Submissions from 2012
Tropical tree seedling growth responses to nitrogen, phosphorus and potassium addition, Louis S. Santiago, S. Joseph Wright, Kyle E. Harms, Joseph B. Yavitt, Carmi Korine, Milton N. Garcia, and Benjamin L. Turner
Adipogenesis, Kelesha Sarjeant and Jacqueline M. Stephens
Variable Responses of Lowland Tropical Forest Nutrient Status to Fertilization and Litter Manipulation, Emma J. Sayer, S. Joseph Wright, Edmund V.J. Tanner, Joseph B. Yavitt, Kyle E. Harms, Jennifer S. Powers, Michael Kaspari, Milton N. Garcia, and Benjamin L. Turner
Multiple independent origins of mitochondrial control region duplications in the order Psittaciformes, Erin E. Schirtzinger, Erika S. Tavares, Lauren A. Gonzales, Jessica R. Eberhard, Cristina Y. Miyaki, Juan J. Sanchez, Alexis Hernandez, Heinrich Müeller, Gary R. Graves, Robert C. Fleischer, et al.
Density gradient enrichment of Escherichia coli lpxL mutants, David A. Six, Bliss Lambert, Christian R.H. Raetz, and William T. Doerrler
Further evidence for the likely completeness of the library of solved single domain protein structures, Jeffrey Skolnick, Hongyi Zhou, and Michal Brylinski
Assessment of polyaromatic hydrocarbon degradation by potentially pathogenic environmental Vibrio parahaemolyticus isolates from coastal Louisiana, USA, Conor B. Smith, Crystal N. Johnson, and Gary M. King
Genome-wide studies of the multi-zinc finger Drosophila Suppressor of Hairy-wing protein in the ovary, Alexey A. Soshnev, Bing He, Ryan M. Baxley, Nan Jiang, Craig M. Hart, Kai Tan, and Pamela K. Geyer
Revision of the endemic malagasy cavefish genus typhleotris (teleostei: Gobiiformes: milyeringidae), with discussion of its phylogenetic placement and description of a new species, John S. Sparks and Prosanta Chakrabarty
RIFL aims to be a new player in lipid metabolism, Jacqueline M. Stephens
The Fat Controller: Adipocyte Development, Jacqueline M. Stephens
Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes, J.A. St John, E.L. Braun, S.R. Isberg, L.G. Miles, A.Y. Chong, J. Gongora, P. Dalzell, C. Moran, B. Bed'Hom, A. Abzhanov, et al.
Little evidence of systemic and adipose tissue inflammation in overweight individuals(†), Charmaine S. Tam, Jeffrey D. Covington, Eric Ravussin, and Leanne M. Redman
Defining insulin resistance from hyperinsulinemic-euglycemic clamps, Charmaine S. Tam, Wenting Xie, William D. Johnson, William T. Cefalu, Leanne M. Redman, and Eric Ravussin
Competition of zinc ion for the [2Fe-2S] cluster binding site in the diabetes drug target protein mitoNEET, Guoqiang Tan, Aaron P. Landry, Ruili Dai, Li Wang, Jianxin Lu, and Huangen Ding
Epithelial Na + sodium channels in magnocellular cells of the rat supraoptic and paraventricular nuclei, Ryoichi Teruyama, Mayumi Sakuraba, Lori L. Wilson, Narine E.J. Wandrey, and William E. Armstrong
Airway remodeling in chronic alcohol C57BL/6 mice with inhalation co-exposure to combustion-generated particulate matter, P. T. Thevenot, J. Saravia, T. Ahlert, M. A. Kelly, T. R. Dugas, and S. A. Cormier
Primer3-new capabilities and interfaces, A. Untergasser, I. Cutcutache, T. Koressaar, J. Ye, B.C. Faircloth, M. Remm, and S.G. Rozen
Multilocus phylogenetic study of the Scheffersomyces yeast clade and characterization of the N-terminal region of xylose reductase gene, Hector Urbina and Meredith Blackwell
Remnant sugar maple (Acer saccharum subsp. skutchii) populations at their range edge: Characteristics, environmental constraints and conservation implications in tropical America, Yalma L. Vargas-Rodriguez and William J. Platt
The enzymes of biotin dependent CO₂ metabolism: what structures reveal about their reaction mechanisms, Grover L. Waldrop, Hazel M. Holden, and Martin St Maurice
Orangutan Alu quiescence reveals possible source element: support for ancient backseat drivers, Jerilyn A. Walker, Miriam K. Konkel, Brygg Ullmer, Christopher P. Monceaux, Oliver A. Ryder, Robert Hubley, Arian Fa Smit, and Mark A. Batzer
Dnt1 acts as a mitotic inhibitor of the spindle checkpoint protein dma1 in fission yeast, Yamei Wang, Wen Zhu Li, Alyssa E. Johnson, Zhou Qing Luo, Xue Li Sun, Anna Feoktistova, W. Hayes McDonald, Ian McLeod, John R. Yates, Kathleen L. Gould, et al.
