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IN THIS ISSUE

This Week in PNAS
PNAS 2005 102: 3887-3888. [Full Text] [Figures Only] [PDF]  

COMMENTARIES

Kenneth H. Nealson

Hydrogen and energy flow as "sensed" by molecular genetics
PNAS 2005 102: 3889-3890; published online before print March 7 2005, 10.1073/pnas.0500211102 [Extract] [Full Text] [Figures Only] [PDF]  
See companion article on page 2555 in issue 7 of volume 102

REVIEWS

Adriano Garsia and Jeffrey B. Remmel

Breakthroughs in the theory of Macdonald polynomials
PNAS 2005 102: 3891-3894; published online before print March 7 2005, 10.1073/pnas.0409705102 [Extract] [Full Text] [Figures Only] [PDF]  

PHYSICAL SCIENCES

Applied Mathematics

Alexandre J. Chorin and Ole H. Hald

Viscosity-dependent inertial spectra of the Burgers and Korteweg–deVries–Burgers equations
PNAS 2005 102: 3921-3923; published online before print March 7 2005, 10.1073/pnas.0500335102 [Abstract] [Full Text] [Figures Only] [PDF]  

Chemistry

Mila Boncheva, Stefan A. Andreev, L. Mahadevan, Adam Winkleman, David R. Reichman, Mara G. Prentiss, Sue Whitesides, and George M. Whitesides

Magnetic self-assembly of three-dimensional surfaces from planar sheets
PNAS 2005 102: 3924-3929; published online before print March 7 2005, 10.1073/pnas.0500807102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Physics

Y. Fasano, M. De Seta, M. Menghini, H. Pastoriza, and F. de la Cruz Inaugural Article by a Recently Elected Academy Member: Inaugural Article: Commensurability and stability in nonperiodic systems PNAS 2005 102: 3898-3902; published online before print January 24 2005, 10.1073/pnas.0408016102 [Abstract] [Full Text] [Figures Only] [PDF]

SOCIAL SCIENCES

Economic Sciences

BIOLOGICAL SCIENCES

Applied Biological Sciences

Gabriele Toietta, Viraj P. Mane, Wilma S. Norona, Milton J. Finegold, Philip Ng, Antony F. McDonagh, Arthur L. Beaudet, and Brendan Lee

Lifelong elimination of hyperbilirubinemia in the Gunn rat with a single injection of helper-dependent adenoviral vector
PNAS 2005 102: 3930-3935; published online before print March 7 2005, 10.1073/pnas.0500930102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Ka Bian, Meng Zhong, Yael Harari, Mildred Lai, Norman Weisbrodt, and Ferid Murad From the Cover: Helminth regulation of host IL-4R/Stat6 signaling: Mechanism underlying NOS-2 inhibition by Trichinella spiralis PNAS 2005 102: 3936-3941; published online before print March 1 2005, 10.1073/pnas.0409461102 [Abstract] [Full Text] [Figures Only] [PDF]

Biochemistry

Adam M. Breier, Heinz-Ulrich G. Weier, and Nicholas R. Cozzarelli Independence of replisomes in Escherichia coli chromosomal replication PNAS 2005 102: 3942-3947; published online before print February 28 2005, 10.1073/pnas.0500812102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Figure] OPEN ACCESS ARTICLE

Hanno Steen, Judith A. Jebanathirajah, Michael Springer, and Marc W. Kirschner Stable isotope-free relative and absolute quantitation of protein phosphorylation stoichiometry by MS PNAS 2005 102: 3948-3953; published online before print March 1 2005, 10.1073/pnas.0409536102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information] OPEN ACCESS ARTICLE

Victor Guallar and Kenneth W. Borrelli

A binding mechanism in protein–nucleotide interactions: Implication for U1A RNA binding
PNAS 2005 102: 3954-3959; published online before print March 7 2005, 10.1073/pnas.0500888102 [Abstract] [Full Text] [Figures Only] [PDF]  

Ellen Yeh, Sylvie Garneau, and Christopher T. Walsh

Robust in vitro activity of RebF and RebH, a two-component reductase/halogenase, generating 7-chlorotryptophan during rebeccamycin biosynthesis
PNAS 2005 102: 3960-3965; published online before print March 2 2005, 10.1073/pnas.0500755102 [Abstract] [Full Text] [Figures Only] [PDF]  

Minghao Zhong, Melissa A. Henriksen, Kenji Takeuchi, Olaf Schaefer, Bin Liu, Johanna ten Hoeve, Zhiyong Ren, Xiang Mao, Xiaomin Chen, Ke Shuai, and James E. Darnell, Jr.

