Below you may find selected research articles from Biology, Chemistry, and Environmental Sciences faculty in the Schmid College of Science and Technology.

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Submissions from 2015

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Cyclic Rhamnosylated Elongation Factor P Establishes Antibiotic Resistance in Pseudomonas aeruginosa, Andrei Rajkovic, Sarah Erickson, Anne Witzky, Owen E. Branson, Jin Seo, Philip R. Gafken, Michael A. Frietas, Julian P. Whitelegge, Kym F. Faull, William Wiley Navarre, Andrew J. Darwin, and Michael Ibba

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Elongation Factor-P at the Crossroads of the Host-Endosymbiont Interface, Andrei Rajkovic, Anne Witzky, William Navarre, Andrew J. Darwin, and Michael Ibba

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Influence of Microgel Packing on Raspberry-Like Heteroaggregate Assembly, Shalini Saxena and L. Andrew Lyon

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Bacterial Transfer RNAs, Jennifer Shepherd and Michael Ibba

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Large Amplitude, Short Wave Peristalsis and Its Implications for Transport, Lindsay D. Waldrop and Laura A. Miller

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The Role of the Pericardium in the Valveless, Tubular Heart of the Tunicate, Ciona savignyi, Lindsay D. Waldrop and Laura A. Miller

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Flexibility of Crab Chemosensory Hairs Enables Flicking Antennules to Sniff, Lindsay D. Waldrop, Matthew A. Reidenbach, and M. A. R. Koehl

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Aerosol Optical Properties Over Mount Song, a Rural Site in Central China, Lunche Wang, Wei Gong, Ramesh P. Singh, Xiangao Xia, Huizheng Che, Ming Zhang, and Hong Lin

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The Bacillus subtilis tyrZ Gene Encodes a Highly Selective Tyrosyl-tRNA Synthetase and is Regulated by a MarR Regulator and T Box Riboswitch, Rebecca N. Williams-Wagner, Frank J. Grundy, Medha Raina, Michael Ibba, and Tina M. Henkin

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The Effects of Actomyosin Disruptors on the Mechanical Integrity of the Avian Crystalline Lens, Gah-Jone Won, Douglas S. Fudge, and Vivian Choh

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Strong Influence of Coadsorbate Interaction on CO Desorption Dynamics on Ru(0001) Probed by Ultrafast X-Ray Spectroscopy and Ab Initio Simulations, H. Xin, Jerry L. LaRue, H. Öberg, M. Beye, M. Dell'Angela, J. J. Turner, J. Gladh, M. L. Ng, J. A. Sellberg, S. Kaya, G. Mercurio, F. Hieke, D. Nordlund, W. F. Schlotter, G. L. Dakovski, M. P. Minitti, A. Föhlisch, M. Wolf, W. Wurth, H. Ogasawara, J. K. Nørskov, H. Öström, L. G. M. Pettersson, A. Nilsson, and F. Abild-Pedersen

Submissions from 2014

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Effects of Endogenous Cannabinoid Anandamide on Voltage-Dependent Sodium and Calcium Channels in Rat Ventricular Myocytes, Lina T. Al Kury, Oleg I. Voitychuk, Keun-Hang Susan Yang, Faisal T. Thayyullathil, Petro Doroshenkp, Ali M. Ramez, Yaroslav M. Shuba, Sehamuddin Galadari, Frank Christopher Howarth, and Murat Oz

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Public Interest in Climate Change Over the Past Decade and the Effects of the ‘Climategate’ Media Event, William R. L. Anderegg and Gregory R. Goldsmith

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Spontaneous Unraveling of Hagfish Slime Thread Skeins is Mediated by a Seawater-soluble Protein Adhesive, Mark A. Bernards Jr., Isdin Oke, Andreas Heyland, Douglas S. Fudge, and Douglas S. Fudge

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Weekly Gridded Aquarius L-Band Radiometer/Scatterometer Observations and Salinity Retrievals Over the Polar Regions - Part 1: Product Description, L. Brucker, Emmanuel P. Dinnat, and L. S. Koenig

