, Allison James, Yubo Wang, Himanshu Raje, Raphyel Rosby, and Patrick DiMario
Whole-genome analyses resolve early branches in the tree of life of modern birds, Erich D. Jarvis, Siavash Mirarab, Andre J. Aberer, Bo Li, Peter Houde, Cai Li, Simon Y.W. Ho, Brant C. Faircloth, Benoit Nabholz, Jason T. Howard, et al.
Trends in access of plant biodiversity data revealed by Google Analytics, Timothy Mark Jones, David G. Baxter, Gregor Hagedorn, Ben Legler, Edward Gilbert, Kevin Thiele, Yalma Vargas-Rodriguez, and Lowell E. Urbatsch
Ectopic expression of ADP ribosylation factor 1 (SaARF1) from smooth cordgrass (Spartina alterniflora Loisel) confers drought and salt tolerance in transgenic rice and Arabidopsis, R. Joshi, M.V. Ramanarao, S. Lee, N. Kato, and N. Baisakh
The carbon concentrating mechanism in Chlamydomonas reinhardtii: Finding the missing pieces, Nadine Jungnick, Yunbing Ma, Bratati Mukherjee, Julie C. Cronan, Dequantarius J. Speed, Susan M. Laborde, David J. Longstreth, and James V. Moroney
Expanded host diversity and geographic distribution of hantaviruses in sub-Saharan Africa, Hae Ji Kang, William T. Stanley, Jacob A. Esselstyn, Se Hun Gu, and Richard Yanagihara
Functional hierarchy of herpes simplex virus type-1 membrane proteins in corneal infection and virus transmission to ganglionic neurons, In-Joong Kim, Ahmad A. Saied, Vladimir N. Chouljenko, Ramesh Subramanian, and Konstantin G. Kousoulas
Chemicals Facilitating Reprogramming: Targeting the SAM Binding Site to Identify Novel Methyltransferase Inhibitors, Jeong Do Kim, Jong S. Rim, Robert B. Crochet, Yong Hwan Lee, Jaroslaw Staszkiewicz, Ru Gao, and Kenneth J. Eilertsen
Erratum: Peg3 mutational effects on reproduction and placenta-specific gene families (PLoS ONE (2014) 9:1 DOI: 10.1371/annotation/8de03ec5-e62c-4135-87ee- 4928475090a8), Joomyeong Kim, Wesley D. Frey, Hongzhi He, Hana Kim, Muhammad B. Ekram, Arundhati Bakshi, Mohammad Faisal, Bambarendage P.U. Perera, An Ye, and Ryoichi Teruyama
Thermomicrobium carboxidum sp. nov., and Thermorudis peleae gen. nov., sp. nov., carbon monoxide-oxidizing bacteria isolated from geothermally heated biofilms, C. E. King and G. M. King
Urban microbiomes and urban ecology: How do microbes in the built environment affect human sustainability in cities?, Gary M. King
The structure of human 15-lipoxygenase-2 with a substrate mimic, Matthew J. Kobe, David B. Neau, Caitlin E. Mitchell, Sue G. Bartlett, and Marcia E. Newcomer
Intergenic transcriptional interference is blocked by RNA polymerase III transcription factor TFIIIB in Saccharomyces cerevisiae, Asawari Korde, Jessica M. Rosselot, and David Donze
Advances in GPCR modeling evaluated by the GPCR Dock 2013 assessment: Meeting new challenges, Irina Kufareva, Vsevolod Katritch, Phil Biggin, Minsup Kim, Kichul Park, Sang Won Jung, Art E. Cho, Zara A. Sands, Liliana Ostopovici-Halip, Cristian G. Bologa, et al.
Members of the conserved DedA family are likely membrane transporters and are required for drug resistance in Escherichia coli, Sujeet Kumar and William T. Doerrler
Contributions of adipose tissue architectural and tensile properties toward defining healthy and unhealthy obesity, Denise E. Lackey, David H. Burk, Mohamed R. Ali, Rouzbeh Mostaedi, William H. Smith, Jiyoung Park, Philipp E. Scherer, Shundra A. Seay, Colin S. McCoin, Paolo Bonaldo, et al.
Phylogeny, classification, and fruit evolution of the species-rich Neotropical bellflowers (Campanulaceae: Lobelioideae), Laura P. Lagomarsino, Alexandre Antonelli, Nathan Muchhala, Allan Timmermann, Sarah Mathews, and Charles C. Davis
Redox control of human mitochondrial outer membrane protein mitoneet [2FE-2S] clusters by biological thiols and hydrogen peroxide, Aaron P. Landry and Huangen Ding
The N-Terminal Domain of Human DNA Helicase Rtel1 Contains a Redox Active Iron-Sulfur Cluster, Aaron P. Landry and Huangen Ding
Chronic exposure to a low dose of ingested petroleum disrupts corticosterone receptor signalling in a tissue-specific manner in the house sparrow (Passer domesticus), Christine R. Lattin and L. Michael Romero
Chronic stress alters concentrations of corticosterone receptors in a tissue-specific manner in wild house sparrows (Passer domesticus), Christine R. Lattin and L. Michael Romero
Evaluating the stress response as a bioindicator of sub- lethal effects of crude oil exposure in wild house sparrows (Passer domesticus), C.R. Lattin, H.M. Ngai, and L.M. Romero
Exposure to combustion generated environmentally persistent free radicals enhances severity of influenza virus infection, Greg I. Lee, Jordy Saravia, Dahui You, Bishwas Shrestha, Sridhar Jaligama, Valerie Y. Hebert, Tammy R. Dugas, and Stephania A. Cormier
Optimized inhibitors of soluble epoxide hydrolase improve in vitro target residence time and in vivo efficacy, Kin Sing Stephen Lee, Jun Yan Liu, Karen M. Wagner, Svetlana Pakhomova, Hua Dong, Christophe Morisseau, Samuel H. Fu, Jun Yang, Peng Wang, Arzu Ulu, et al.
Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns, Fay Wei Li, Juan Carlos Villarreal, Steven Kelly, Carl J. Rothfels, Michael Melkonian, Eftychios Frangedakis, Markus Ruhsam, Erin M. Sigel, Joshua P. Der, Jarmila Pittermann, et al.
The stability of Taq DNA polymerase results from a reduced entropic folding penalty; identification of other thermophilic proteins with similar folding thermodynamics, Chin Chi Liu and Vince J. LiCata
Insights into how Spt5 functions in transcription elongation and repressing transcription coupled DNA repair, Wentao Li, Cristina Giles, and Shisheng Li
Transcription bypass of DNA lesions enhances cell survival but attenuates transcription coupled DNA repair, Wentao Li, Kathiresan Selvam, Tengyu Ko, and Shisheng Li
Combustion by-products and their health effects - Combustion engineering and global health in the 21st century: Issues and challenges, Slawo Lomnicki, Brian Gullett, Tobias Stöger, Ian Kennedy, Jim Diaz, Tammy R. Dugas, Kurt Varner, Danielle J. Carlin, Barry Dellinger, and Stephania A. Cormier
Social status differences regulate the serotonergic system of a cichlid fish, Astatotilapia burtoni, Jasmine L. Loveland, Natalie Uy, Karen P. Maruska, Russ E. Carpenter, and Russell D. Fernald
Crystal structure of the histone lysine specific demethylase LSD1 complexed with tetrahydrofolate, Zigmund Luka, Svetlana Pakhomova, Lioudmila V. Loukachevitch, M. Wade Calcutt, Marcia E. Newcomer, and Conrad Wagner
Folate in demethylation: The crystal structure of the rat dimethylglycine dehydrogenase complexed with tetrahydrofolate, Zigmund Luka, Svetlana Pakhomova, Lioudmila V. Loukachevitch, Marcia E. Newcomer, and Conrad Wagner
A multi-iron system capable of rapid N2 formation and N 2 cleavage, K. Cory MacLeod, David J. Vinyard, and Patrick L. Holland
New taxa and taxonomic revisions to the Poraniidae (Valvatacea; Asteroidea) with comments on feeding biology, Christopher L. Mah and David W. Foltz
APOE ε4, rated life experiences, and affect among centenarians, Peter Martin, S. Michal Jazwinski, Adam Davey, Robert C. Green, Maurice Macdonald, Jennifer A. Margrett, Ilene C. Siegler, Jonathan Arnold, John L. Woodard, Mary Ann Johnson, et al.
Social regulation of reproduction in male cichlid fishes, Karen P. Maruska
Elaborate visual and acoustic signals evolve independently in a large, phenotypically diverse radiation of songbirds, Nicholas A. Mason, Allison J. Shultz, and Kevin J. Burns
Genetic variation among western populations of the Horned Lark (Eremophila alpestris) indicates recent colonization of the Channel Islands off southern California, mainland-bound dispersal, and postglacial range shifts, Nicholas A. Mason, Pascal O. Title, Carla Cicero, Kevin J. Burns, and Rauri C.K. Bowie
Data access for the 1,000 Plants (1KP) project, Naim Matasci, Ling Hong Hung, Zhixiang Yan, Eric J. Carpenter, Norman J. Wickett, Siavash Mirarab, Nam Nguyen, Tandy Warnow, Saravanaraj Ayyampalayam, Michael Barker, et al.
Algae hold clues to eukaryotic origins of plant phytochromes, Sarah Mathews
A new species of Eimeria Schneider, 1875 (Apicomplexa: Eimeriidae) from the Solomon ground skink, Sphenomorphus solomonis (Boulenger) (Sauria: Scincidae) from Papua New Guinea, Chris T. McAllister, Donald W. Duszynski, Robert N. Fisher, and Christopher C. Austin
Four new species of coccidia (Apicomplexa: Eimeriidae) from Owen Stanley skinks, papuascincus stanleyanus (Sauria: Scincidae), from Papua New Guinea, Chris T. McAllister, Donald W. Duszynski, Robert N. Fisher, and Christopher C. Austin
Two new species of Eimeria (Apicomplexa, Eimeriidae) from tree skinks, Prasinohaema spp. (Sauria: Scincidae), from Papua New Guinea, Chris T. McAllister, Donald W. Duszynski, Robert N. Fisher, and Christopher C. Austin
Taxonomic status of the lago coatepeque endemic convict cichlid amatitlania coatepeque (Teleostei: Cichlidae), Caleb D. McMahan, Wilfredo A. Matamoros, Enrique Barraza, Justin Kutz, and Prosanta Chakrabarty
Incongruence among different mitochondrial regions: A case study using complete mitogenomes, K.A. Meiklejohn, M.J. Danielson, B.C. Faircloth, T.C. Glenn, E.L. Braun, and R.T. Kimball
Carbon allocation and element composition in four Chlamydomonas mutants defective in genes related to the CO2 concentrating mechanism, Francesco Memmola, Bratati Mukherjee, James V. Moroney, and Mario Giordano
CCM8: The Eighth International Symposium on Inorganic Carbon Uptake by Aquatic Photosynthetic Organisms, James V. Moroney and James L. Wee
Use of Protein cross-linking and radiolytic footprinting to elucidate PsbP and PsbQ interactions within higher plant Photosystem II, Manjula P. Mummadisetti, Laurie K. Frankel, Henry D. Bellamy, Larry Sallans, Jost S. Goettert, Michal Brylinski, Patrick A. Limbach, and Terry M. Bricker