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Table of Contents

July 25, 2006; vol. 103 no. 30

This Week in PNAS

  • You have access
    In This Issue
    PNAS July 25, 2006 103 (30) 11099-11100; https://doi.org/10.1073/iti3006103

    See companion article:

    • Transgenic mice rich in endogenous omega-3 fatty acids are protected from colitis
      - Jul 17, 2006
    • Development and application of a suite of polysaccharide-degrading enzymes for analyzing plant cell walls
      - Jul 14, 2006
    • Molecular evidence for deep evolutionary roots of bilaterality in animal development
      - Jul 12, 2006
    • Environmental, economic, and energetic costs and benefits of biodiesel and ethanol biofuels
      - Jul 12, 2006
    • Structural basis for targeting HIV-1 Gag proteins to the plasma membrane for virus assembly
      - Jul 13, 2006

Commentary

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    HIV-1 Gag: Flipped out for PI(4,5)P2
    Eric O. Freed
    PNAS July 25, 2006 103 (30) 11101-11102; https://doi.org/10.1073/pnas.0604715103

    See companion article:

    • Structural basis for targeting HIV-1 Gag proteins to the plasma membrane for virus assembly
      - Jul 13, 2006

Physical Sciences

  • Applied Physical Sciences

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      Real-time metabolic imaging
      Klaes Golman, René in ‘t Zandt, and Mikkel Thaning
      PNAS July 25, 2006 103 (30) 11270-11275; https://doi.org/10.1073/pnas.0601319103
  • Geology

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      A stable isotope aridity index for terrestrial environments
      Naomi E. Levin, Thure E. Cerling, Benjamin H. Passey, John M. Harris, and James R. Ehleringer
      PNAS July 25, 2006 103 (30) 11201-11205; https://doi.org/10.1073/pnas.0604719103
  • Mathematics

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      Analysis of a Picard modular group
      Gábor Francsics and Peter D. Lax
      PNAS July 25, 2006 103 (30) 11103-11105; https://doi.org/10.1073/pnas.0603075103
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      Shapes of embedded minimal surfaces
      Tobias H. Colding and William P. Minicozzi II
      PNAS July 25, 2006 103 (30) 11106-11111; https://doi.org/10.1073/pnas.0510379103

Social Sciences

  • Psychology

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      The influence of meaning on the perception of speech sounds
      Nina Kazanina, Colin Phillips, and William Idsardi
      PNAS July 25, 2006 103 (30) 11381-11386; https://doi.org/10.1073/pnas.0604821103
  • Sustainability Science

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      Environmental, economic, and energetic costs and benefits of biodiesel and ethanol biofuels
      • From the Cover
      Jason Hill, Erik Nelson, David Tilman, Stephen Polasky, and Douglas Tiffany
      PNAS July 25, 2006 103 (30) 11206-11210; https://doi.org/10.1073/pnas.0604600103

      See companion article:

      • In This Issue
        - Jul 25, 2006

Biological Sciences

  • Biochemistry

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      Active cytosine demethylation triggered by a nuclear receptor involves DNA strand breaks
      Clémence Kress, Hélène Thomassin, and Thierry Grange
      PNAS July 25, 2006 103 (30) 11112-11117; https://doi.org/10.1073/pnas.0601793103
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      Topoisomerase IIIα and Bloom’s helicase can resolve a mobile double Holliday junction substrate through convergent branch migration
      Jody L. Plank, Jianhong Wu, and Tao-shih Hsieh
      PNAS July 25, 2006 103 (30) 11118-11123; https://doi.org/10.1073/pnas.0604873103
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      The 2.7-Å crystal structure of a 194-kDa homodimeric fragment of the 6-deoxyerythronolide B synthase
      Yinyan Tang, Chu-Young Kim, Irimpan I. Mathews, David E. Cane, and Chaitan Khosla
      PNAS July 25, 2006 103 (30) 11124-11129; https://doi.org/10.1073/pnas.0601924103
  • Biophysics

