PNAS -- Table of Contents (Jul 6 2004, 101 (27))

Table of Contents

July 6, 2004; 101 (27) [Index By Author] [Cover Photo]

FROM THE COVER

Binocularity and brain size evolution

Adjustable protein binding sites in telomerase RNA

Minichromosome maintenance and checkpoint kinases

Insights into pathogen-directed endocytosis

Probing plant gene-to-metabolite networks

COMMENTARIES

PHYSICAL SCIENCES
    Applied Physical Sciences
    Chemistry
    Computer Sciences
    Engineering

SOCIAL SCIENCES
Social Sciences

BIOLOGICAL SCIENCES
    Agricultural Sciences
    Anthropology
    Applied Biological Sciences
    Biochemistry
    Biophysics
    Cell Biology
    Developmental Biology
    Ecology
    Evolution

    Immunology
    Medical Sciences
    Microbiology
    Neuroscience
    Pharmacology
    Plant Biology
    Population Biology

Access PNAS articles and abstracts: Instruction

COMMENTARIES

Joanne Engel: Tarp and Arp: How Chlamydia induces its own entry
PNAS 2004 101: 9947-9948; published online before print June 29 2004, 10.1073/pnas.0403633101 [Extract] [Full Text] [PDF]
See companion article on page 10166

Kirsi-Marja Oksman-Caldentey, Dirk Inzé, and Matej Oresic: Connecting genes to metabolites by a systems biology approach
PNAS 2004 101: 9949-9950; published online before print June 29 2004, 10.1073/pnas.0403636101 [Extract] [Full Text] [PDF]
See companion article on page 10205

PHYSICAL SCIENCES

Applied Physical Sciences

Mark C. Peterman, Jaan Noolandi, Mark S. Blumenkranz, and Harvey A. Fishman: Localized chemical release from an artificial synapse chip
PNAS 2004 101: 9951-9954; published online before print June 24 2004, 10.1073/pnas.0402089101 [Abstract] [Full Text] [PDF]

Chemistry

Antje Keppler, Horst Pick, Claudio Arrivoli, Horst Vogel, and Kai Johnsson: Labeling of fusion proteins with synthetic fluorophores in live cells
PNAS 2004 101: 9955-9959; published online before print June 28 2004, 10.1073/pnas.0401923101 [Abstract] [Full Text] [PDF] [Supporting Information]

Alan Saghatelian, Nadim Jessani, Arul Joseph, Mark Humphrey, and Benjamin F. Cravatt: Activity-based probes for the proteomic profiling of metalloproteases
PNAS 2004 101: 10000-10005; published online before print June 25 2004, 10.1073/pnas.0402784101 [Abstract] [Full Text] [PDF] [Supporting Information]

Computer Sciences

Rivka Adar, Yaakov Benenson, Gregory Linshiz, Amit Rosner, Naftali Tishby, and Ehud Shapiro: Stochastic computing with biomolecular automata
PNAS 2004 101: 9960-9965; published online before print June 23 2004, 10.1073/pnas.0400731101 [Abstract] [Full Text] [PDF] [Supporting Tables] OPEN ACCESS ARTICLE

Engineering

Takao Someya, Tsuyoshi Sekitani, Shingo Iba, Yusaku Kato, Hiroshi Kawaguchi, and Takayasu Sakurai: A large-area, flexible pressure sensor matrix with organic field-effect transistors for artificial skin applications
PNAS 2004 101: 9966-9970; published online before print June 28 2004, 10.1073/pnas.0401918101 [Abstract] [Full Text] [PDF]

SOCIAL SCIENCES

Social Sciences

Laureano Castro and Miguel A. Toro: The evolution of culture: From primate social learning to human culture
PNAS 2004 101: 10235-10240; published online before print June 24 2004, 10.1073/pnas.0400156101 [Abstract] [Full Text] [PDF]