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Weekly Gridded Aquarius L-Band Radiometer/Scatterometer Observations and Salinity Retrievals Over the Polar Regions - Part 2: Initial Product Analysis, L. Brucker, Emmanuel P. Dinnat, and L. S. Koenig

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Oxidation of Cellular Amino Acid Pools Leads to Cytotoxic Mistranslation of the Genetic Code, Tammy J. Bullwinkle, Noah M. Reynolds, Medha Raina, Adil Moghal, Eleftheria Matsa, Andrei Rajkovic, Huseyin Kayadibi, Farbod Fazlollahi, Christopher Ryan, Nathaniel Howitz, Kym F. Faull, Beth A. Lazazzera, and Michael Ibba

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Zn(Ii) and Cu(Ii) Adsorption and Retention Onto Iron Oxyhydroxide Nanoparticles: Effects Of Particle Aggregation and Salinity, Rebecca B. Chesne and Christopher S. Kim

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Optical Characterization and Distribution of Chromophoric Dissolved Organic Matter (CDOM) in Soil Porewater from a Salt Marsh Ecosystem, Catherine D. Clark, Paige Aiona, Jason K. Keller, and Warren J. De Bruyn

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LysPGS Formation in Listeria monocytogenes Has Broad Roles in Maintaining Membrane Integrity Beyond Antimicrobial Peptide Resistance, Kiley Dare, Jennifer Shepherd, Hervé Roy, Stephanie Seveau, and Michael Ibba

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Analysis of Ligand Bias in Functional Studies Involving the Allosteric Modulation of G Protein- Coupled Receptors, Frederick J. Ehlert and Michael T. Griffin

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EF-P Dependent Pauses Integrate Proximal and Distal Signals During Translation, Sara Elgamal, Assaf Katz, Steven J. Hersch, David Newsom, Peter White, William Wiley Navarre, and Michael Ibba

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Effect of Hydrogen Peroxide on the Biosynthesis of Heme and Proteins: Potential Implications for the Partitioning of Glu-tRNAGlu Between These Pathways, Carolina Farah, Gloria Levicán, Michael Ibba, and Omar Orellana

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The ABCs of the Ribosome, Kurt Fredrick and Michael Ibba

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Fifty Years of JR Platt’s “Strong Inference”, Douglas S. Fudge

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Protection of Ecosystem Services: A Way Forward After Weed Management Area Cuts, Jennifer L. Funk, Virginia Matzek, and Doug Johnson

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Form Factor of pNIPAM Microgels in Overpacked States, U. Gasser, J. S. Hyatt, J.- J. Lietor-Santos, E. S. Herman, L. Andrew Lyon, and A. Fernandez-Nieves

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Eco-mechanics of Lamellar Autotomy in Larval Damselflies, Jennifer E. Gleason, Douglas S. Fudge, and Beren W. Robinson

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Improving the Efficacy of Web-Based Educational Outreach in Ecology, Gregory R. Goldsmith, Andrew D. Fulton, Colin D. Witherill, and Javier F. Espeleta

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Defensive Slime Formation in Pacific Hagfish Requires Ca2+ and Aquaporin Mediated Swelling of Released Vesicles, Julie E. Herr, Alexander M. Clifford, Greg G. Goss, Douglas S. Fudge, and Douglas S. Fudge

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Translation Initiation Rate Determines the Impact of Ribosome Stalling on Bacterial Protein Synthesis, Steven J. Hersch, Sara Elgamal, Assaf Katz, Michael Ibba, and William Wiley Navarre

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Poly (N-isopropylacrylamide) Microgel-Based Optical Devices for Sensing and Biosensing, Molla R. Islam, Andrews Ahiabu, Xue Li, and Michael J. Serpe

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Responsive Polymers for Biosensing and Protein Delivery, Molla R. Islam, Yongfeng Gao, Xue Li, and Michael J. Serpe

