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2010

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The Role of Litter Quality Feedbacks in Terrestrial Nitrogen and Phosphorus Cycling, Johannes M.H. Knops, David A. Wedin, and Shahid Naeem

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Activity and Toxicity of Farnesol towards Candida albicans Are Dependent on Growth Conditions, Melanie L. Langford, Sahar Hasim, Kenneth W. Nickerson, and Audrey L. Atkin

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EPSVR and EPMeta: Prediction of Antigenic Epitopes Using Support Vector Regression and Multiple Server Results, Shide Liang, Dandan Zheng, Daron M. Standley, Bo Yao, Martin Zacharias, and Chi Zhang

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Agmatidine, a modified cytidine in the anticodon of archaeal tRNAIle, base pairs with adenosine but not with guanosine, Debabrata Mandal, Caroline Köhrer, Dan Su, Susan P. Russell, Kady Krivos, Colette M. Castleberry, Paul H. Blum, Patrick A. Limbach, Dieter Söll, and Uttam L. RajBhandary

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Female Field Crickets Incur Increased Parasitism Risk When Near Preferred Song, Cassandra M. Martin and William E. Wagner Jr.

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Genetic conflict and sex chromosome evolution, Colin D. Meiklejohn and Yun Tao

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Contributions of demography and dispersal parameters to the spatial spread of a stage-structured insect invasion, Tom E. X. Miller and Brigitte Tenhumberg

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Mitochondrial-nuclear epistasis affects fitness within species but does not contribute to fixed incompatibilities between species of Drosophila, Kristi L. Montooth, Colin D. Meiklejohn, Dawn N. Abt, and David M. Rand

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Phosphatidylinositol 5-Phosphate Links Dehydration Stress to the Activity of Arabidopsis Trithorax-Like Factor ATX1, Ivan Ndamukong, David R. Jones, Hanna Lapko, Nullin Divecha, and Zoya V. Avramova

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Evolution of the Kdo2-lipid A Biosynthesis in Bacteria, Stephen O. Opiyo, Rosevelt L. Pardy, Hideaki Moriyama, and Etsuko N. Moriyama

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The Abl and Arg non-receptor tyrosine kinases regulate different zones of stress fiber, focal adhesion, and contractile network localization in spreading fibroblasts, Justin G. Peacock, Brian A. Couch, and Anthony J. Koleske

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Synaptic Clustering of PSD-95 Is Regulated by c-Abl through Tyrosine Phosphorylation, Karen Perez de Arce, Lorena Varela-Nallar, Olivia Farias, Alejandra Cifuentes, Paulina Bull, Brian A. Couch, Anthony J. Koleske, Nibaldo C. Inestrosa, and Alejandra R. Alvarez

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Viral trans-Factor Independent Replication of Human Papillomavirus Genomes, Daraporn Pittayakhajonwut and Peter C. Angeletti

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Seed availability and insect herbivory limit recruitment and adult density of native tall thistle, F. Leland Russell, Karen E. Rose, and Svata M. Louda

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Variation in Leaf Stomatal Traits of 28 Tree Species in Relation to Gas Exchange along an Edaphic Gradient in a Bornean Rain Forest, Sabrina E. Russo, Whitney Logan Cannon, Christian Elowsky, Sylvester Tan, and Stuart J. Davies

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Interspecific Relationships among Growth, Mortality and Xylem Traits of Woody Species from New Zealand, Sabrina E. Russo, Kerry L. Jenkins, Susan K. Wiser, Maria Uriarte, Richard P. Duncan, and David A. Coomes

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Positive Carotenoid Balance Correlates with Greater Reproductive Performance in a Wild Bird, Rebecca Safran, Kevin J. McGraw, Matt Wilkins, Joanna K. Hubbard, and Julie Marling

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Isolation and Characterization of Bacteria Resistant to Metallic Copper Surfaces, Christophe Espírito Santo, Paula Vasconcelos Morais, and Gregor Grass

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The Effects of Flower Color Transitions on Diversification Rates in Morning Glories (Ipomoea subg. Quamoclit, Convolvulaceae), Stacey DeWitt Smith, Richard E. Miller, Sarah P. Otto, Richard G. FitzJohn, and Mark D. Rausher

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Ignoring Population Structure Can Lead to Erroneous Predictions of Future Population Size, Brigitte Tenhumberg