BIOLOGICAL SCIENCES

Agricultural Sciences

Shaobing Peng, Jianliang Huang, John E. Sheehy, Rebecca C. Laza, Romeo M. Visperas, Xuhua Zhong, Grace S. Centeno, Gurdev S. Khush, and Kenneth G. Cassman: Rice yields decline with higher night temperature from global warming
PNAS 2004 101: 9971-9975; published online before print June 28 2004, 10.1073/pnas.0403720101 [Abstract] [Full Text] [PDF]

Anthropology

I. Martínez, M. Rosa, J.-L. Arsuaga, P. Jarabo, R. Quam, C. Lorenzo, A. Gracia, J.-M. Carretero, J.-M. Bermúdez de Castro, and E. Carbonell: Auditory capacities in Middle Pleistocene humans from the Sierra de Atapuerca in Spain
PNAS 2004 101: 9976-9981; published online before print June 22 2004, 10.1073/pnas.0403595101 [Abstract] [Full Text] [PDF] [Supporting Information]

Applied Biological Sciences

Kevin M. Marks, Patrick D. Braun, and Garry P. Nolan: A general approach for chemical labeling and rapid, spatially controlled protein inactivation
PNAS 2004 101: 9982-9987; published online before print June 24 2004, 10.1073/pnas.0401609101 [Abstract] [Full Text] [PDF]

Biochemistry

Rivka Adar, Yaakov Benenson, Gregory Linshiz, Amit Rosner, Naftali Tishby, and Ehud Shapiro: Stochastic computing with biomolecular automata
PNAS 2004 101: 9960-9965; published online before print June 23 2004, 10.1073/pnas.0400731101 [Abstract] [Full Text] [PDF] [Supporting Tables] OPEN ACCESS ARTICLE

Dmitry V. Bugreev and Alexander V. Mazin: Ca²⁺ activates human homologous recombination protein Rad51 by modulating its ATPase activity
PNAS 2004 101: 9988-9993; published online before print June 28 2004, 10.1073/pnas.0402105101 [Abstract] [Full Text] [PDF] [Supporting Figures]

Matthew K. Higgins, Evert Bokma, Eva Koronakis, Colin Hughes, and Vassilis Koronakis: Structure of the periplasmic component of a bacterial drug efflux pump
PNAS 2004 101: 9994-9999; published online before print June 28 2004, 10.1073/pnas.0400375101 [Abstract] [Full Text] [PDF]

Alan Saghatelian, Nadim Jessani, Arul Joseph, Mark Humphrey, and Benjamin F. Cravatt: Activity-based probes for the proteomic profiling of metalloproteases
PNAS 2004 101: 10000-10005; published online before print June 25 2004, 10.1073/pnas.0402784101 [Abstract] [Full Text] [PDF] [Supporting Information]

Thota Ganesh, Rebecca C. Guza, Susan Bane, Rudravajhala Ravindra, Natasha Shanker, Ami S. Lakdawala, James P. Snyder, and David G. I. Kingston: The bioactive Taxol conformation on ${beta}$ -tubulin: Experimental evidence from highly active constrained analogs
PNAS 2004 101: 10006-10011; published online before print June 28 2004, 10.1073/pnas.0403459101 [Abstract] [Full Text] [PDF] [Supporting Text]

Chung-Yi Wu, Jia-Tsrong Jan, Shiou-Hwa Ma, Chih-Jung Kuo, Hsueh-Fen Juan, Yih-Shyun E. Cheng, Hsien-Hua Hsu, Hsuan-Cheng Huang, Douglass Wu, Ashraf Brik, Fu-Sen Liang, Rai-Shung Liu, Jim-Min Fang, Shui-Tein Chen, Po-Huang Liang, and Chi-Huey Wong: Small molecules targeting severe acute respiratory syndrome human coronavirus
PNAS 2004 101: 10012-10017; published online before print June 28 2004, 10.1073/pnas.0403596101 [Abstract] [Full Text] [PDF]

Laura Segatori, Paul J. Paukstelis, Hiram F. Gilbert, and George Georgiou: Engineered DsbC chimeras catalyze both protein oxidation and disulfide-bond isomerization in Escherichia coli: Reconciling two competing pathways
PNAS 2004 101: 10018-10023; published online before print June 25 2004, 10.1073/pnas.0403003101 [Abstract] [Full Text] [PDF] [Supporting Information]