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A Novel Label-Free Colorimetric Assay for DNA Concentration in Solution, Molla R. Islam and Michael J. Serpe

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Poly (N-isopropylacrylamide) Microgel-Based Thin Film Actuators for Humidity Sensing, Molla R. Islam and Michael J. Serpe

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Effects of Crop Residue Burning on Aerosol Properties, Plume Characteristics, and Long-Range Transport over Northern India, D. G. Kaskaoutis, S. Kumar, D. Sharma, Ramesh P. Singh, S. K. Kharol, M. Sharma, A. K. Singh, Atinderpal Singh, and D. Singh

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Application of the Savitzky-Golay Filter to Land Cover Classification Using Temporal MODIS Vegetation Indices, So-Ra Kim, Anup K. Prasad, Hesham el-Askary, Woo- Kyun Lee, Doo- Ahn Kwak, Seung- Ho Lee, and Menas Kafatos

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The Non-Canonical Hydroxylase Structure of YfcM Reveals a Metal Ion-Coordination Motif Required for EF-P Hydroxylation, Kan Kobayashi, Assaf Katz, Andrei Rajkovic, Ryohei Ishii, Owen E. Branson, Michael A. Freitas, Ryuichiro Ishitani, Michael Ibba, and Osamu Nureki

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Connecting Model Species to Nature: Predator-Induced Long-Term Sensitization in Aplysia californica, Maria J. Mason, Amanda J. Watkins, Jordann Wakabayashi, Jennifer Buechler, Christine Pepino, Michelle Brown, and William G. Wright

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Closing the Knowing-Doing Gap in Invasive Plant Management: Accessibility and Interdisciplinarity of Scientific Research, Virginia Matzek, Justin Covino, Jennifer L. Funk, and Martin Saunders

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Mistranslation of the Genetic Code, Adil Moghal, Kyle Mohler, and Michael Ibba

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tRNAs as Regulators of Biological Processes, Medha Raina and Michael Ibba

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Reduced Amino Acid Specificity of Mammalian Tyrosyl-tRNA Synthetase is Associated with Elevated Mistranslation of Tyr Codons, Medha Raina, Adil Moghal, Amanda Kano, Mathew Jerums, Paul D. Schnier, Shun Luo, Rohini Deshpande, Pavel D. Bondarenko, Henry Lin, and Michael Ibba

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Microgel Mechanics in Biomaterial Design, Shalini Saxena, Caroline E. Hansen, and L. Andrew Lyon

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Seasonal Variability of Atmospheric Aerosol Parameters over Greater Noida Using Ground Sunphotometer Observations, Manish Sharma, D. G. Kaskaoutis, Ramesh P. Singh, and Sachchidanand Singh

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Relaxed Substrate Specificity Leads to Extensive tRNA Mischarging by Streptococcus pneumoniae Class I and Class II Aminoacyl-tRNA Synthetases, Jennifer Shepherd and Michael Ibba

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Crop Residue Burning: A Threat to South Asian Air Quality, Ramesh Singh and Dimitris G. Kaskaoutis

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Regional Dust Storm Modeling for Health Services: The Case of Valley Fever, William A. Sprigg, Slobodan Nickovic, John N. Galgiani, Goran Pejanovic, Slavo Petkovic, Mirjam Vujadinovic, Ana Vukovic, Milan Dacic, Scott DiBiase, Anup K. Prasad, and Hesham el-Askary

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Disposable Platform Provides Visual and Color-Based Point-of-Care Anemia Self-Testing, Erika A. Tyburski, Scott E. Gillespie, William A. Stoy, Robert G. Mannino, Alexander J. Weiss, Alexa F. Siu, Rayford H. Bulloch, Karthik Thota, Anyela Cardenas, Wilena Session, Hanna J. Khoury, Siobhán O'Connor, Silvia T. Bunting, Jeanne Boudreaux, Craig R. Forest, Manila Gaddh, Traci Leong, L. Andrew Lyon, and Wilbur A. Lam