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COMPOSITIONS AND METHODS FOR CONTROLLING PLANT PARASITIC NEMATODES, Harold N. Trick, Judith L. Roe, Timothy C. Todd, and Michael A. Herman

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Dynamic Changes in Genome-Wide Histone H3 Changes Lysine 4 Methylation Patterns in Response to Dehydration Stress in Arabidopsis thaliana, Karin V. van Dijk, Yong Ding, Sridar Achary Malkaram, Jean-Jack Riethoven, Rong Liu, Jingyi Yang, Peter Laczko, Han Chen, Yuannan Xia, Istvan Ladunga, Zoya V. Avramova, and Michael E. Fromm

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A Detailed Phylogenetic Analysis of FIV in the United States, Eric A. Weaver

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Integrating spatial and temporal approaches to understanding species richness, Ethan P. White, S. K. Morgan Ernest, Peter B. Adler, Allen H. Hurlbert, and S. Kathleen Lyons

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Structural Insight into Dynamic Bypass of the Major Cisplatin-DNA Adduct by Y-family Polymerase Dpo4, Jimson HY Wong, Jessica A. Brown, Zucai Suo, Paul H. Blum, Takehiko Nohmi, and Hong Ling

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Analysis of miRNA Modifications, Bin Yu and Xuemei Chen

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Differences in HIV Burden and Immune Activation within the Gut of HIV-Positive Patients Receiving Suppressive Antiretroviral Therapy, Steven A. Yukl, Sara Gianella, Elizabeth Sinclair, Lorrie Epling, Qingsheng Li, Lijie Duan, Alex L.M. Choi, Valerie Girling, Terence Ho, Peilin Li, Katsuya Fujimoto, Harry Lampiris, C. Bradley Hare, Mark Pandori, Ashley T. Haase, Huldrych F. Günthard, Marek Fischer, Amandeep K. Shergill, Kenneth McQuaid, Diane V. Havlir, and Joseph K. Wong

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Microevolution of intermediary metabolism: evolutionary genetics meets metabolic biochemistry, Anthony J. Zera

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Purification and characterization of cytoplasmic NADP+- isocitrate dehydrogenase, and amplification of the Nadp+-Idh gene from the wing-dimorphic sand field cricket, Gryllus firmus, Anthony J. Zera, Susan Newman, David Berkheim, Christine Black, Lindsay Klug, and Erica Crone

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Molecular Determinants of HIV-1 Subtype C Coreceptor Transition from R5 to R5X4, Hong Zhang, Damien C. Tully, Tiejun Zhang, Hideaki Moriyama, Jesse Thompson, and Charles Wood

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Dual Functions of Interferon Regulatory Factors 7C in Epstein-Barr Virus–Mediated Transformation of Human B Lymphocytes, Yong Zhao, Dongsheng Xu, Yanjun Jiang, and Luwen Zhang

2009

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Interactive Effects of Time, CO2, N, and Diversity on Total Belowground Carbon Allocation and Ecosystem Carbon Storage in a Grassland Community, E. Carol Adair, Peter B. Reich, Sarah E. Hobbie, and Johannes M.H. Knops

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Evolution and pleiotropy of TRITHORAX function in Arabidopsis, Zoya Avramova

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Similar Patterns of Linkage Disequilibrium and Nucleotide Diversity in Native and Introduced Populations of the Pea Aphid, Acyrthosiphon pisum, Jennifer A. Brisson, Sergey V. Nuzhdin, and David L. Stern

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BLOOD SAMPLING REDUCES ANNUAL SURVIVAL IN CLIFF SWALLOWS (PETROCHELIDON PYRRHONOTA) -- La Toma de Muestras de Sangre Reduce la Supervivencia Anual en Petrochelidon pyrrhonota, Charles R. Brown and Mary Bomberger Brown

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Caenorhabditis elegans Genomic Response to Soil Bacteria Predicts Environment-Specific Genetic Effects on Life History Traits, Joseph D. Coolon, Kenneth L. Jones, Timothy C. Todd, Bryanua C. Carr, and Michael A. Herman

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Role of vapBC toxin–antitoxin loci in the thermal stress response of Sulfolobus solfataricus, Charlotte R. Cooper, Amanda J. Daugherty, Sabrina Tachdjian, Paul H. Blum, and Robert M. Kelly