David C. Zappulla and Thomas R. Cech
From The Cover: Yeast telomerase RNA: A flexible scaffold for protein subunits
PNAS 2004 101: 10024-10029; published online before print June 28 2004, 10.1073/pnas.0403641101 [Abstract] [Full Text] [PDF] [Supporting Information] OPEN ACCESS ARTICLE

Deviprasad R. Gollapalli and Robert R. Rando: The specific binding of retinoic acid to RPE65 and approaches to the treatment of macular degeneration
PNAS 2004 101: 10030-10035; published online before print June 24 2004, 10.1073/pnas.0401936101 [Abstract] [Full Text] [PDF]

Na Pi, Caren L. Freel Meyers, Michelle Pacholec, Christopher T. Walsh, and Julie A. Leary: Mass spectrometric characterization of a three-enzyme tandem reaction for assembly and modification of the novobiocin skeleton
PNAS 2004 101: 10036-10041; published online before print June 24 2004, 10.1073/pnas.0403526101 [Abstract] [Full Text] [PDF]

Hiroaki Daitoku, Mitsutoki Hatta, Hitomi Matsuzaki, Satoko Aratani, Takayuki Ohshima, Makoto Miyagishi, Toshihiro Nakajima, and Akiyoshi Fukamizu: Silent information regulator 2 potentiates Foxo1-mediated transcription through its deacetylase activity
PNAS 2004 101: 10042-10047; published online before print June 25 2004, 10.1073/pnas.0400593101 [Abstract] [Full Text] [PDF]

Biophysics

Ashish B. Patel, Evan Crocker, Markus Eilers, Amiram Hirshfeld, Mordechai Sheves, and Steven O. Smith: Coupling of retinal isomerization to the activation of rhodopsin
PNAS 2004 101: 10048-10053; published online before print June 25 2004, 10.1073/pnas.0402848101 [Abstract] [Full Text] [PDF] [Supporting Figures]

Fatma Eker, Kai Griebenow, Xiaolin Cao, Laurence A. Nafie, and Reinhard Schweitzer-Stenner: Preferred peptide backbone conformations in the unfolded state revealed by the structure analysis of alanine-based (AXA) tripeptides in aqueous solution
PNAS 2004 101: 10054-10059; published online before print June 25 2004, 10.1073/pnas.0402623101 [Abstract] [Full Text] [PDF]

David S. Long, Michael L. Smith, Axel R. Pries, Klaus Ley, and Edward R. Damiano: Microviscometry reveals reduced blood viscosity and altered shear rate and shear stress profiles in microvessels after hemodilution
PNAS 2004 101: 10060-10065; published online before print June 25 2004, 10.1073/pnas.0402937101 [Abstract] [Full Text] [PDF] [Supporting Information]

David Rueda, Gregory Bokinsky, Maria M. Rhodes, Michael J. Rust, Xiaowei Zhuang, and Nils G. Walter: Single-molecule enzymology of RNA: Essential functional groups impact catalysis from a distance
PNAS 2004 101: 10066-10071; published online before print June 24 2004, 10.1073/pnas.0403575101 [Abstract] [Full Text] [PDF] [Supporting Information]

Cell Biology

M. M. Zarei, M. Eghbali, A. Alioua, M. Song, H.-G. Knaus, E. Stefani, and L. Toro: An endoplasmic reticulum trafficking signal prevents surface expression of a voltage- and Ca²⁺-activated K⁺ channel splice variant
PNAS 2004 101: 10072-10077; published online before print June 28 2004, 10.1073/pnas.0302919101 [Abstract] [Full Text] [PDF]

David Cortez, Gloria Glick, and Stephen J. Elledge
From The Cover: Minichromosome maintenance proteins are direct targets of the ATM and ATR checkpoint kinases
PNAS 2004 101: 10078-10083; published online before print June 21 2004, 10.1073/pnas.0403410101 [Abstract] [Full Text] [PDF] [Supporting Figures]