Implications of an antiparallel dimeric structure of nonphosphorylated STAT1 for the activation–inactivation cycle
PNAS 2005 102: 3966-3971; published online before print March 7 2005, 10.1073/pnas.0501063102 [Abstract] [Full Text] [Figures Only] [PDF]  

Zhiyuan Hu, Seung Hun Cha, Goedelle van Haasteren, Jing Wang, and M. Daniel Lane From the Cover: Effect of centrally administered C75, a fatty acid synthase inhibitor, on ghrelin secretion and its downstream effects PNAS 2005 102: 3972-3977; published online before print February 23 2005, 10.1073/pnas.0500619102 [Abstract] [Full Text] [Figures Only] [PDF] OPEN ACCESS ARTICLE

Irantzu Pallarès, Roman Bonet, Raquel García-Castellanos, Salvador Ventura, Francesc X. Avilés, Josep Vendrell, and F. Xavier Gomis-Rüth

Structure of human carboxypeptidase A4 with its endogenous protein inhibitor, latexin
PNAS 2005 102: 3978-3983; published online before print February 28 2005, 10.1073/pnas.0500678102 [Abstract] [Full Text] [Figures Only] [PDF]  

Biophysics

Corey J. Wilson and Pernilla Wittung-Stafshede

Role of structural determinants in folding of the sandwich-like protein Pseudomonas aeruginosa azurin
PNAS 2005 102: 3984-3987; published online before print March 7 2005, 10.1073/pnas.0501038102 [Abstract] [Full Text] [Figures Only] [PDF]  

Buyong Ma, Yongping Pan, K. Gunasekaran, R. Babu Venkataraghavan, Arnold J. Levine, and Ruth Nussinov

Comparison of the protein–protein interfaces in the p53–DNA crystal structures: Towards elucidation of the biological interface
PNAS 2005 102: 3988-3993; published online before print February 28 2005, 10.1073/pnas.0500215102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Lucia Banci, Ivano Bertini, Simone Ciofi-Baffoni, Efthalia Katsari, Nikolaos Katsaros, Karel Kubicek, and Stefano Mangani

A copper(I) protein possibly involved in the assembly of Cu_A center of bacterial cytochrome c oxidase
PNAS 2005 102: 3994-3999; published online before print March 7 2005, 10.1073/pnas.0406150102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Wendy D. Nelson, Sarah E. Blakely, Yuri E. Nesmelov, and David D. Thomas

Site-directed spin labeling reveals a conformational switch in the phosphorylation domain of smooth muscle myosin
PNAS 2005 102: 4000-4005; published online before print March 7 2005, 10.1073/pnas.0401664102 [Abstract] [Full Text] [Figures Only] [PDF]  

Cell Biology

Harlan Robins, Ying Li, and Richard W. Padgett

Incorporating structure to predict microRNA targets
PNAS 2005 102: 4006-4009; published online before print February 28 2005, 10.1073/pnas.0500775102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Table]  

Lalita Gupta, Sanjeev Kumar, Yeon Soo Han, Paulo F. P. Pimenta, and Carolina Barillas-Mury

Midgut epithelial responses of different mosquito–Plasmodium combinations: The actin cone zipper repair mechanism in Aedes aegypti
PNAS 2005 102: 4010-4015; published online before print March 7 2005, 10.1073/pnas.0409642102 [Abstract] [Full Text] [Figures Only] [PDF]  

James C. Mulloy, Vladimir Jankovic, Mark Wunderlich, Ruud Delwel, Jorg Cammenga, Ondrej Krejci, Hui Zhao, Peter J. M. Valk, Bob Lowenberg, and Stephen D. Nimer

AML1-ETO fusion protein up-regulates TRKA mRNA expression in human CD34⁺ cells, allowing nerve growth factor-induced expansion
PNAS 2005 102: 4016-4021; published online before print February 24 2005, 10.1073/pnas.0404701102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Thalia Becker, Allen Volchuk, and James E. Rothman

Differential use of endoplasmic reticulum membrane for phagocytosis in J774 macrophages
PNAS 2005 102: 4022-4026; published online before print March 7 2005, 10.1073/pnas.0409219102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Zhong Yu, Nuria Sánchez-Velar, Irina E. Catrina, Ellen L. W. Kittler, Enyeneama B. Udofia, and Maria L. Zapp The cellular HIV-1 Rev cofactor hRIP is required for viral replication PNAS 2005 102: 4027-4032; published online before print March 4 2005, 10.1073/pnas.0408889102 [Abstract] [Full Text] [Figures Only] [PDF] OPEN ACCESS ARTICLE