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Beta-Alanine Suppresses Malignant Breast Epithelial Cell Aggressiveness Through Alterations In Metabolism and Cellular Acidity In Vitro, Roger A. Vaughan, Nicholas P. Gannon, Randi Garcia-Smith, Yamhilette Licon-Munoz, Miguel A. Barberena, Marco Bisoffi, and Kristina A. Trujillo

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Numerical Simulation of “An American Haboob”, A. Vukovic, M. Vujadinovic, G. Pejanovic, J. Andric, M. J. Kumjian, V. Djurdjevic, M. Dacic, Anup K. Prasad, Hesham el-Askary, B. C. Paris, S. Petkovic, W. Sprigg, and S. Nickovic

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Scaling of Olfactory Antennae of the Terrestrial Hermit Crabs Coenobita rugosus and Coenobita perlatus During Ontogeny, Lindsay D. Waldrop, Roxanne M. Bantay, and Quang V. Nguyen

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Coiling and Maturation of a High-Performance Fibre in Hagfish Slime Gland Thread Cells, Timothy Winegard

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Light Switchable Optical Materials from Azobenzene Crosslinked Poly (N-Isopropylacrylamide)-Based Microgels, Qiang Matthew Zhang, Xue Li, Molla R. Islam, Menglian Wei, and Michael J. Serpe

Submissions from 2013

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Menthol Binding and Inhibition of a7-Nicotinic Acetylcholine Receptors, Abrar Ashoor, Jacob C. Nordman, Daniel Veltri, Keun-Hang Susan Yang, Lina T. Al Kury, Yaroslav M. Shuba, Mohamed Magoub, Frank Christopher Howarth, Bassem Sadek, Amarda Shehu, Nadine Kabbani, and Murat Oz

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Air-Sea Dimethylsulfide (Dms) Gas Transfer In the North Atlantic: Evidence For Limited Interfacial Gas Exchange At High Wind Speed, T. G. Bell, Warren J. De Bruyn, S. D. Miller, B. Ward, K. Christensen, and E. S. Saltzman

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Annual Patterns of Atmospheric Pollutions and Episodes over Cairo Egypt, Y. Aboel Fetouh, Hesham el-Askary, Mohamed El Raey, Mohamed Allali, W. A. Sprigg, and Menas Kafatos

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The Physiology of Invasive Plants in Low-Resource Environments, Jennifer L. Funk

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Leaf Traits Within Communities: Context May Affect the Mapping of Traits to Function, Jennifer L. Funk and William K. Cornwell

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Differential Allocation to Photosynthetic and Non-Photosynthetic Nitrogen Fractions among Native and Invasive Species, Jennifer L. Funk, Lori A. Glenwinkle, and Lawren Sack

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Plastic Deformation, Wrinkling, and Recovery in Microgel Multilayers, Jeffrey C. Gaulding, Mark W. Spears Jr., and L. Andrew Lyon

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Divergent Protein Motifs Direct EF-P Mediated Translational Regulation in Salmonella and Escherichia coli, Steven J. Hersch, Mengchi Wang, S. Betty Zou, Kyung-Mee Moon, Leonard J. Foster, Michael Ibba, and William Wiley Navarre

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Label-free Detection of Low Protein Concentration in Solution Using a Novel Colorimetric Assay, Molla R. Islam and Michael J. Serpe

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Poly (N-isopropylacrylamide) Microgel-based Etalons and Etalon Arrays for Determining the Molecular Weight of Polymers in Solution, Molla R. Islam and Michael J. Serpe

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Molecular Evolution of Protein-RNA Mimicry as a Mechanism for Translational Control, Assaf Katz, Lindsey Solden, S. Betty Zou, William Wiley Navarre, and Michael Ibba

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Anaerobic Metabolism In Tidal Freshwater Wetlands: I. Plant Removal Effects on Iron Reduction and Methanogenesis, Jason K. Keller, Ariana E. Sutton-Grier, Allyson L. Bullock, and J. Patrick Megonigal