Sherry L. Ogg, Anne K. Weldon, Lorraine Dobbie, Andrew J. H. Smith, and Ian H. Mather: Expression of butyrophilin (Btn1a1) in lactating mammary gland is essential for the regulated secretion of milk–lipid droplets
PNAS 2004 101: 10084-10089; published online before print June 28 2004, 10.1073/pnas.0402930101 [Abstract] [Full Text] [PDF] [Supporting Information]

Lisa Juntti-Berggren, Essam Refai, Ioulia Appelskog, Mats Andersson, Gabriela Imreh, Nancy Dekki, Sabine Uhles, Lina Yu, William J. Griffiths, Sergei Zaitsev, Ingo Leibiger, Shao-Nian Yang, Gunilla Olivecrona, Hans Jörnvall, and Per-Olof Berggren: Apolipoprotein CIII promotes Ca²⁺-dependent ${beta}$ cell death in type 1 diabetes
PNAS 2004 101: 10090-10094; published online before print June 21 2004, 10.1073/pnas.0403551101 [Abstract] [Full Text] [PDF]

Developmental Biology

David M. Donnell, Laura S. Corley, Gang Chen, and Michael R. Strand: Caste determination in a polyembryonic wasp involves inheritance of germ cells
PNAS 2004 101: 10095-10100; published online before print June 28 2004, 10.1073/pnas.0403625101 [Abstract] [Full Text] [PDF]

Ecology

Peter B. Reich, David Tilman, Shahid Naeem, David S. Ellsworth, Johannes Knops, Joseph Craine, David Wedin, and Jared Trost: Species and functional group diversity independently influence biomass accumulation and its response to CO₂ and N
PNAS 2004 101: 10101-10106; published online before print June 25 2004, 10.1073/pnas.0306602101 [Abstract] [Full Text] [PDF] [Supporting Tables]

Rebecca J. Ganley, Steven J. Brunsfeld, and George Newcombe: A community of unknown, endophytic fungi in western white pine
PNAS 2004 101: 10107-10112; published online before print June 25 2004, 10.1073/pnas.0401513101 [Abstract] [Full Text] [PDF]

Evolution

R. A. Barton: From The Cover: Binocularity and brain evolution in primates
PNAS 2004 101: 10113-10115; published online before print June 15 2004, 10.1073/pnas.0401955101 [Abstract] [Full Text] [PDF]

Immunology

Simona Sivori, Michela Falco, Mariella Della Chiesa, Simona Carlomagno, Massimo Vitale, Lorenzo Moretta, and Alessandro Moretta: CpG and double-stranded RNA trigger human NK cells by Toll-like receptors: Induction of cytokine release and cytotoxicity against tumors and dendritic cells
PNAS 2004 101: 10116-10121; published online before print June 24 2004, 10.1073/pnas.0403744101 [Abstract] [Full Text] [PDF]

Luis Graca, Alain Le Moine, Chun-Yen Lin, Paul J. Fairchild, Stephen P. Cobbold, and Herman Waldmann: Donor-specific transplantation tolerance: The paradoxical behavior of CD4⁺CD25⁺ T cells
PNAS 2004 101: 10122-10126; published online before print June 24 2004, 10.1073/pnas.0400084101 [Abstract] [Full Text] [PDF] [Supporting Figure]

Misao Matsushita, Akiko Matsushita, Yuichi Endo, Munehiro Nakata, Naoya Kojima, Tsuguo Mizuochi, and Teizo Fujita: Origin of the classical complement pathway: Lamprey orthologue of mammalian C1q acts as a lectin
PNAS 2004 101: 10127-10131; published online before print June 24 2004, 10.1073/pnas.0402180101 [Abstract] [Full Text] [PDF]

Medical Sciences

Atsushi Sanbe, Hanna Osinska, Jeffrey E. Saffitz, Charles G. Glabe, Rakez Kayed, Alina Maloyan, and Jeffrey Robbins: Desmin-related cardiomyopathy in transgenic mice: A cardiac amyloidosis
PNAS 2004 101: 10132-10136; published online before print June 25 2004, 10.1073/pnas.0401900101 [Abstract] [Full Text] [PDF]