Isabelle Vergne, Jennifer Chua, Hwang-Ho Lee, Megan Lucas, John Belisle, and Vojo Deretic

Mechanism of phagolysosome biogenesis block by viable Mycobacterium tuberculosis
PNAS 2005 102: 4033-4038; published online before print March 7 2005, 10.1073/pnas.0409716102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Developmental Biology

Ayako Isotani, Tomoko Nakanishi, Shin Kobayashi, Jiyoung Lee, Shinichiro Chuma, Norio Nakatsuji, Fumitoshi Ishino, and Masaru Okabe

Genomic imprinting of XX spermatogonia and XX oocytes recovered from XXXY chimeric testes
PNAS 2005 102: 4039-4044; published online before print March 3 2005, 10.1073/pnas.0406769102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Text]  

Evolution

Anurag Sethi, Patrick O'Donoghue, and Zaida Luthey-Schulten

Evolutionary profiles from the QR factorization of multiple sequence alignments
PNAS 2005 102: 4045-4050; published online before print March 1 2005, 10.1073/pnas.0409715102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Yi Zhou and Bud Mishra

Quantifying the mechanisms for segmental duplications in mammalian genomes by statistical analysis and modeling
PNAS 2005 102: 4051-4056; published online before print March 1 2005, 10.1073/pnas.0407957102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Nikolas Nikolaidis, Izabela Makalowska, Dimitra Chalkia, Wojciech Makalowski, Jan Klein, and Masatoshi Nei

Origin and evolution of the chicken leukocyte receptor complex
PNAS 2005 102: 4057-4062; published online before print March 7 2005, 10.1073/pnas.0501040102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Figures]  

Jian Lu and Chung-I Wu

Weak selection revealed by the whole-genome comparison of the X chromosome and autosomes of human and chimpanzee
PNAS 2005 102: 4063-4067; published online before print February 23 2005, 10.1073/pnas.0500436102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Genetics

Krasimir Slanchev, Jürg Stebler, Guillermo de la Cueva-Méndez, and Erez Raz From the Cover: Development without germ cells: The role of the germ line in zebrafish sex differentiation PNAS 2005 102: 4074-4079; published online before print February 23 2005, 10.1073/pnas.0407475102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information] OPEN ACCESS ARTICLE

Jean-Philippe David, Clare Strode, John Vontas, Dimitra Nikou, Ashley Vaughan, Patricia M. Pignatelli, Christos Louis, Janet Hemingway, and Hilary Ranson

The Anopheles gambiae detoxification chip: A highly specific microarray to study metabolic-based insecticide resistance in malaria vectors
PNAS 2005 102: 4080-4084; published online before print March 7 2005, 10.1073/pnas.0409348102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Table]  

Dirk Prawitt, Thorsten Enklaar, Barbara Gärtner-Rupprecht, Christian Spangenberg, Monika Oswald, Ekkehart Lausch, Peter Schmidtke, Dirk Reutzel, Stephan Fees, Rob Lucito, Maria Korzon, Izabela Brozek, Janusz Limon, David E. Housman, Jerry Pelletier, and Bernhard Zabel

Microdeletion of target sites for insulator protein CTCF in a chromosome 11p15 imprinting center in Beckwith–Wiedemann syndrome and Wilms' tumor
PNAS 2005 102: 4085-4090; published online before print March 2 2005, 10.1073/pnas.0500037102 [Abstract] [Full Text] [Figures Only] [PDF]  

Immunology

Santiago Zelenay, Thiago Lopes-Carvalho, Iris Caramalho, Maria Francisca Moraes-Fontes, Manuel Rebelo, and Jocelyne Demengeot

Foxp3⁺ CD25^– CD4 T cells constitute a reservoir of committed regulatory cells that regain CD25 expression upon homeostatic expansion
PNAS 2005 102: 4091-4096; published online before print March 7 2005, 10.1073/pnas.0408679102 [Abstract] [Full Text] [Figures Only] [PDF]  

Yosef Refaeli, Kenneth A. Field, Brian C. Turner, Andreas Trumpp, and J. Michael Bishop The protooncogene MYC can break B cell tolerance PNAS 2005 102: 4097-4102; published online before print March 7 2005, 10.1073/pnas.0409832102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Figure] OPEN ACCESS ARTICLE

Mindi R. Walker, Bryan D. Carson, Gerald T. Nepom, Steven F. Ziegler, and Jane H. Buckner