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      A two-dimensional view of the folding energy landscape of cytochrome c
      James H. Werner, Raymond Joggerst, R. Brian Dyer, and Peter M. Goodwin
      PNAS July 25, 2006 103 (30) 11130-11135; https://doi.org/10.1073/pnas.0604712103
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      Single-molecule dynamics of phytochrome-bound fluorophores probed by fluorescence correlation spectroscopy
      Abigail E. Miller, Amanda J. Fischer, Ted Laurence, Christopher W. Hollars, Richard J. Saykally, J. Clark Lagarias, and Thomas Huser
      PNAS July 25, 2006 103 (30) 11136-11141; https://doi.org/10.1073/pnas.0604724103
  • Cell Biology

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      A global topology map of the Saccharomyces cerevisiae membrane proteome
      Hyun Kim, Karin Melén, Marie Österberg, and Gunnar von Heijne
      PNAS July 25, 2006 103 (30) 11142-11147; https://doi.org/10.1073/pnas.0604075103
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      Phenotypic effects of membrane protein overexpression in Saccharomyces cerevisiae
      Marie Österberg, Hyun Kim, Jonas Warringer, Karin Melén, Anders Blomberg, and Gunnar von Heijne
      PNAS July 25, 2006 103 (30) 11148-11153; https://doi.org/10.1073/pnas.0604078103
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      Ovarian cancer side population defines cells with stem cell-like characteristics and Mullerian Inhibiting Substance responsiveness
      Paul P. Szotek, Rafael Pieretti-Vanmarcke, Peter T. Masiakos, Daniela M. Dinulescu, Denise Connolly, Rosemary Foster, David Dombkowski, Frederic Preffer, David T. MacLaughlin, and Patricia K. Donahoe
      PNAS July 25, 2006 103 (30) 11154-11159; https://doi.org/10.1073/pnas.0603672103
    • You have access
      MAGE-A tumor antigens target p53 transactivation function through histone deacetylase recruitment and confer resistance to chemotherapeutic agents
      Martin Monte, Marta Simonatto, Leticia Y. Peche, Debora R. Bublik, Stefania Gobessi, Marco A. Pierotti, Monica Rodolfo, and Claudio Schneider
      PNAS July 25, 2006 103 (30) 11160-11165; https://doi.org/10.1073/pnas.0510834103
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      Biophysical model of self-organized spindle formation patterns without centrosomes and kinetochores
      Stuart C. Schaffner and Jorge V. José
      PNAS July 25, 2006 103 (30) 11166-11171; https://doi.org/10.1073/pnas.0604721103
    • You have access
      Alzheimer's disease β-amyloid peptides are released in association with exosomes
      Lawrence Rajendran, Masanori Honsho, Tobias R. Zahn, Patrick Keller, Kathrin D. Geiger, Paul Verkade, and Kai Simons
      PNAS July 25, 2006 103 (30) 11172-11177; https://doi.org/10.1073/pnas.0603838103
    • Open Access
      An amphipathic helix targets serum and glucocorticoid-induced kinase 1 to the endoplasmic reticulum-associated ubiquitin-conjugation machinery
      Maria Francisca Arteaga, Lin Wang, Tommer Ravid, Mark Hochstrasser, and Cecilia M. Canessa
      PNAS July 25, 2006 103 (30) 11178-11183; https://doi.org/10.1073/pnas.0604816103
  • Developmental Biology

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      Influence of sex chromosome constitution on the genomic imprinting of germ cells
      Gabriela Durcova-Hills, Petra Hajkova, Stephen Sullivan, Sheila Barton, M. Azim Surani, and Anne McLaren
      PNAS July 25, 2006 103 (30) 11184-11188; https://doi.org/10.1073/pnas.0602621103
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      A threshold of GATA4 and GATA6 expression is required for cardiovascular development
      Mei Xin, Christopher A. Davis, Jeffery D. Molkentin, Ching-Ling Lien, Stephen A. Duncan, James A. Richardson, and Eric N. Olson
      PNAS July 25, 2006 103 (30) 11189-11194; https://doi.org/10.1073/pnas.0604604103
    • You have access
      Molecular evidence for deep evolutionary roots of bilaterality in animal development
      • From the Cover
      David Q. Matus, Kevin Pang, Heather Marlow, Casey W. Dunn, Gerald H. Thomsen, and Mark Q. Martindale
      PNAS July 25, 2006 103 (30) 11195-11200; https://doi.org/10.1073/pnas.0601257103