The phylogenetic distribution and ecological role of carbon monoxide oxidation in the genus Burkholderia, Carolyn F. Weber and Gary M. King
Genomic and physiological footprint of the Deepwater Horizon oil spill on resident marsh fishes, Andrew Whitehead, Benjamin Dubansky, Charlotte Bodinier, Tzintzuni I. Garcia, Scott Miles, Chet Pilley, Vandana Raghunathan, Jennifer L. Roach, Nan Walker, Ronald B. Walter, et al.
Reply to Jenkins et al.: Evidence for contaminating oil exposure is closely linked in space and time to biological effects, Andrew Whitehead, Benjamin Dubansky, Charlotte Bodinier, Tzintzuni I. Garcia, Scott Miles, Chet Pilley, Vandana Raghunathan, Jennifer L. Roach, Nan Walker, Ronald B. Walter, et al.
Salinity- and population-dependent genome regulatory response during osmotic acclimation in the killifish (Fundulus heteroclitus) gill, Andrew Whitehead, Jennifer L. Roach, Shujun Zhang, and Fernando Galvez
Radial wood allocation in Schizolobium parahyba, G Bruce Williamson, Michael C. Wiemann, and James P. Geaghan
Insights into salt tolerance from the genome of Thellungiella salsuginea, Hua Jun Wu, Zhonghui Zhang, Jun Yi Wang, Dong Ha Oh, Maheshi Dassanayake, Binghang Liu, Quanfei Huang, Hai Xi Sun, Ran Xia, Yaorong Wu, et al.
Phylogenomics and a posteriori data partitioning resolve the Cretaceous angiosperm radiation Malpighiales, Zhenxiang Xi, Brad R. Ruhfel, Hanno Schaefer, André M. Amorim, M. Sugumaran, Kenneth J. Wurdack, Peter K. Endress, Merran L. Matthews, Peter F. Stevens, Sarah Mathews, et al.
Angiogenic deficiency and adipose tissue dysfunction are associated with macrophage malfunction in SIRT1 -/- mice, Fen Xu, David Burk, Zhanguo Gao, Jun Yin, Xia Zhang, Jianping Weng, and Jianping Ye
On determination of low oxygen concentrations with Winkler technique, E. V. Yakushev, E. L. Vinogradova, A. V. Dubinin, A. V. Kostyleva, N. M. Men'shikova, and S. V. Pakhomova
Limited Type I IFNs Play a Role in the Pathogenesis of Respiratory Syncytial Virus in Neonatal Mice, D. H. You, G. Lee, B. Shrestha, L. Shen, and S. Cormier
Submissions from 2011
Up-regulation of P-glycoprotein reduces intracellular accumulation of beta amyloid: Investigation of P-glycoprotein as a novel therapeutic target for Alzheimer's disease, Alaa H. Abuznait, Courtney Cain, Drury Ingram, David Burk, and Amal Kaddoumi
Corrigendum to "Orbit closures in the enhanced nilpotent cone" [Adv. Math. 219 (1) (2008) 27-62], Pramod N. Achar and Anthony Henderson
Normality of orbit closures in the enhanced nilpotent cone, Pramod N. Achar, Anthony Henderson, and Benjamin F. Jones
Pieces of nilpotent cones for classical groups, Pramod N. Achar, Anthony Henderson, and Eric Sommers
Baric structures on triangulated categories and coherent sheaves, Pramod N. Achar and David Treumann
Skeletal muscle mitochondrial capacity and insulin resistance in type 2 diabetes, Sudip Bajpeyi, Magdalena Pasarica, Cedric Moro, Kevin Conley, Sharon Jubrias, Olga Sereda, David H. Burk, Zhengyu Zhang, Alok Gupta, Lise Kjems, et al.