De novo generation of antigen-specific CD4⁺CD25⁺ regulatory T cells from human CD4⁺CD25^– cells
PNAS 2005 102: 4103-4108; published online before print March 7 2005, 10.1073/pnas.0407691102 [Abstract] [Full Text] [Figures Only] [PDF]  

Sébastien Lacroix-Desmazes, Jagadeesh Bayry, Srini V. Kaveri, David Hayon-Sonsino, Nithyananda Thorenoor, Julien Charpentier, Charles-Edouard Luyt, Jean-Paul Mira, Valakunja Nagaraja, Michel D. Kazatchkine, Jean-François Dhainaut, and Vincent O. Mallet From the Cover: High levels of catalytic antibodies correlate with favorable outcome in sepsis PNAS 2005 102: 4109-4113; published online before print March 2 2005, 10.1073/pnas.0500586102 [Abstract] [Full Text] [Figures Only] [PDF]

Medical Sciences

Mario Barro and John T. Patton

Rotavirus nonstructural protein 1 subverts innate immune response by inducing degradation of IFN regulatory factor 3
PNAS 2005 102: 4114-4119; published online before print March 1 2005, 10.1073/pnas.0408376102 [Abstract] [Full Text] [Figures Only] [PDF]  

Zhenrong Xu, Linyun Chen, Laura Leung, T. S. Benedict Yen, Candy Lee, and Jefferson Y. Chan

Liver-specific inactivation of the Nrf1 gene in adult mouse leads to nonalcoholic steatohepatitis and hepatic neoplasia
PNAS 2005 102: 4120-4125; published online before print February 28 2005, 10.1073/pnas.0500660102 [Abstract] [Full Text] [Figures Only] [PDF]  

Gregory E. Morley, Stephan B. Danik, Scott Bernstein, Yanjie Sun, Gregg Rosner, David E. Gutstein, and Glenn I. Fishman

Reduced intercellular coupling leads to paradoxical propagation across the Purkinje-ventricular junction and aberrant myocardial activation
PNAS 2005 102: 4126-4129; published online before print March 7 2005, 10.1073/pnas.0500881102 [Abstract] [Full Text] [Figures Only] [PDF]  

Stephan M. Tanner, Zhongyuan Li, James D. Perko, Cihan Öner, Mualla Çetin, Çigdem Altay, Zekiye Yurtsever, Karen L. David, Laurence Faivre, Essam A. Ismail, Ralph Gräsbeck, and Albert de la Chapelle

Hereditary juvenile cobalamin deficiency caused by mutations in the intrinsic factor gene
PNAS 2005 102: 4130-4133; published online before print February 28 2005, 10.1073/pnas.0500517102 [Abstract] [Full Text] [Figures Only] [PDF]  

Shuen-Iu Hung, Wen-Hung Chung, Lieh-Bang Liou, Chen-Chung Chu, Marie Lin, Hsien-Ping Huang, Yen-Ling Lin, Joung-Liang Lan, Li-Cheng Yang, Hong-Shang Hong, Ming-Jing Chen, Ping-Chin Lai, Mai-Szu Wu, Chia-Yu Chu, Kuo-Hsien Wang, Chien-Hsiun Chen, Cathy S. J. Fann, Jer-Yuarn Wu, and Yuan-Tsong Chen

HLA-B*5801 allele as a genetic marker for severe cutaneous adverse reactions caused by allopurinol
PNAS 2005 102: 4134-4139; published online before print March 2 2005, 10.1073/pnas.0409500102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Table]  

Microbiology

Eric Altermann, W. Michael Russell, M. Andrea Azcarate-Peril, Rodolphe Barrangou, B. Logan Buck, Olivia McAuliffe, Nicole Souther, Alleson Dobson, Tri Duong, Michael Callanan, Sonja Lick, Alice Hamrick, Raul Cano, and Todd R. Klaenhammer

Inaugural Article: From the Cover: Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM
PNAS 2005 102: 3906-3912; published online before print January 25 2005, 10.1073/pnas.0409188102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

M. B. Reeves, P. A. MacAry, P. J. Lehner, J. G. P. Sissons, and J. H. Sinclair

Latency, chromatin remodeling, and reactivation of human cytomegalovirus in the dendritic cells of healthy carriers
PNAS 2005 102: 4140-4145; published online before print February 28 2005, 10.1073/pnas.0408994102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Figures]  

Fabien Brossier, Travis J. Jewett, L. David Sibley, and Sinisa Urban

A spatially localized rhomboid protease cleaves cell surface adhesins essential for invasion by Toxoplasma
PNAS 2005 102: 4146-4151; published online before print March 7 2005, 10.1073/pnas.0407918102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Minoru Kidokoro, Masato Tashiro, and Hisatoshi Shida