      See companion article:

      • In This Issue
        - Jul 25, 2006
  • Ecology

    • You have access
      A stable isotope aridity index for terrestrial environments
      Naomi E. Levin, Thure E. Cerling, Benjamin H. Passey, John M. Harris, and James R. Ehleringer
      PNAS July 25, 2006 103 (30) 11201-11205; https://doi.org/10.1073/pnas.0604719103
    • You have access
      Environmental, economic, and energetic costs and benefits of biodiesel and ethanol biofuels
      • From the Cover
      Jason Hill, Erik Nelson, David Tilman, Stephen Polasky, and Douglas Tiffany
      PNAS July 25, 2006 103 (30) 11206-11210; https://doi.org/10.1073/pnas.0604600103

      See companion article:

      • In This Issue
        - Jul 25, 2006
    • Open Access
      Parasites dominate food web links
      Kevin D. Lafferty, Andrew P. Dobson, and Armand M. Kuris
      PNAS July 25, 2006 103 (30) 11211-11216; https://doi.org/10.1073/pnas.0604755103
  • Environmental Sciences

    • Open Access
      Extreme heat reduces and shifts United States premium wine production in the 21st century
      M. A. White, N. S. Diffenbaugh, G. V. Jones, J. S. Pal, and F. Giorgi
      PNAS July 25, 2006 103 (30) 11217-11222; https://doi.org/10.1073/pnas.0603230103
  • Evolution

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      Rapid Asia–Europe–North America geographic dispersal of earliest Eocene primate Teilhardina during the Paleocene–Eocene Thermal Maximum
      Thierry Smith, Kenneth D. Rose, and Philip D. Gingerich
      PNAS July 25, 2006 103 (30) 11223-11227; https://doi.org/10.1073/pnas.0511296103
    • Open Access
      Adaptive evolution by mutations in the FLO11 gene
      Manuel Fidalgo, Ramon R. Barrales, Jose I. Ibeas, and Juan Jimenez
      PNAS July 25, 2006 103 (30) 11228-11233; https://doi.org/10.1073/pnas.0601713103
  • Genetics

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      Mouse genomic representational oligonucleotide microarray analysis: Detection of copy number variations in normal and tumor specimens
      B. Lakshmi, Ira M. Hall, Christopher Egan, Joan Alexander, Anthony Leotta, John Healy, Lars Zender, Mona S. Spector, Wen Xue, Scott W. Lowe, Michael Wigler, and Robert Lucito
      PNAS July 25, 2006 103 (30) 11234-11239; https://doi.org/10.1073/pnas.0602984103
    • Open Access
      A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes
      Susanne M. D. Goldberg, Justin Johnson, Dana Busam, Tamara Feldblyum, Steve Ferriera, Robert Friedman, Aaron Halpern, Hoda Khouri, Saul A. Kravitz, Federico M. Lauro, Kelvin Li, Yu-Hui Rogers, Robert Strausberg, Granger Sutton, Luke Tallon, Torsten Thomas, Eli Venter, Marvin Frazier, and J. Craig Venter
      PNAS July 25, 2006 103 (30) 11240-11245; https://doi.org/10.1073/pnas.0604351103
    • Open Access
      Heritable and stable gene knockdown in rats
      Christina Tenenhaus Dann, Alma L. Alvarado, Robert E. Hammer, and David L. Garbers
      PNAS July 25, 2006 103 (30) 11246-11251; https://doi.org/10.1073/pnas.0604657103
  • Immunology

