| | This journal provides immediate access to some articles. This Week in PNAS Proc Natl Acad Sci U S A. 2007 September 4; 104(36): 14175–14176. doi: 10.1073/iti3607104.PMCID: PMC1964839 Commentary Feeling the heat: Ground squirrels heat their tails to discourage rattlesnake attack Daniel T. Blumstein PMCID: PMC1964846 Profile Profile of Richard P. Novick Melissa Marino PMCID: PMC1964851 Multidimensional Ultrafast Spectroscopy Special Feature Introduction Multidimensional ultrafast spectroscopy Robin M. Hochstrasser PMCID: PMC1964836 Research Articles Automated 2D IR spectroscopy using a mid-IR pulse shaper and application of this technology to the human islet amyloid polypeptide Sang-Hee Shim, David B. Strasfeld, Yun L. Ling, and Martin T. Zanni PMCID: PMC1964818 Cross-peak-specific two-dimensional electronic spectroscopy Elizabeth L. Read, Gregory S. Engel, Tessa R. Calhoun, Tomáš Mančal, Tae Kyu Ahn, Robert E. Blankenship, and Graham R. Fleming PMCID: PMC1964816 A relaxation-assisted 2D IR spectroscopy method Dmitry V. Kurochkin, Sri Ram G. Naraharisetty, and Igor V. Rubtsov PMCID: PMC1964833 Hydrogen bonding and Raman, IR, and 2D-IR spectroscopy of dilute HOD in liquid D2O B. Auer, R. Kumar, J. R. Schmidt, and J. L. Skinner PMCID: PMC1964876 Dynamics around solutes and solute–solvent complexes in mixed solvents Kyungwon Kwak, Sungnam Park, and M. D. Fayer PMCID: PMC1964852 Polarization-dependent optical 2D Fourier transform spectroscopy of semiconductors Tianhao Zhang, Irina Kuznetsova, Torsten Meier, Xiaoqin Li, Richard P. Mirin, Peter Thomas, and Steven T. Cundiff PMCID: PMC1964869 Simulation of two-dimensional infrared spectroscopy of amyloid fibrils Wei Zhuang, Darius Abramavicius, Dimitrii V. Voronine, and Shaul Mukamel PMCID: PMC1964843 Transient 2D IR spectroscopy of ubiquitin unfolding dynamics Hoi Sung Chung, Ziad Ganim, Kevin C. Jones, and Andrei Tokmakoff PMCID: PMC1964855 Protein ligand migration mapped by nonequilibrium 2D-IR exchange spectroscopy Jens Bredenbeck, Jan Helbing, Karin Nienhaus, G. Ulrich Nienhaus, and Peter Hamm PMCID: PMC1964829 Perspective From the Cover: Multidimensional Ultrafast Spectroscopy Special Feature:
Two-dimensional spectroscopy at infrared and optical frequencies Robin M. Hochstrasser PMCID: PMC1964834 Physical Sciences Chemistry Automated 2D IR spectroscopy using a mid-IR pulse shaper and application of this technology to the human islet amyloid polypeptide Sang-Hee Shim, David B. Strasfeld, Yun L. Ling, and Martin T. Zanni PMCID: PMC1964818 Cross-peak-specific two-dimensional electronic spectroscopy Elizabeth L. Read, Gregory S. Engel, Tessa R. Calhoun, Tomáš Mančal, Tae Kyu Ahn, Robert E. Blankenship, and Graham R. Fleming PMCID: PMC1964816 A relaxation-assisted 2D IR spectroscopy method Dmitry V. Kurochkin, Sri Ram G. Naraharisetty, and Igor V. Rubtsov PMCID: PMC1964833 Hydrogen bonding and Raman, IR, and 2D-IR spectroscopy of dilute HOD in liquid D2O B. Auer, R. Kumar, J. R. Schmidt, and J. L. Skinner PMCID: PMC1964876 Dynamics around solutes and solute–solvent complexes in mixed solvents Kyungwon Kwak, Sungnam Park, and M. D. Fayer PMCID: PMC1964852 Simulation of two-dimensional infrared spectroscopy of amyloid fibrils Wei Zhuang, Darius Abramavicius, Dimitrii V. Voronine, and Shaul Mukamel PMCID: PMC1964843 Transient 2D IR spectroscopy of ubiquitin unfolding dynamics Hoi Sung Chung, Ziad Ganim, Kevin C. Jones, and Andrei Tokmakoff PMCID: PMC1964855 Evidence for a diffusion-controlled mechanism for fluorescence blinking of colloidal quantum dots Matthew Pelton, Glenna Smith, Norbert F. Scherer, and Rudolph A. Marcus PMCID: PMC1964845 Tracing electronic pathways in molecules by using inelastic tunneling spectroscopy Alessandro Troisi, Jeremy M. Beebe, Laura B. Picraux, Roger D. van Zee, Duncan R. Stewart, Mark A. Ratner, and James G. Kushmerick PMCID: PMC1964821 Engineering From the Cover:
A modular and extensible RNA-based gene-regulatory platform for engineering cellular function Maung Nyan Win and Christina D. Smolke PMCID: PMC1964840 Geology Molecular evidence of Late Archean archaea and the presence of a subsurface hydrothermal biosphere Gregory T. Ventura, Fabien Kenig, Christopher M. Reddy, Juergen Schieber, Glenn S. Frysinger, Robert K. Nelson, Etienne Dinel, Richard B. Gaines, and Philippe Schaeffer PMCID: PMC1964827 Geophysics Time variability in Cenozoic reconstructions of mantle heat flow: Plate tectonic cycles and implications for Earth's thermal evolution S. J. Loyd, T. W. Becker, C. P. Conrad, C. Lithgow-Bertelloni, and F. A. Corsetti PMCID: PMC1964844 Physics Polarization-dependent optical 2D Fourier transform spectroscopy of semiconductors Tianhao Zhang, Irina Kuznetsova, Torsten Meier, Xiaoqin Li, Richard P. Mirin, Peter Thomas, and Steven T. Cundiff PMCID: PMC1964869 Sustainability Science-PS Development at the wildland–urban interface and the mitigation of forest-fire risk Vassilis Spyratos, Patrick S. Bourgeron, and Michael Ghil PMCID: PMC1950891 Biological Sciences Applied Biological Sciences From the Cover:
A modular and extensible RNA-based gene-regulatory platform for engineering cellular function Maung Nyan Win and Christina D. Smolke PMCID: PMC1964840 Effects of light on development of mammalian zygotes Manami Takenaka, Toshitaka Horiuchi, and Ryuzo Yanagimachi PMCID: PMC1964859 Biochemistry Proteome-wide identification of family member-specific natural substrate repertoire of caspases Wujian Ju, C. Alexander Valencia, Hao Pang, Yan Ke, Weiyi Gao, Biao Dong, and Rihe Liu PMCID: PMC1958819 Phycobilin:cystein-84 biliprotein lyase, a near-universal lyase for cysteine-84-binding sites in cyanobacterial phycobiliproteins Kai-Hong Zhao, Ping Su, Jun-Ming Tu, Xing Wang, Hui Liu, Matthias Plöscher, Lutz Eichacker, Bei Yang, Ming Zhou, and Hugo Scheer PMCID: PMC1955460 Gαi generates multiple Pins activation states to link cortical polarity and spindle orientation in Drosophila neuroblasts Rick W. Nipper, Karsten H. Siller, Nicholas R. Smith, Chris Q. Doe, and Kenneth E. Prehoda PMCID: PMC1964812 Structure of the Cyclin T binding domain of Hexim1 and molecular basis for its recognition of P-TEFb Sonja A. Dames, André Schönichen, Antje Schulte, Matjaz Barboric, B. Matija Peterlin, Stephan Grzesiek, and Matthias Geyer PMCID: PMC1955226 A metabolic pathway leading to mannosylfructose biosynthesis in Agrobacterium tumefaciens uncovers a family of mannosyltransferases Leticia L. Torres and Graciela L. Salerno PMCID: PMC1964871 Enhanced subunit interactions with gemcitabine-5′-diphosphate inhibit ribonucleotide reductases Jun Wang, Gregory J. S. Lohman, and JoAnne Stubbe PMCID: PMC1964847 Identification of membrane proteins by tandem mass spectrometry of protein ions Joe Carroll, Matthew C. Altman, Ian M. Fearnley, and John E. Walker PMCID: PMC1952138 Biophysics Automated 2D IR spectroscopy using a mid-IR pulse shaper and application of this technology to the human islet amyloid polypeptide Sang-Hee Shim, David B. Strasfeld, Yun L. Ling, and Martin T. Zanni PMCID: PMC1964818 Cross-peak-specific two-dimensional electronic spectroscopy Elizabeth L. Read, Gregory S. Engel, Tessa R. Calhoun, Tomáš Mančal, Tae Kyu Ahn, Robert E. Blankenship, and Graham R. Fleming PMCID: PMC1964816 Simulation of two-dimensional infrared spectroscopy of amyloid fibrils Wei Zhuang, Darius Abramavicius, Dimitrii V. Voronine, and Shaul Mukamel PMCID: PMC1964843 Transient 2D IR spectroscopy of ubiquitin unfolding dynamics Hoi Sung Chung, Ziad Ganim, Kevin C. Jones, and Andrei Tokmakoff PMCID: PMC1964855 Protein ligand migration mapped by nonequilibrium 2D-IR exchange spectroscopy Jens Bredenbeck, Jan Helbing, Karin Nienhaus, G. Ulrich Nienhaus, and Peter Hamm PMCID: PMC1964829 Conformational instability of the MARK3 UBA domain compromises ubiquitin recognition and promotes interaction with the adjacent kinase domain