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Solid-Phase Organic Matter Reduction Regulates Anaerobic Decomposition in Bog Soil, Jason K. Keller and Kimberly K. Takagi

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Long-Term (1951-2007) Rainfall Trends around Six Indian Cities: Current State, Meteorological, and Urban Dynamics, Shailesh Kumar Kharol, D. G. Kaskaoutis, Anu Rani Sharma, and Ramesh P. Singh

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Direction of Aminoacylated Transfer RNAs into Antibiotic Synthesis and Peptidoglycan-Mediated Antibiotic Resistance, Jennifer Shepherd and Michael Ibba

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Lipid II-Independent Trans Editing of Mischarged tRNAs by the Penicillin Resistance Factor MurM, Jennifer Shepherd and Michael Ibba

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Multi Geophysical Parameters for Earthquake Forecasting, Ramesh P. Singh

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Development of Self-Assembling Mixed Protein Micelles with Temperature-Modulated Avidities, Allyson S.C. Soon, Michael H. Smith, Emily S. Herman, L. Andrew Lyon, and Thomas H. Barker

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Ontogenetic Scaling of the Olfactory Antennae and Flicking Behavior of the Shore Crab, Hemigrapsus oregonensis, Lindsay D. Waldrop

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Gamete Donor Selection Based on Genetic Calculations. U.S. Patent 8,543,339, Anne Wojcicki, Linda Avey, Joanna Mountain, J. Michael Macpherson, and Joyce Y. Tung

Submissions from 2012

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Assessing Satellite-Based Rainfall Estimates In Semiarid Watersheds Using the Usda-Ars Walnut Gulch Gauge Network and Trmm Pr, Eyal Amitai, Carl L. Unkrich, David C. Goodrich, Emad Habib, and Bryson Thill

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The Mechanical Behavior of Mutant K14-R125P Keratin Bundles and Networks in NEB-1 Keratinocytes, Daniel R. Beriault, Oualid Haddad, John V. McCuaig, Zachary J. Robinson, David Russell, E. Birgitte Lane, and Douglas S. Fudge

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(R)-β-lysine Modified Elongation Factor P Functions in Translation Elongation, Tammy J. Bullwinkle, S. Betty Zou, Andrei Rajkovic, Steven J. Hersch, Sara Elgamal, Nathaniel Robinson, David Smil, Yuri Bolshan, William Wiley Navarre, and Michael Ibba

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Structural Properties of Thermoresponsive Poly(N-isopropylacrylamide)-poly(ethyleneglycol) Microgels, J. Clara-Rahola, A. Fernandez-Nieves, B. Sierra-Martin, A. B. South, L. Andrew Lyon, J. Kohlbrecher, and A. F. Barbero

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Roles of tRNA in Cell Wall Biosynthesis, Kiley Dare and Michael Ibba

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A Functional Trait Perspective on Plant Invasion, Rebecca E. Drenovsky, Brenda J. Grewell, Carla M. D'Antonio, Jennifer L. Funk, Jeremy J. James, Nicole Molinari, Ingrid M. Parker, and Christina L. Richards

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Fog- and Cloud-Induced Aerosol Modification Observed by the Aerosol Robotic Network (AERONET), T. F. Eck, B. N. Holben, J. S. Reid, D. M. Giles, M. A. Rivas, Ramesh P. Singh, S. N. Tripathi, C. J. Bruegge, S. Platnick, G. T. Arnold, N. A. Krotkov, S. A. Carn, A. Sinyuk, O. Dubovik, A. Arola, J. S. Schafer, P. Artaxo, A. Smirnov, H. Chen, and P. Goloub

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Cryo-EM Structure of the Archaeal 50S Ribosomal Subunit in Complex with Initiation Factor 6 and Implications for Ribosome Evolution, Basil J. Greber, Daniel Boehringer, Vlatka Godinic-Mikulcic, Ana Crnkovic, Michael Ibba, Ivana Weygand-Durasevic, and Nenad Ban

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Regulation of Hard α-keratin Mechanics via Control of Intermediate Filament Hydration: Matrix Squeeze Revisited, Daniel A. Greenberg and Douglas S. Fudge