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      Glycolipid α-C-galactosylceramide is a distinct inducer of dendritic cell function during innate and adaptive immune responses of mice
      Shin-ichiro Fujii, Kanako Shimizu, Hiroaki Hemmi, Mikiko Fukui, Anthony J. Bonito, Guangwu Chen, Richard W. Franck, Moriya Tsuji, and Ralph M. Steinman
      PNAS July 25, 2006 103 (30) 11252-11257; https://doi.org/10.1073/pnas.0604812103
    • You have access
      Transfer of NKG2D and MICB at the cytotoxic NK cell immune synapse correlates with a reduction in NK cell cytotoxic function
      Pedro Roda-Navarro, Mar Vales-Gomez, Susan E. Chisholm, and Hugh T. Reyburn
      PNAS July 25, 2006 103 (30) 11258-11263; https://doi.org/10.1073/pnas.0600721103
    • Open Access
      Consequences of receptor editing at the λ locus: Multireactivity and light chain secretion
      Colleen M. Doyle, Jiong Han, Martin G. Weigert, and Eline T. Luning Prak
      PNAS July 25, 2006 103 (30) 11264-11269; https://doi.org/10.1073/pnas.0604053103
  • Medical Sciences

    • You have access
      Real-time metabolic imaging
      Klaes Golman, René in ‘t Zandt, and Mikkel Thaning
      PNAS July 25, 2006 103 (30) 11270-11275; https://doi.org/10.1073/pnas.0601319103
    • You have access
      Transgenic mice rich in endogenous omega-3 fatty acids are protected from colitis
      Christian A. Hudert, Karsten H. Weylandt, Yan Lu, Jingdong Wang, Song Hong, Axel Dignass, Charles N. Serhan, and Jing X. Kang
      PNAS July 25, 2006 103 (30) 11276-11281; https://doi.org/10.1073/pnas.0601280103

      See companion article:

      • In This Issue
        - Jul 25, 2006
    • Open Access
      Drusen, choroidal neovascularization, and retinal pigment epithelium dysfunction in SOD1-deficient mice: A model of age-related macular degeneration
      Yutaka Imamura, Setsuko Noda, Kouhei Hashizume, Kei Shinoda, Mineko Yamaguchi, Satoshi Uchiyama, Takahiko Shimizu, Yutaka Mizushima, Takuji Shirasawa, and Kazuo Tsubota
      PNAS July 25, 2006 103 (30) 11282-11287; https://doi.org/10.1073/pnas.0602131103
    • Open Access
      A polymorphism within a conserved β1-adrenergic receptor motif alters cardiac function and β-blocker response in human heart failure
      Stephen B. Liggett, Jeanne Mialet-Perez, Surai Thaneemit-Chen, Stewart A. Weber, Scott M. Greene, Danielle Hodne, Bradley Nelson, Jennifer Morrison, Michael J. Domanski, Lynne E. Wagoner, William T. Abraham, Jeffrey L. Anderson, John F. Carlquist, Heidi J. Krause-Steinrauf, Laura C. Lazzeroni, J. David Port, Philip W. Lavori, and Michael R. Bristow
      PNAS July 25, 2006 103 (30) 11288-11293; https://doi.org/10.1073/pnas.0509937103
    • You have access
      Noninvasive imaging of islet grafts using positron-emission tomography
      Yuxin Lu, Hoa Dang, Blake Middleton, Zesong Zhang, Lorraine Washburn, David B. Stout, Martha Campbell-Thompson, Mark A. Atkinson, Michael Phelps, Sanjiv Sam Gambhir, Jide Tian, and Daniel L. Kaufman
      PNAS July 25, 2006 103 (30) 11294-11299; https://doi.org/10.1073/pnas.0603909103
    • You have access
      Antioxidants reduce cone cell death in a model of retinitis pigmentosa
      Keiichi Komeima, Brian S. Rogers, Lili Lu, and Peter A. Campochiaro
      PNAS July 25, 2006 103 (30) 11300-11305; https://doi.org/10.1073/pnas.0604056103
    • You have access
      Genes and pathways downstream of telomerase in melanoma metastasis
      Sepideh Bagheri, Mehdi Nosrati, Shang Li, Sylvia Fong, Sima Torabian, Javier Rangel, Dan H. Moore, Scot Federman, Rebecca R. LaPosa, Frederick L. Baehner, Richard W. Sagebiel, James E. Cleaver, Christopher Haqq, Robert J. Debs, Elizabeth H. Blackburn, and Mohammed Kashani-Sabet
      PNAS July 25, 2006 103 (30) 11306-11311; https://doi.org/10.1073/pnas.0510085103
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      Human prions and plasma lipoproteins
      Jiri G. Safar, Holger Wille, Michael D. Geschwind, Camille Deering, Diane Latawiec, Ana Serban, David J. King, Giuseppe Legname, Karl H. Weisgraber, Robert W. Mahley, Bruce L. Miller, Stephen J. DeArmond, and Stanley B. Prusiner
      PNAS July 25, 2006 103 (30) 11312-11317; https://doi.org/10.1073/pnas.0604021103
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      Hsp90 inhibition transiently activates Src kinase and promotes Src-dependent Akt and Erk activation
      Fumitaka Koga, Wanping Xu, Tatiana S. Karpova, James G. McNally, Roland Baron, and Len Neckers
      PNAS July 25, 2006 103 (30) 11318-11322; https://doi.org/10.1073/pnas.0604705103
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      Benefit of farnesoid X receptor inhibition in obstructive cholestasis
      Catherine Stedman, Christopher Liddle, Sally Coulter, Junichiro Sonoda, Jacqueline G. Alvarez, Ronald M. Evans, and Michael Downes
      PNAS July 25, 2006 103 (30) 11323-11328; https://doi.org/10.1073/pnas.0604772103
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      Utilization of host SR protein kinases and RNA-splicing machinery during viral replication
      Takeshi Fukuhara, Takamitsu Hosoya, Saki Shimizu, Kengo Sumi, Takako Oshiro, Yoshiyuki Yoshinaka, Masaaki Suzuki, Naoki Yamamoto, Leonore A. Herzenberg, Leonard A. Herzenberg, and Masatoshi Hagiwara
      PNAS July 25, 2006 103 (30) 11329-11333; https://doi.org/10.1073/pnas.0604616103
  • Microbiology