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Arginine-Induced Germ Tube Formation in Candida albicans Is Essential for Escape from Murine Macrophage Line RAW 264.7, Suman Ghosh, Dhammika H. M. L. P. Navarathna, David D. Roberts, Jake T. Cooper, Audrey L. Atkin, Thomas M. Petro, and Kenneth W. Nickerson

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The nuclear receptor NHR-25 cooperates with the Wnt/β-catenin asymmetry pathway to control differentiation of the T seam cell in C. elegans, Martina Hajduskova, Marek Jindra, Michael A. Herman, and Masako Asahina

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Ecological Genomics of Nematode Community Interactions: Model and Non-model Approaches, Michael A. Herman, Joseph D. Coolon, Kenneth L. Jones, and Timothy Todd

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Crystallization and crystal-packing studies of Chlorella virus deoxyuridine triphosphatase, Kohei Homma and Hideaki Moriyama

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Plant Sex and the Evolution of Plant Defenses against Herbivores, Marc T.J. Johnson, Stacey DeWitt Smith, Marc D. Rausher, and Douglas J. Futuyma

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Long 3’-UTRs target wild-type mRNAs for nonsense-mediated mRNA decay in Saccharomyces cerevisiae, Bessie W. Kebaara and Audrey L. Atkin

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Species-driven changes in nitrogen cycling can provide a mechanism for plant invasions, Johannes M. H. Knops and Ramesh Laungani

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Natural History Note No Trade-Off between Seed Size and Number in the Valley Oak Quercus lobata, Walter D. Koenig, Johannes M.H. Knops, William J. Carmen, and Richard D. Sage

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The impact of co-occurring tree and grassland species on carbon sequestration and potential biofuel production, Ramesh Laungani and Johannes Knops

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Parameterizing the growth-decline boundary for uncertain population projection models, Joan Lubben, Derek Boeckner, Richard Rebarber, Stuart Townley, and Brigitte Tenhumberg

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Something Old, Something New, Something Borrowed; How the Thermoacidophilic Archaeon Sulfolobus solfataricus Responds to Oxidative Stress, Walid S. Maaty, Blake Wiedenheft, Pavel Tarlykov, Nathan Schaff, Joshua Heinemann, Jim Robinson-Cox, Jacob Valenzuela, Amanda Dougherty, Paul H. Blum, C. Martin Lawrence, Trevor Douglas, Mark J. Young, and Brian Bothner

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Impacts of insect herbivory on cactus population dynamics: experimental demography across an environmental gradient, Tom E. X. Miller, Svata M. Louda, Karen A. Rose, and James O. Eckberg

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Natural Genetic Variation in Transcriptome Reflects Network Structure Inferred with Major Effect Mutations: Insulin/TOR and Associated Phenotypes in Drosophila melanogaster, Sergey V. Nuzhdin, Jennifer A. Brisson, Andrew Pickering, Marta L. Wayne, Lawrence G. Harshman, and Lauren M. McIntyre

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Transcriptional Profiling of the Sperm Storage Organs of Drosophila melanogaster, Adrianne M. Prokupek, Stephen D. Kachman, Istvan Ladunga, and Lawrence G. Harshman

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Macroevolutionary Tests of Pollination Syndromes: A Reply to Fenster et al., Stacey DeWitt Smith, Cécile Ané, and David A. Baum

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Computational Prediction of Novel Non-Coding RNAs in Arabidopsis thaliana, Dandan Song, Yang Yang, Bin Yu, Binglian Zheng, Zhidong Deng, Bao-Liang Lu, Xuemei Chen, and Tao Jiang

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Gene Duplication and the Resolution of Adaptive Conflict, Jay F. Storz

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Evolutionary and functional insights into the mechanism underlying high-altitude adaptation of deer mouse hemoglobin, Jay F. Storz, Amy M. Runck, Stephen J. Sabatino, John K. Kelly, Nuno Ferrand, Hideaki Moriyama, Roy E. Weber, and Angela Fago

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Behavioral response of dissimilatory perchlorate-reducing bacteria to different electron acceptors, Yvonne Sun, Ruth L. Gustavson, Nadia Ali, Karrie A. Weber, Lacey L. Westphal, and John D. Coates

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Occurrence of Trichosirocalus horridus (Coleoptera: Curculionidae) on Native Cirsium altissimum Versus Exotic C. vulgare in North American Tallgrass Prairie, Masaru Takahashi, Svata M. Louda, Tom E. X. Miller, and Charles W. O'Brien