Environmentally persistent free radicals induce airway hyperresponsiveness in neonatal rat lungs, Shrilatha Balakrishna, Jordy Saravia, Paul Thevenot, Terry Ahlert, Slawo Lominiki, Barry Dellinger, and Stephania A. Cormier
Grass feedbacks on fire stabilize savannas, Brian Beckage, Louis J. Gross, and William J. Platt
Activation of the zymogen to urokinase-type plasminogen activator is associated with increased interdomain flexibility, Manja A. Behrens, Kenneth A. Botkjaer, Sumit Goswami, Cristiano L.P. Oliveira, Jan K. Jensen, Christine R. Schar, Paul J. Declerck, Cynthia B. Peterson, Peter A. Andreasen, and Jan Skov Pedersen
The fungi: 1, 2, 3 ... 5.1 million species?, Meredith Blackwell
On the cutting edge: Post-translational modifications in cytokinesis, K. Adam Bohnert and Kathleen L. Gould
Nonadaptive evolution of mitochondrial genome size, Bastien Boussau, Jeremy M. Brown, and Matthew K. Fujita
Auxiliary functions of the PsbO, PsbP and PsbQ proteins of higher plant Photosystem II: a critical analysis, Terry M. Bricker and Laurie K. Frankel
DIM SUM: demography and individual migration simulated using a Markov chain, JM Brown, K Savidge, and EJB McTavish
Why not consider a spherical protein? Implications of backbone hydrogen bonding for protein structure and function, Michal Brylinski, Mu Gao, and Jeffrey Skolnick
The utility of geometrical and chemical restraint information extracted from predicted ligand-binding sites in protein structure refinement, Michal Brylinski, Seung Yup Lee, Hongyi Zhou, and Jeffrey Skolnick
FINDSITE-metal: Integrating evolutionary information and machine learning for structure-based metal-binding site prediction at the proteome level, Michal Brylinski and Jeffrey Skolnick
Efficacy of low-level laser therapy for body contouring and spot fat reduction, Mary K. Caruso-Davis, Thomas S. Guillot, Vinod K. Podichetty, Nazar Mashtalir, Nikhil V. Dhurandhar, Olga Dubuisson, Ying Yu, and Frank L. Greenway
Longitudinal assessment of cognitive and psychosocial functioning after Hurricanes Katrina and Rita: Exploring disaster impact on middle-aged, older, and oldest-old adults, Katie E. Cherry, Jennifer Silva Brown, Loren D. Marks, Sandro Galea, Julia Volaufova, Christina Lefante, L. Joseph Su, David A. Welsh, S. Michal Jazwinski, Meghan B. Allen, et al.
EFFECTS OF POSTMORTEM INTERVAL AND PRESERVATION METHOD ON RNA ISOLATED FROM FIELD-PRESERVED AVIAN TISSUES, Zachary A. Cheviron, Matthew D. Carling, and Robb T. Brumfield
NKS1, Na+- and K+-sensitive 1, regulates ion homeostasis in an SOS-independent pathway in Arabidopsis, Wonkyun Choi, Dongwon Baek, Dong Ha Oh, Jiyoung Park, Hyewon Hong, Woe Yeon Kim, Hans J. Bohnert, Ray A. Bressan, Hyeong Cheol Park, and Dae Jin Yun
Alu pair exclusions in the human genome, George W. Cook, Miriam K. Konkel, James D. Major, Jerilyn A. Walker, Kyudong Han, and Mark A. Batzer
Innate IL-13 in virus-induced asthma?, S. A. Cormier and J. K. Kolls
Investigating combinatorial approaches in virtual screening on human inducible 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase (PFKFB3): A case study for small molecule kinases, Robert B. Crochet, Michael C. Cavalier, Minsuh Seo, Jeong Do Kim, Young Sun Yim, Seung Jong Park, and Yong Hwan Lee
The genome of the extremophile crucifer Thellungiella parvula, Maheshi Dassanayake, Dong Ha Oh, Jeffrey S. Haas, Alvaro Hernandez, Hyewon Hong, Shahjahan Ali, Dae Jin Yun, Ray A. Bressan, Jian Kang Zhu, Hans J. Bohnert, et al.