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      Regulation of intracellular free calcium concentration during heterocyst differentiation by HetR and NtcA in Anabaena sp. PCC 7120
      Yunming Shi, Weixing Zhao, Wei Zhang, Zi Ye, and Jindong Zhao
      PNAS July 25, 2006 103 (30) 11334-11339; https://doi.org/10.1073/pnas.0602839103
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      Regulatory protein that inhibits both synthesis and use of the target protein controls flagellar phase variation in Salmonella enterica
      Phillip D. Aldridge, Cheng Wu, Joshua Gnerer, Joyce E. Karlinsey, Kelly T. Hughes, and Matthew S. Sachs
      PNAS July 25, 2006 103 (30) 11340-11345; https://doi.org/10.1073/pnas.0602127103
    • Open Access
      Dissecting virulence pathways of Mycobacterium tuberculosis through protein–protein association
      Amit Singh, Deborah Mai, Ashwani Kumar, and Adrie J. C. Steyn
      PNAS July 25, 2006 103 (30) 11346-11351; https://doi.org/10.1073/pnas.0602817103
    • You have access
      Distinguishing features of δ-proteobacterial genomes
      Samuel Karlin, Luciano Brocchieri, Jan Mrázek, and Dale Kaiser
      PNAS July 25, 2006 103 (30) 11352-11357; https://doi.org/10.1073/pnas.0604311103
    • Open Access
      Electrically conductive bacterial nanowires produced by Shewanella oneidensis strain MR-1 and other microorganisms
      Yuri A. Gorby, Svetlana Yanina, Jeffrey S. McLean, Kevin M. Rosso, Dianne Moyles, Alice Dohnalkova, Terry J. Beveridge, In Seop Chang, Byung Hong Kim, Kyung Shik Kim, David E. Culley, Samantha B. Reed, Margaret F. Romine, Daad A. Saffarini, Eric A. Hill, Liang Shi, Dwayne A. Elias, David W. Kennedy, Grigoriy Pinchuk, Kazuya Watanabe, Shun’ichi Ishii, Bruce Logan, Kenneth H. Nealson, and Jim K. Fredrickson
      PNAS July 25, 2006 103 (30) 11358-11363; https://doi.org/10.1073/pnas.0604517103
    • You have access
      Structural basis for targeting HIV-1 Gag proteins to the plasma membrane for virus assembly
      • From the Cover
      Jamil S. Saad, Jaime Miller, Janet Tai, Andrew Kim, Ruba H. Ghanam, and Michael F. Summers
      PNAS July 25, 2006 103 (30) 11364-11369; https://doi.org/10.1073/pnas.0602818103