Debajit K. Biswas, Qian Shi, Shanon Baily, Ian Strickland, Sankar Ghosh, Arthur B. Pardee, and J. Dirk Iglehart: NF- ${kappa}$ B activation in human breast cancer specimens and its role in cell proliferation and apoptosis
PNAS 2004 101: 10137-10142; published online before print June 25 2004, 10.1073/pnas.0403621101 [Abstract] [Full Text] [PDF] [Supporting Information]

Avrum Spira, Jennifer Beane, Vishal Shah, Gang Liu, Frank Schembri, Xuemei Yang, John Palma, and Jerome S. Brody: Effects of cigarette smoke on the human airway epithelial cell transcriptome
PNAS 2004 101: 10143-10148; published online before print June 21 2004, 10.1073/pnas.0401422101 [Abstract] [Full Text] [PDF] [Supporting Information]

C. Logvinoff, M. E. Major, D. Oldach, S. Heyward, A. Talal, P. Balfe, S. M. Feinstone, H. Alter, C. M. Rice, and J. A. McKeating: Neutralizing antibody response during acute and chronic hepatitis C virus infection
PNAS 2004 101: 10149-10154; published online before print June 25 2004, 10.1073/pnas.0403519101 [Abstract] [Full Text] [PDF]

Holger Thiele, Masahiro Sakano, Hiroshi Kitagawa, Kazuyuki Sugahara, Anna Rajab, Wolfgang Höhne, Heide Ritter, Gundula Leschik, Peter Nürnberg, and Stefan Mundlos: Loss of chondroitin 6-O-sulfotransferase-1 function results in severe human chondrodysplasia with progressive spinal involvement
PNAS 2004 101: 10155-10160; published online before print June 23 2004, 10.1073/pnas.0400334101 [Abstract] [Full Text] [PDF]

Microbiology

Jessica L. Bartlett, Gal Levin, and Paul Blount: An in vivo assay identifies changes in residue accessibility on mechanosensitive channel gating
PNAS 2004 101: 10161-10165; published online before print June 28 2004, 10.1073/pnas.0402040101 [Abstract] [Full Text] [PDF]

D. R. Clifton, K. A. Fields, S. S. Grieshaber, C. A. Dooley, E. R. Fischer, D. J. Mead, R. A. Carabeo, and T. Hackstadt
From The Cover: A chlamydial type III translocated protein is tyrosine-phosphorylated at the site of entry and associated with recruitment of actin
PNAS 2004 101: 10166-10171; published online before print June 15 2004, 10.1073/pnas.0402829101 [Abstract] [Full Text] [PDF] [Supporting Information]
See Commentary on page 9947

Neuroscience

Mark C. Peterman, Jaan Noolandi, Mark S. Blumenkranz, and Harvey A. Fishman: Localized chemical release from an artificial synapse chip
PNAS 2004 101: 9951-9954; published online before print June 24 2004, 10.1073/pnas.0402089101 [Abstract] [Full Text] [PDF]

Xuecai Ge, Frances Hannan, Zuolei Xie, Chunhua Feng, Tim Tully, Haimeng Zhou, Zuoping Xie, and Yi Zhong
Notch signaling in Drosophila long-term memory formation
PNAS 2004 101: 10172-10176; published online before print June 25 2004, 10.1073/pnas.0403497101 [Abstract] [Full Text] [PDF] OPEN ACCESS ARTICLE

Helena Frielingsdorf, Katherine Schwarz, Patrik Brundin, and Paul Mohapel: No evidence for new dopaminergic neurons in the adult mammalian substantia nigra
PNAS 2004 101: 10177-10182; published online before print June 21 2004, 10.1073/pnas.0401229101 [Abstract] [Full Text] [PDF]