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Model complexity affects transient population dynamics following a dispersal event: A case study with pea aphids, Brigitte Tenhumberg, Andrew J. Tyre, and Richard Rebarber

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Physiological and taxonomic description of the novel autotrophic, metal oxidizing bacterium, Pseudogulbenkiania sp. strain 2002, Karrie A. Weber, David B. Hedrick, Aaron D. Peacock, J. Cameron Thrash, David C. White, Laurie A. Achenbach, and John D. Coates

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Wnt and EGF Pathways Act Together to Induce C. elegans Male Hook Development, Hui Yu, Adeline Seah, Michael A. Herman, Edwin L. Ferguson, H. Robert Horvitz, and Paul W. Sternberg

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Sex effects on life span and senescence in the wild when dates of birth and death are unknown, Felix Zajitschek, Chad Brassil, Russell Bonduriansky, and Robert C. Brooks

2008

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Tissue and stage-specific juvenile hormone esterase (JHE) and epoxide hydrolase (JHEH) enzyme activities and Jhe transcript abundance in lines of the cricket Gryllus assimilis artificially selected for plasma JHE activity: Implications for JHE microevolution, Anurag Anand, Erica Crone, and Anthony J. Zera

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The Genome Sequence of the Metal-Mobilizing, Extremely Thermoacidophilic Archaeon Metallosphaera sedula Provides Insights into Bioleaching-Associated Metabolism, Kathryne S. Auernik, Yukari Maezato, Paul H. Blum, and Robert M. Kelly

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Vulnerability of Rehabilitated Agricultural Production Systems to Invasion by Nontarget Plant Species, Sara G. Baer, David M. Engle, Johannes M.H. Knops, Kenneth A. Langeland, Bruce D. Maxwell, Fabian D. Menalled, and Amy J. Symstad

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Review of Archaea: Molecular and Cellular Biology, Paul H. Blum

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Pea Aphid, Jennifer A. Brisson and Gregory K. Davis

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Rarity of Males in Pea Aphids Results in Mutational Decay, Jennifer A. Brisson and Sergey V. Nuzhdin

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Evidence for contrasting modes of selection at interacting globin genes in the European rabbit (Oryctolagus cuniculus), R. Campos, Jay F. Storz, and N. Ferrand

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NUCLEIC ACID SEQUENCES FOUND IN DROSOPHILA MELANOGASTER THAT ENCODE PROTEINS ESSENTIAL FOR VIABILITY AND METHOD OF USE: U.S. Patent No. US 7,384,745 B2, Alan C. Christensen and Douglas R. Dorer

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Parasite-Mediated Disruptive Selection in a Natural Daphnia Population, Meghan Duffey, Chad Brassil, Spencer Hall, Alan Tessier, Carla Cáceres, and Jeffrey Conner

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Molecular evolution of cytochrome b in high- and low-altitude deer mice (genus Peromyscus), E.J. Gering, J. C. Opazo, and Jay F. Storz

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Regulation of Aromatic Alcohol Production in Candida albicans, Suman Ghosh, Bessie W. Kebaara, Audrey L. Atkin, and Kenneth W. Nickerson

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Substrate-dependent signaling success in the wolf spider, Schizocosa retrorsa, Eileen Hebets, Damian O. Elias, Andrew C. Mason, Gary L. Miller, and Gail E. Stratton

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Diet influences mate choice selectivity in adult female wolf spiders, Eileen Hebets, Jennifer Wesson, and Paul S. Shamble

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Genetic Variation in Mother-Child Acute Seroconverter Pairs from Zambia, Federico G. Hoffmann, Xiang He, John T. West, Philippe Lemey, Chipepo Kankasa, and Charles Wood

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Rapid Rates of Lineage-Specific Gene Duplication and Deletion in the α-Globin Gene Family, Federico G. Hoffmann, Juan C. Opazo, and Jay F. Storz

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New Genes Originated via Multiple Recombinational Pathways in the β-Globin Gene Family of Rodents, Frederico Hoffmann, Juan Opazo, and Jay F. Storz

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Environmental Effects on the Expression of Life Span and Aging: An Extreme Contrast between Wild and Captive Cohorts of Telostylinus angusticollis (Diptera: Neriidae), Noriyoshi Kawasaki, Chad Brassil, Robert Brooks, and Russell Bonduriansky