      See companion article:

      • In This Issue
        - Jul 25, 2006
      • HIV-1 Gag: Flipped out for PI(4,5)P2
        - Jul 17, 2006
  • Neuroscience

    • Open Access
      A form of motor cortical plasticity that correlates with recovery of function after brain injury
      Dhakshin Ramanathan, James M. Conner, and Mark H. Tuszynski
      PNAS July 25, 2006 103 (30) 11370-11375; https://doi.org/10.1073/pnas.0601065103
    • You have access
      Acid-sensitive ionic channels in midbrain dopamine neurons are sensitive to ammonium, which may contribute to hyperammonemia damage
      Volodymyr I. Pidoplichko and John A. Dani
      PNAS July 25, 2006 103 (30) 11376-11380; https://doi.org/10.1073/pnas.0600768103
    • You have access
      The influence of meaning on the perception of speech sounds
      Nina Kazanina, Colin Phillips, and William Idsardi
      PNAS July 25, 2006 103 (30) 11381-11386; https://doi.org/10.1073/pnas.0604821103
    • You have access
      Cortical systems mediating visual attention to both objects and spatial locations
      Sarah Shomstein and Marlene Behrmann
      PNAS July 25, 2006 103 (30) 11387-11392; https://doi.org/10.1073/pnas.0601813103
    • Open Access
      The cannabinoid WIN 55,212-2 inhibits transient receptor potential vanilloid 1 (TRPV1) and evokes peripheral antihyperalgesia via calcineurin
      Amol M. Patwardhan, Nathaniel A. Jeske, Theodore J. Price, Nikita Gamper, Armen N. Akopian, and Kenneth M. Hargreaves
      PNAS July 25, 2006 103 (30) 11393-11398; https://doi.org/10.1073/pnas.0603861103
    • Open Access
      Factors regulating the abundance and localization of synaptobrevin in the plasma membrane
      Jeremy S. Dittman and Joshua M. Kaplan
      PNAS July 25, 2006 103 (30) 11399-11404; https://doi.org/10.1073/pnas.0600784103
  • Physiology

    • You have access
      Nonvascular VEGF receptor 3 expression by corneal epithelium maintains avascularity and vision
      Claus Cursiefen, Lu Chen, Magali Saint-Geniez, Pedram Hamrah, Yiping Jin, Saadia Rashid, Bronislaw Pytowski, Kris Persaud, Yan Wu, J. Wayne Streilein, and Reza Dana
      PNAS July 25, 2006 103 (30) 11405-11410; https://doi.org/10.1073/pnas.0506112103
    • You have access
      Barttin modulates trafficking and function of ClC-K channels
      Ute Scholl, Simon Hebeisen, Audrey G. H. Janssen, Gerhard Müller-Newen, Alexi Alekov, and Christoph Fahlke
      PNAS July 25, 2006 103 (30) 11411-11416; https://doi.org/10.1073/pnas.0601631103
  • Plant Biology

    • You have access
      Development and application of a suite of polysaccharide-degrading enzymes for analyzing plant cell walls
      • From the Cover
      Stefan Bauer, Prasanna Vasu, Staffan Persson, Andrew J. Mort, and Chris R. Somerville
      PNAS July 25, 2006 103 (30) 11417-11422; https://doi.org/10.1073/pnas.0604632103

      See companion article:

      • In This Issue
        - Jul 25, 2006
  • Population Biology

    • Open Access
      Globalization and the population structure of Toxoplasma gondii
      • From the Cover
      Tovi Lehmann, Paula L. Marcet, Doug H. Graham, Erica R. Dahl, and J. P. Dubey
      PNAS July 25, 2006 103 (30) 11423-11428; https://doi.org/10.1073/pnas.0601438103
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