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2009

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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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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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Vulnerability of Rehabilitated Agricultural Production Systems to Invasion by Nontarget Plant Species, Sara G. Baer, David M. Engle, Johannes M. N. 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 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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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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An Evolutionary Expressed Sequence Tag Analysis of Drosophila Spermatheca Genes, Adrianne Prokupek, Federico G. Hoffmann, Seong-il Eyun, Etsuko 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 T. 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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Evolution of SET-Domain Protein Families in the Unicellular and Multicellular Ascomycota Fungi, Chendhore Veerappan, Zoya Avramova, and Etsuko Moriyama

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A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells, Kelly C. Wrighton, Peter Agbo, Falk Warnecke, Karrie A. Weber, Eoin L. Brodie, Todd Z. DeSantis, Philip Hugenholtz, Gary L. Andersen, and John D. Coates

2007

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Origin of the Bacterial SET Domain Genes: Vertical or Horizontal?, Raul Alvarez-Venegas, Monther Sadder, Alexander Tikhonov, and Zoya Avramova

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Bayesian Estimation of Concordance among Gene Trees, Cécile Ané, Bret Larget, David A. Baum, Stacey DeWitt Smith, and Antonis Rokas

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Purification, crystallization and preliminary crystallographic analysis of deoxyuridine triphosphate nucleotidohydrolase from Arabidopsis thaliana, Mamta Bajaj and Hideaki Moriyama

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The Evolution of Color Polymorphism: Crypticity, Searching Images, and Apostatic Selection, Alan B. Bond

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Common Genome-Wide Patterns of Transcript Accumulation Underlying the Wing Polyphenism and Polymorphism in the Pea Aphid (Acyrthosiphon pisum), Jennifer A. Brisson, Gergory K. Davis, and David L. Stern

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Virgin Birth in a Hammerhead Shark, Demian D. Chapman, Mahmood S. Shivji, Ed Louis, Julie Sommer, Hugh Fletcher, and Paulo A. Prodöhl

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Jhe in Gryllus assimilis: Cloning, sequence-activity associations and phylogeny, E. J. Crone, Anthony J. Zera, A. Anand, J. G. Oakeshott, T. D. Sutherland, R. J. Russell, Lawrence G. Harshman, Federico G. Hoffmann, and C. Claudianos

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ROBUST POPULATION MANAGEMENT UNDER UNCERTAINTY FOR STRUCTURED POPULATION MODELS, A. Deines, E. Peterson, Derek Boeckner, J. Boyle, A. Keighley, J. Kogut, J. Lubben, Richard Rebarber, R. Ryan, Brigitte Tenhumberg, S. Townley, and Andrew J. Tyre

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A Review of Leg Ornamentation in Male Wolf Spiders, with the Description of a New Species from Australia, Artoria schizocoides (Araneae, Lycosidae), Volker W. Framenau and Eileen Hebets

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Does Species Diversity Limit Productivity in Natural Grassland Communities?, James B. Grace, T. Michael Anderson, Melinda D. Smith, Eric Seabloom, Sandy J. Andelman, Gayna Meche, Evan Weiher, Larry K. Allain, Heli Jutila, Mahesh Sankaran, Johannes Knops, Mark Ritchie, and Michael R. Willig

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The cost of reproduction: the devil in the details, Lawrence G. Harshman and Anthony J. Zera

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SUBADULT FEMALE EXPERIENCE DOES NOT INFLUENCE SPECIES RECOGNITION IN THE WOLF SPIDER SCHIZOCOSA UETZI STRATTON 1997, Eileen Hebets

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Experience leads to preference: experienced females prefer brush-legged males in a population of syntopic wolf spiders, Eileen Hebets and Cor J. Vink

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The αD-Globin Gene Originated via Duplication of an Embryonic α-Like Globin Gene in the Ancestor of Tetrapod Vertebrates, Federico G. Hoffmann and Jay F. Storz

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Genetic Microheterogeneity and Phenotypic Variation of Helicobacter pylori Arginase in Clinical Isolates, Justin Hovey, Emily Watson, Melanie Langford, Ellen Hildebrandt, Sangeetha Bathala, Jeffrey Bolland, Domenico Spadafora, George Mendz, and David McGee