Transcription strength and halophytic lifestyle, Maheshi Dassanayake, Dong ha Oh, Hyewon Hong, Hans J. Bohnert, and John M. Cheeseman
Tripodfish (Aulopiformes: Bathypterois) locomotion and landing behaviour from video observation at bathypelagic depths in the Campos Basin of Brazil, Matthew P. Davis and Prosanta Chakrabarty
Repetitive elements may comprise over Two-Thirds of the human genome, A. P.Jason de Koning, Wanjun Gu, Todd A. Castoe, Mark A. Batzer, and David D. Pollock
Lineage diversification and morphological evolution in a large-scale continental radiation: The neotropical ovenbirds and woodcreepers (aves: furnariidae), Elizabeth P. Derryberry, Santiago Claramunt, Graham Derryberry, R. Terry Chesser, Joel Cracraft, Alexandre Aleixo, Jorge Pérez-Emán, J. V. Remsen, and Robb T. Brumfield
E4orf1: a novel ligand that improves glucose disposal in cell culture, Emily J. Dhurandhar, Olga Dubuisson, Nazar Mashtalir, Rashmi Krishnapuram, Vijay Hegde, and Nikhil V. Dhurandhar
Virus-derived siRNAs and piRNAs in immunity and pathogenesis, Shou Wei Ding and Rui Lu
Influence of cortisol on the attachment and metamorphosis of larval Utterbackia imbecillis on bluegill sunfish (Lepomis macrochirus), Benjamin Dubansky, Brian Whitaker, and Fernando Galvez
Calcium promotes exopolysaccharide phase variation and biofilm formation of the resulting phase variants in the human pathogen Vibrio vulnificus, Katherine L. Garrison-Schilling, Brenda L. Grau, Kevin S. McCarter, Brett J. Olivier, Nicole E. Comeaux, and Gregg S. Pettis
The structure of human 5-lipoxygenase, Nathaniel C. Gilbert, Sue G. Bartlett, Maria T. Waight, David B. Neau, William E. Boeglin, Alan R. Brash, and Marcia E. Newcomer
Functional evolution of bacterial histone-like HU proteins, A. Grove
Environmental heterogeneity and spatiotemporal variability in plant defense traits, Alyssa S. Hakes and James T. Cronin
Resistance and tolerance to herbivory in Solidago altissima (Asteraceae): Genetic variability, costs, and selection for multiple traits, Alyssa S. Hakes and James T. Cronin
Metabolic restructuring during energy-limited states: Insights from Artemia franciscana embryos and other animals, Steven C. Hand, Michael A. Menze, Apu Borcar, Yuvraj Patil, Joseph A. Covi, Julie A. Reynolds, and Mehmet Toner
LEA proteins during water stress: Not just for plants anymore, Steven C. Hand, Michael A. Menze, Mehmet Toner, Leaf Boswell, and Daniel Moore
Equilibrium submanifold for a biological system, H. He and N. Kato
PRGMATIC: an efficient pipeline for collating genome-enriched second-generation sequencing data using a 'provisional-reference genome', Sarah M. Hird, Robb T. Brumfield, and Bryan C. Carstens
Site-specific proteolytic cleavage of the amino terminus of herpes simplex virus glycoprotein K on virion particles inhibits virus entry, Nithya Jambunathan, Sona Chowdhury, Ramesh Subramanian, Vladimir N. Chouljenko, Jason D. Walker, and Konstantin G. Kousoulas
Crystal structure of plasminogen activator inhibitor-1 in an active conformation with normal thermodynamic stability, Jan K. Jensen, Lawrence C. Thompson, Joel C. Bucci, Poul Nissen, Peter G.W. Gettins, Cynthia B. Peterson, Peter A. Andreasen, and J. Preben Morth
Dma1 ubiquitinates the SIN scaffold, Sid4, to impede the mitotic localization of Plo1 kinase, Alyssa E. Johnson and Kathleen L. Gould
Decoding the genome with an integrative analysis tool: Combinatorial CRM Decoder, Keunsoo Kang, Joomyeong Kim, Jae Hoon Chung, and Daeyoup Lee
BRANCHLESS TRICHOMES links cell shape and cell cycle control in Arabidopsis trichomes, Remmy Kasili, Cho Chun Huang, Jason D. Walker, L. Alice Simmons, Jing Zhou, Chris Faulk, Martin Hülskamp, and John C. Larkin
Model Particulate Matter Containing Persistent Free Radicals Exhibit Reactive Oxygen Species Production, M. A. Kelley, T. Thibeaux, V. Y. Hebert, S. A. Cormier, S. Lomnicki, B. Dellinger, and T. R. Dugas
Aebp2 as an epigenetic regulator for neural crest cells, Hana Kim, Keunsoo Kang, Muhammad B. Ekram, Tae Young Roh, and Joomyeong Kim
Rex1/Zfp42 as an epigenetic regulator for genomic imprinting, Jeong Do Kim, Hana Kim, Muhammad B. Ekram, Sungryul Yu, Christopher Faulk, and Joomyeong Kim
Enhancing soil carbon storage for carbon remediation: Potential contributions and constraints by microbes, Gary M. King
Autoregulation of an RNA polymerase II promoter by the RNA polymerase III transcription factor III C (TFIIIC) complex, Richard A. Kleinschmidt, Kimberly E. LeBlanc, and David Donze
Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment, Irina Kufareva, Manuel Rueda, Vsevolod Katritch, Raymond C. Stevens, Ruben Abagyan, Yasushi Yoshikawa, Toshio Furuya, Huisun Lee, Ambrish Roy, John Grime, et al.