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Cryptic Distant Relatives Are Common in Both Isolated and Cosmopolitan Genetic Samples, Brenna M. Henn, Lawrence S. Hon, J. Michael Macpherson, Nicholas Eriksson, Serge Saxonov, Itsik Pe'er, and Joanna Mountain

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Synergistic Use of Remote Sensing and Modeling for Tracing Dust Storms in the Mediterranean, D. G. Kaskaoutis, Anup K. Prasad, P. G. Kosmopoulos, P. R. Sinha, S. K. Kharol, P. Gupta, Hesham el-Askary, and Menas Kafatos

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Influence of anomalous dry conditions on aerosols over India: Transport, distribution and properties, Dimitris G. Kaskaoutis, Ritesh Gautam, Ramesh P. Singh, E. E. Housos, D. Goto, S. Singh, A. Bartzokas, P. G. Kosmopoulos, Manish Sharma, N. C. Hsu, B. N. Holben, and T. Takemura

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Variability and Trends of Aerosol Properties over Kanpur, Northern India Using AERONET Data (2001–10), Dimitris G. Kaskaoutis, Ramesh P. Singh, Ritesh Gautam, Manish Sharma, P. G. Kosmopoulos, and S. N. Tripathi

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Soil Organic Carbon Storage in Restored Salt Marshes in Huntington Beach, California, Jason K. Keller, Kimberly K. Takagi, Morgan E. Brown, Kellie N. Stump, and Chelsea G. Takahashi

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Toward a Framework For Systematic Error Modeling Of Spaceborne Precipitation Radar With Noaa/Nssl Ground Radar Based National Mosaic Qpe, Pierre-Emmanuel Kirstetter, Y. Hong, J. J. Gourley, S. Chen, Z. Flamig, J. Zhang, M. Schwaller, W. Peterson, and Eyal Amitai

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Association of a Multi-Synthetase Complex with Translating Ribosomes in the Archaeon Thermococcus kodakarensis, Medha Raina, Sara Elgamal, Thomas J. Santangelo, and Michael Ibba

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Taking AIM at the Start of Translation, Medha Raina and Michael Ibba

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A Pseudo-tRNA Modulates Antibiotic Resistance in Bacillus cereus, Theresa E. Rogers, Sandro F. Ataide, Kiley Dare, Assaf Katz, Stephanie Seveau, Hervé Roy, and Michael Ibba

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Insight: How Do Aerosols Vary Over Northern India?, Ramesh P. Singh

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Personality Type Differences Between Ph.D. Climate Researchers and the General Public: Implications for Effective Communication, C. Susan Weiler, Jason K. Keller, and Christina Olex

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Selection of tRNA Charging Quality Control Mechanisms That Increase Mistranslation of the Genetic Code, Srujana S. Yadavalli and Michael Ibba

Submissions from 2011

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Evaluation Of Satellite-Retrieved Extreme Precipitation Rates Across the Central United States, A. AghaKoucak, A. Behrangi, S. Sorooshian, K. Hsu, and Eyal Amitai

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Analysis of Agonism and Inverse Agonism in Functional Assays with Constitutive Activity: Estimation of Orthosteric Ligand Affinity Constants for Active and Inactive Receptor States, Frederick J. Ehlert, Michael T. Griffin, and Hinako Suga

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Analysis of Functional Responses at G Protein-Coupled Receptors: Estimation of Relative Affinity Constants for the Inactive Receptor Sstate, Frederick J. Ehlert, Michael T. Griffin, and Hinako Suga

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Quantifying Agonist Activity at G Protein-coupled Receptors, Frederick J. Ehlert, Hinako Suga, and Michael T. Griffin

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Intermediate Filaments Regulate Tissue Size and Stiffness in the Murine Lens, Douglas S. Fudge, John V. McCuaig, Shannon Van Stralen, John F. Hess, Huan Wang, Richard T. Mathias, and Paul G. FitzGerald