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Negative correlation does not imply a tradeoff between growth and reproduction in California oaks, Johannes M. H. Knops, Walter D. Koenig, and William J. Carmen

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A Practical Approach to Phylogenomics: The Phylogeny of Ray-Finned Fish (Actinopterygii) as a Case Study, Chenhong Li, Guillermo Ortí, Gong Zhang, and Guoqing Lu

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Habitat Area Affects Arthropd Communities Directly and Indirectly Through Top Predators, Örjan Östman, Nicholas W. Griffin, Jared L. Strasburg, Jennifer A. Brisson, Alan R. Templeton, Tiffany M. Knight, and Jonathan M. Chase

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Alkaline iron(III) reduction by a novel alkaliphilic, halotolerant, Bacillus sp. isolated from salt flat sediments of Soap Lake, Jarrod Pollock, Karrie A. Weber, Joe Lack, Laurie A. Achenbach, Melanie R. Mormile, and John D. Coates

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Molecular Phylogenetics of the Phyllostomid Bat Genus Micronycteris with Descriptions of Two New Subgenera, Calvin A. Porter, Steven R. Hoofer, Chrissy A. Cline, Federico G. Hoffmann, and Robert J. Baker

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Germ-line chimerism and paternal care in marmosets (Callithrix kuhlii), C. N. Ross, J. A. French, and Guillermo Ortí

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Variation in Herbivore-Mediated Indirect Effects of an Invasive Plant on a Native Plant, F. Leland Russell, Svata M. Louda, Tatyana A. Rand, and Stephen D. Kachman

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Growth-Size Scaling Relationships of Woody Plant Species Differ from Predictions of the Metabolic Ecology Model, Sabrina E. Russo, Susan K. Wiser, and David A. Coomes

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The Arabidopsis homologs of trithorax (ATX1) and enhancer of zeste (CLF) establish ‘bivalent chromatin marks’ at the silent AGAMOUS locus, Abdelaty Saleh, Ayed Al-Abdallat, Ivan Ndamukong, Raul Alvarez-Venegas, and Zoya Avramova

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Systematics of Iochrominae (Solanaceae): Patterns in Floral Diversity and Interspecific Crossability, Stacey DeWitt Smith and David A. Baum

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HEMOGLOBIN FUNCTION AND PHYSIOLOGICAL ADAPTATION TO HYPOXIA IN HIGH-ALTITUDE MAMMALS, Jay F. Storz

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Complex Signatures of Selection and Gene Conversion in the Duplicated Globin Genes of House Mice, Jay F. Storz, Monica Baze, Jessica L. Waite, Federico G. Hoffmann, Juan C. Opazo, and Jack P. Hayes

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THE STUDY OF ADAPTATION AND SPECIATION IN THE GENOMIC ERA, Jay F. Storz and Hopi E. Hoekstra

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Electrochemical Stimulation of Microbial Perchlorate Reduction, J. Cameron Thrash, J. Ian Van Trump, Karrie A. Weber, Elisabeth Miller, Laurie A. Achenbach, and John D. Coates

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Identifying mechanistic models of spatial behavior using pattern-based modeling: An example from lizard home ranges, Andrew J. Tyre, Gregory D. Kerr, Brigitte Tenhumberg, and C. Michael Bull

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Cross-modal effects on learning: a seismic stimulus improves color discrimination learning in a jumping spider, Nicole D. VanderSal and Eileen Hebets

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Codon usage in twelve species of Drosophila, Saverio Vicario, Etsuko N. Moriyama, and Jeffrey R. Powell

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The Relative Importance of Different Direct Benefits in the Mate Choices of a Field Cricket, William E. Wagner Jr. and Alexandra L. Basolo

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False promises: Females spurn cheating males in a field cricket, William E. Wagner, Andrew R. Smith, and Alexandra Basolo

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Conflict between Translation Initiation and Elongation in Vertebrate Mitochondrial Genomes, Xuhua Xia, Huang Huang, Malisa Carullo, Esther Betran, and Estuko Moriyama

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Hormones in the Field: Evolutionary Endocrinology of Juvenile Hormone and Ecdysteroids in Field Populations of the Wing-Dimorphic Cricket Gryllus firmus, Anthony J. Zera, Zangwu Zhao, and Katherine Kaliseck