Developing a community-based genetic nomenclature for anole lizards, Kenro Kusumi, Rob J. Kulathinal, Abzhanov, Stephane Boissinot, Nicholas G. Crawford, Brant C. Faircloth, Travis C. Glenn, Daniel E. Janes, Jonathan B. Losos, Douglas B. Menke, et al.
Iron-sulfur proteins are the major source of protein-bound dinitrosyl iron complexes formed in Escherichia coli cells under nitric oxide stress, Aaron P. Landry, Xuewu Duan, Hao Huang, and Huangen Ding
Assessment of Corticosterone Levels in American Alligators (Alligator mississippiensis) with Dermatitis, Christine Lattin
Elevated corticosterone in feathers correlates with corticosterone-induced decreased feather quality: A validation study, Christine R. Lattin, J. Michael Reed, David W. Desrochers, and L. Michael Romero
Arabidopsis RTNLB1 and RTNLB2 reticulon-like proteins regulate intracellular trafficking and activity of the FLS2 immune receptor, Hyoung Yool Lee, Christopher Hyde Bowen, George Viorel Popescu, Hong Gu Kang, Naohiro Kato, Shisong Ma, Savithramma Dinesh-Kumar, Michael Snyder, and Sorina Claudia Popescu
Invasion of a southeastern pine savanna by japanese climbing fern, Ellen R. Leichty, Becky J. Carmichael, and William J. Platt
Guidelines for HIV in court cases, T. Leitner
Analysis of free energy versus temperature curves in protein folding and macromolecular interactions, Vince J. LiCata and Chin Chi Liu
N-methylpurines are heterogeneously repaired in human mitochondria but not evidently repaired in yeast mitochondria, Shisheng Li
A genetically tagged Psb27 protein allows purification of two consecutive photosystem II (PSII) assembly intermediates in Synechocystis 6803, a cyanobacterium, Haijun Liu, Johnna L. Roose, Jeffrey C. Cameron, and Himadri B. Pakrasi
Comparative and demographic analysis of orang-utan genomes, Devin P. Locke, Ladeana W. Hillier, Wesley C. Warren, Kim C. Worley, Lynne V. Nazareth, Donna M. Muzny, Shiaw Pyng Yang, Zhengyuan Wang, Asif T. Chinwalla, Pat Minx, et al.
Environmentally persistent free radicals decrease cardiac function before and after ischemia/reperfusion injury in vivo, Kevin Lord, David Moll, John K. Lindsey, Sarah Mahne, Girija Raman, Tammy Dugas, Stephania Cormier, Dana Troxlair, Slawo Lomnicki, Barry Dellinger, et al.
Escherichia coli topoisomerase i is an iron and zinc binding protein, Jianxin Lu, Wu Wang, Guoqiang Tan, Aaron P. Landry, Peng Yi, Fan Si, Yaguang Ren, and Huangen Ding
Selection Response Decomposition (SRD): A New Tool for Dissecting Differences and Similarities Between Matrices, Gabriel Marroig, Diogo Melo, Arthur Porto, Harley Sebastião, and Guilherme Garcia
Plasticity of the reproductive axis caused by social status change in an african cichlid fish: II. Testicular gene expression and spermatogenesis, Karen P. Maruska and Russell D. Fernald