E. Palma, D. A. Ragozzino, S. Di Angelantonio, G. Spinelli, F. Trettel, A. Martinez-Torres, G. Torchia, A. Arcella, G. Di Gennaro, P. P. Quarato, V. Esposito, G. Cantore, R. Miledi, and F. Eusebi: Phosphatase inhibitors remove the run-down of ${gamma}$ -aminobutyric acid type A receptors in the human epileptic brain
PNAS 2004 101: 10183-10188; published online before print June 24 2004, 10.1073/pnas.0403683101 [Abstract] [Full Text] [PDF] [Supporting Information]

Daniela Marazziti, Elisabetta Golini, Silvia Mandillo, Armando Magrelli, Walter Witke, Rafaele Matteoni, and Glauco P. Tocchini-Valentini: Altered dopamine signaling and MPTP resistance in mice lacking the Parkinson's disease-associated GPR37/parkin-associated endothelin-like receptor
PNAS 2004 101: 10189-10194; published online before print June 24 2004, 10.1073/pnas.0403661101 [Abstract] [Full Text] [PDF]

David S. Dahan, Mohammed I. Dibas, E. James Petersson, Vincent C. Auyeung, Baron Chanda, Francisco Bezanilla, Dennis A. Dougherty, and Henry A. Lester: A fluorophore attached to nicotinic acetylcholine receptor ${beta}$ M2 detects productive binding of agonist to the ${alpha}$ ${delta}$ site
PNAS 2004 101: 10195-10200; published online before print June 24 2004, 10.1073/pnas.0301885101 [Abstract] [Full Text] [PDF]

Pharmacology

James G. Pfaus, Annette Shadiack, Tanya Van Soest, Maric Tse, and Perry Molinoff: Selective facilitation of sexual solicitation in the female rat by a melanocortin receptor agonist
PNAS 2004 101: 10201-10204; published online before print June 28 2004, 10.1073/pnas.0400491101 [Abstract] [Full Text] [PDF] OPEN ACCESS ARTICLE

Plant Biology

Masami Yokota Hirai, Mitsuru Yano, Dayan B. Goodenowe, Shigehiko Kanaya, Tomoko Kimura, Motoko Awazuhara, Masanori Arita, Toru Fujiwara, and Kazuki Saito: From The Cover: Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana
PNAS 2004 101: 10205-10210; published online before print June 15 2004, 10.1073/pnas.0403218101 [Abstract] [Full Text] [PDF] [Supporting Tables]
See Commentary on page 9949

Chun-Peng Song, Yan Guo, Quansheng Qiu, Georgina Lambert, David W. Galbraith, André Jagendorf, and Jian-Kang Zhu: A probable Na⁺(K⁺)/H⁺ exchanger on the chloroplast envelope functions in pH homeostasis and chloroplast development in Arabidopsis thaliana
PNAS 2004 101: 10211-10216; published online before print June 25 2004, 10.1073/pnas.0403709101 [Abstract] [Full Text] [PDF]

Raka M. Mitra, Sidney L. Shaw, and Sharon R. Long: Six nonnodulating plant mutants defective for Nod factor-induced transcriptional changes associated with the legume-rhizobia symbiosis
PNAS 2004 101: 10217-10222; published online before print June 25 2004, 10.1073/pnas.0402186101 [Abstract] [Full Text] [PDF]

Population Biology

B. S. Cooper, G. F. Medley, S. P. Stone, C. C. Kibbler, B. D. Cookson, J. A. Roberts, G. Duckworth, R. Lai, and S. Ebrahim: Methicillin-resistant Staphylococcus aureus in hospitals and the community: Stealth dynamics and control catastrophes
PNAS 2004 101: 10223-10228; published online before print June 25 2004, 10.1073/pnas.0401324101 [Abstract] [Full Text] [PDF] [Supporting Information]

Nico Stollenwerk, Martin C. J. Maiden, and Vincent A. A. Jansen: Diversity in pathogenicity can cause outbreaks of meningococcal disease
PNAS 2004 101: 10229-10234; published online before print June 24 2004, 10.1073/pnas.0400695101 [Abstract] [Full Text] [PDF]