Genetically stable and fully effective smallpox vaccine strain constructed from highly attenuated vaccinia LC16m8
PNAS 2005 102: 4152-4157; published online before print March 7 2005, 10.1073/pnas.0406671102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Neuroscience

Jonathan R. Polimeni, Domhnull Granquist-Fraser, Richard J. Wood, and Eric L. Schwartz

Physical limits to spatial resolution of optical recording: Clarifying the spatial structure of cortical hypercolumns
PNAS 2005 102: 4158-4163; published online before print March 3 2005, 10.1073/pnas.0500291102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

G. Karan, C. Lillo, Z. Yang, D. J. Cameron, K. G. Locke, Y. Zhao, S. Thirumalaichary, C. Li, D. G. Birch, H. R. Vollmer-Snarr, D. S. Williams, and K. Zhang

Lipofuscin accumulation, abnormal electrophysiology, and photoreceptor degeneration in mutant ELOVL4 transgenic mice: A model for macular degeneration
PNAS 2005 102: 4164-4169; published online before print March 4 2005, 10.1073/pnas.0407698102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

Yosuke Morishima, Tsuyoshi Miyakawa, Tomoyuki Furuyashiki, Yasuhiro Tanaka, Hiroshi Mizuma, and Shigetada Nakanishi

Enhanced cocaine responsiveness and impaired motor coordination in metabotropic glutamate receptor subtype 2 knockout mice
PNAS 2005 102: 4170-4175; published online before print March 7 2005, 10.1073/pnas.0500914102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Table]  

Andrew S. Fox, Terrence R. Oakes, Steven E. Shelton, Alexander K. Converse, Richard J. Davidson, and Ned H. Kalin

Calling for help is independently modulated by brain systems underlying goal-directed behavior and threat perception
PNAS 2005 102: 4176-4179; published online before print March 7 2005, 10.1073/pnas.0409470102 [Abstract] [Full Text] [Figures Only] [PDF]  

Elaine Waddington Lamont, Barry Robinson, Jane Stewart, and Shimon Amir

The central and basolateral nuclei of the amygdala exhibit opposite diurnal rhythms of expression of the clock protein Period2
PNAS 2005 102: 4180-4184; published online before print March 3 2005, 10.1073/pnas.0500901102 [Abstract] [Full Text] [Figures Only] [PDF]  

Pharmacology

Carmela De Santo, Paolo Serafini, Ilaria Marigo, Luigi Dolcetti, Manlio Bolla, Piero Del Soldato, Cecilia Melani, Cristiana Guiducci, Mario P. Colombo, Manuela Iezzi, Piero Musiani, Paola Zanovello, and Vincenzo Bronte

Nitroaspirin corrects immune dysfunction in tumor-bearing hosts and promotes tumor eradication by cancer vaccination
PNAS 2005 102: 4185-4190; published online before print March 7 2005, 10.1073/pnas.0409783102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Figures]  

Physiology

Barry D. Johnson, Todd Scheuer, and William A. Catterall

Convergent regulation of skeletal muscle Ca²⁺ channels by dystrophin, the actin cytoskeleton, and cAMP-dependent protein kinase
PNAS 2005 102: 4191-4196; published online before print March 7 2005, 10.1073/pnas.0409695102 [Abstract] [Full Text] [Figures Only] [PDF]  

Plant Biology

Zhennai Yang, Linda M. Rogers, Yuanda Song, Wenjin Guo, and P. E. Kolattukudy

Homoserine and asparagine are host signals that trigger in planta expression of a pathogenesis gene in Nectria haematococca
PNAS 2005 102: 4197-4202; published online before print March 7 2005, 10.1073/pnas.0500312102 [Abstract] [Full Text] [Figures Only] [PDF]  

Victor Levchenko, Kai R. Konrad, Petra Dietrich, M. Rob G. Roelfsema, and Rainer Hedrich

Cytosolic abscisic acid activates guard cell anion channels without preceding Ca²⁺ signals
PNAS 2005 102: 4203-4208; published online before print March 7 2005, 10.1073/pnas.0500146102 [Abstract] [Full Text] [Figures Only] [PDF] [Supporting Information]  

CORRECTIONS

Correction for Cherednichenko et al., Conformational activation of Ca²⁺ entry by depolarization of skeletal myotubes, PNAS 2004 101:15793-15798 [Extract] [Full Text] [PDF]