2006

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Abundance of and Floral Herbivory on Exotic Bull Thistle versus Native Tall Thistle in Western Tallgrass Prairie, Chad P. Andersen and Svata M. Louda

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Spatial associations of humus, nutrients and soils in mixed dipterocarp forest at Lambir, Sarawak, Malaysian Borneo, I. C. Baillie, P.S. Ashton, S.P. Chin, S.J. Davies, P.A. Palmiotto, Sabrina E. Russo, and S. Tan

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Wing Dimorphism in Aphids, Christian Braendle, Gregory K. Davis, Jennifer A. Brisson, and David L. Stern

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Can Environmental Variation Generate Positive Indirect Effects in a Model of Shared Predation?, Chad Brassil

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The pea aphid, Acyrthosiphon pisum: An emerging genomic model system for ecological, developmental, and evolutionary studies, Jennifer A. Brisson and David L. Stern

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Phylogenetic Analysis of the cardini Group of Drosophila with Respect to Changes in Pigmentation, Jennifer A. Brisson, Jason Wilder, and Hope Hollocher

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The Importance of Demographic Niches to Tree Diversity, Richard Condit, Peter Ashton, Sarayudh Bunyavejchewin, H. S. Dattaraja, Stuart Davies, Shameema Esufali, Corneille Ewango, Robin Foster, I. A.U.N. Gunatilleke, C. V.S. Gunatilleke, Pamela Hall, Kyle E. Harms, Terese Hart, Consuelo Hernandez, Stephen Hubbell, Akira Ito, Somboon Kiratiprayoon, James LaFrankie, Suzanne Loo de Lao, Jean-Remy Makana, Md. Nur Supardi Noor, Abdul Rahman Kassim, Sabrina E. Russo, Raman Sukumar, Cristián Samper, Hebbalulu S. Suresh, Sylvester Tan, Sean Thomas, Renato Valencia, Martha Vallejo, Gorky Villa, and Tommaso Zillio

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Female preference for complex/novel signals in a spider, Damian O. Elias, Eileen Hebets, and Ronald R. Hoy

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REGIONAL SEISMIC SONG DIFFERENCES IN SKY ISLAND POPULATIONS OF THE JUMPING SPIDER HABRONATTUS PUGILLIS GRISWOLD (ARANEAE, SALTICIDAE), Damian O. Elias, Eileen Hebets, Ronald R. Hoy, Wayne P. Maddison, and Andrew C. Mason

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Seismic signal production in a wolf spider: parallel versus serial multi-component signals, Damian O. Elias, Norman Lee, Eileen Hebets, and Andrew Mason

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AN EXAMINATION OF AGONISTIC INTERACTIONS IN THE WHIP SPIDER PHRYNUS MARGINEMACULATUS (ARACHNIDA, AMBLYPYGI), Kasey D. Fowler-Finn and Eileen Hebets

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The Role of Visual Ornamentation in Female Choice of a Multimodal Male Courtship Display, Eileen Hebets, K. Cuasay, and P. K. Rivlin

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Protein Binding Site Prediction Using an Empirical Scoring Function, Shide Liang, Chi Zhang, Song Liu, and Yaoqi Zhou

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Assembly of the eastern North American herpetofauna: New evidence from lizards and frogs, J. Robert Macy, James A. Schulte II, Jared L. Strasburg, Jennifer A. Brisson, Allan Larson, Natalia B. Ananjeva, Yuezhao Wang, James F. Parham, and Theodore J. Papenfuss

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Sex-Specific Expression of Alternative Transcripts in Drosophila, Lauren McIntyre, Lisa Bono, Anne Genissel, Rick Westerman, Damion Junk, Marina Telonis-Scott, Lawrence Harshman, Marta Wayne, Artyom Kopp, and Sergey V. Nuzhdin

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Plant Reproductive Allocation Predicts Herbivore Dynamics across Spatial and Temporal Scales, Tom E. X. Miller, Andrew J. Tyre, and Svata M. Louda

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INVASIVE INSECT ABUNDANCE VARIES ACROSS THE BIOGEOGRAPHIC DISTRIBUTION OF A NATIVE HOST PLANT, Tatyana A. Rand and Svata M. Louda