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Optimal Data Partitioning and a Test Case for Ray-Finned Fishes (Actinopterygii) Based on Ten Nuclear Loci, Chenhong Li, Guoqing Lu, and Guillermo Ortí

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Management Recommendations Based on Matrix Projection Models: The Importance of Considering Biological Limits, Joan Lubben, Brigitte Tenhumberg, Andrew J. Tyre, and Richard Rebarber

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Herbivore-Mediated Ecological Costs of Reproduction Shape the Life History of an Iteroparous Plant, Tom E. X. Miller, Brigitte Tenhumberg, and Svata M. Louda

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The Spectrum of Mitochondrial Mutation Differs across Species, Kristi L. Montooth and David M. Rand

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Genomic evidence for independent origins of β-like globin genes in monotremes and therian mammals, Juan C. Opazo, Federico G. Hoffmann, and Jay F. Storz

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Differential loss of embryonic globin genes during the radiation of placental mammals, Juan C. Opazo, Federico Hoffmann, and Jay F. Storz

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A 15-Myr-Old Genetic Bottleneck, Timothy Paape, Boris Igic, Stacey DeWitt Smith, Richard Olmstead, Lynn Bohs, and Joshua R. Kohn

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ARABIDOPSIS TRITHORAX1 Dynamically Regulates FLOWERING LOCUS C Activation via Histone 3 Lysine 4 Trimethylation, Stephane Pien, Delphine Fleury, Joshua S. Mylne, Pedro Crevillen, Dirk Inze, Zoya Avramova, Caroline Dean, and Ueli Grossniklaus

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An Evolutionary Expressed Sequence Tag Analysis of Drosophila Spermatheca Genes, Adrianne Prokupek, Federico G. Hoffmann, Seong-il Eyun, Etsuko N. Moriyama, Min Zhou, and Lawrence G. Harshman

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Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1, Feng Qu, Xiaohong Ye, and Thomas Jack Morris

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Interspecific Demographic Trade-Offs and Soil-Related Habitat Associations of Tree Species along Resource Gradients, Sabrina E. Russo, Patrick Brown, Sylvester Tan, and Stuart J. Davies

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Corrigendum (Russo et al. 2007): A Re-Analysis of Growth–Size Scaling Relationships of Woody Plant Species, Sabrina E. Russo, Susan K. Wiser, and David A. Coomes

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Agonistic signals received by an arthropod filiform hair allude to the prevalence of near-field sound communication, Roger D. Santer and Eileen Hebets

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Supplementary Material: Agonistic signals received by an arthropod filiform hair allude to the prevalence of near-field sound communication, Roger D. Santer and Eileen Hebets

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The Role of Pollinator Shifts in the Floral Diversification of Iochroma (Solanaceae), Stacey DeWitt Smith, Cécile Ané, and David A. Baum

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Comparative Pollination Biology of Sympatric and Allopatric Andean Iochroma (Solanaceae), Stacey DeWitt Smith, Steven J. Hall, Pablo R. Izquierdo, and David A. Baum

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Polygyny and Female Breeding Failure Reduce Effective Population Size in the Lekking Gunnison Sage-Grouse, Julie R. Stiver, Anthony D. Apa, Thomas E. Remington, and Robert M. Gibson

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Adaptive Functional Divergence among Triplicated α-Globin Genes in Rodents, Jay F. Storz, Federico G. Hoffmann, Juan C. Opazo, and Hideaki Moriyama

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Effects of Spatially Varying Selection on Nucleotide Diversity and Linkage Disequilibrium: Insights From Deer Mouse Globin Genes, Jay F. Storz and John K. Kelly

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Monte Carlo analysis of parameter uncertainty in matrix models for the weed Cirsium vulgare, Brigitte Tenhumberg, Svata M. Louda, James O. Eckberg, and Masaru Takahashi

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Ecological Genomics: Understanding Gene and Genome Function in the Natural Environment, M. C. Ungerer, L. C. Johnson, and M. A. Herman

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ENDOGENOUS AND EXOGENOUS CONTROL OF ECOSYSTEM FUNCTION: N CYCLING IN HEADWATER STREAMS, H. M. Valett, S. A. Thomas, P. J. Mulholland, J. R. Webster, C. N. Dahm, C. S. Fellows, C. L. Crenshaw, and C. G. Peterson