James M. Murphy, Dmitry M. Korzhnev, Derek F. Ceccarelli, Douglas J. Briant, Arash Zarrine-Afsar, Frank Sicheri, Lewis E. Kay, and Tony Pawson PMCID: PMC1964837 MitoNEET is a uniquely folded 2Fe–2S outer mitochondrial membrane protein stabilized by pioglitazone Mark L. Paddock, Sandra E. Wiley, Herbert L. Axelrod, Aina E. Cohen, Melinda Roy, Edward C. Abresch, Dominique Capraro, Anne N. Murphy, Rachel Nechushtai, Jack E. Dixon, and Patricia A. Jennings PMCID: PMC1963346 Cell Biology Spatial regulation of Raf kinase signaling by RKTG Lin Feng, Xiaoduo Xie, Qiurong Ding, Xiaolin Luo, Jing He, Fengjuan Fan, Weizhong Liu, Zhenzhen Wang, and Yan Chen PMCID: PMC1964828 Negative feedback regulation of Rac in leukocytes from mice expressing a constitutively active phosphatidylinositol 3-kinase γ Carlotta Costa, Laura Barberis, Chiara Ambrogio, Andrea D. Manazza, Enrico Patrucco, Ornella Azzolino, Paul O. Neilsen, Elisa Ciraolo, Fiorella Altruda, Glenn D. Prestwich, Roberto Chiarle, Matthias Wymann, Anne Ridley, and Emilio Hirsch PMCID: PMC1952139 An extracellular region of the erythropoietin receptor of the subterranean blind mole rat Spalax enhances receptor maturation Orly Ravid, Imad Shams, Nathalie Ben Califa, Eviatar Nevo, Aaron Avivi, and Drorit Neumann PMCID: PMC1964849 Developmental Biology Lsh controls Hox gene silencing during development Sichuan Xi, Heming Zhu, Hong Xu, Anja Schmidtmann, Theresa M. Geiman, and Kathrin Muegge PMCID: PMC1955459 Ecology From the Cover:
Ground squirrels use an infrared signal to deter rattlesnake predation Aaron S. Rundus, Donald H. Owings, Sanjay S. Joshi, Erin Chinn, and Nicolas Giannini PMCID: PMC1950100 Risky prey behavior evolves in risky habitats Mark C. Urban PMCID: PMC1964820 A honey bee odorant receptor for the queen substance 9-oxo-2-decenoic acid Kevin W. Wanner, Andrew S. Nichols, Kimberly K. O. Walden, Axel Brockmann, Charles W. Luetje, and Hugh M. Robertson PMCID: PMC1964862 Evolution Molecular evidence of Late Archean archaea and the presence of a subsurface hydrothermal biosphere Gregory T. Ventura, Fabien Kenig, Christopher M. Reddy, Juergen Schieber, Glenn S. Frysinger, Robert K. Nelson, Etienne Dinel, Richard B. Gaines, and Philippe Schaeffer PMCID: PMC1964827 Serendipitous backyard hybridization and the origin of crops Colin E. Hughes, Rajanikanth Govindarajulu, Ashley Robertson, Denis L. Filer, Stephen A. Harris, and C. Donovan Bailey PMCID: PMC1964811 Genomics, biogeography, and the diversification of placental mammals Derek E. Wildman, Monica Uddin, Juan C. Opazo, Guozhen Liu, Vincent Lefort, Stephane Guindon, Olivier Gascuel, Lawrence I. Grossman, Roberto Romero, and Morris Goodman PMCID: PMC1958817 Ancient bacteria show evidence of DNA repair Sarah Stewart Johnson, Martin B. Hebsgaard, Torben R. Christensen, Mikhail Mastepanov, Rasmus Nielsen, Kasper Munch, Tina Brand, M. Thomas P. Gilbert, Maria T. Zuber, Michael Bunce, Regin Rønn, David Gilichinsky, Duane Froese, and Eske Willerslev PMCID: PMC1958816 Genetics Large-scale, saturating insertional mutagenesis of the mouse genome Alexander Gragerov, Kyoji Horie, Maria Pavlova, Linda Madisen, Hongkui Zeng, Galina Gragerova, Alex Rhode, Io Dolka, Patricia Roth, Amanda Ebbert, Stephanie Moe, Christopher Navas, Eric Finn, John Bergmann, Demetrios K. Vassilatis, George N. Pavlakis, and George A. Gaitanaris PMCID: PMC1964832 Aryl hydrocarbon receptor nuclear translocator-like (BMAL1) is associated with susceptibility to hypertension and type 2 diabetes Peng Y. Woon, Pamela J. Kaisaki, José Bragança, Marie-Thérèse Bihoreau, Jonathan C. Levy, Martin Farrall, and Dominique Gauguier PMCID: PMC1958818 Immunology T cell activation requires mitochondrial translocation to the immunological synapse Ariel Quintana, Christian Schwindling, Anna S. Wenning, Ute Becherer, Jens Rettig, Eva C. Schwarz, and Markus Hoth PMCID: PMC1964825 Medical Sciences Analysis of potential transcriptomic biomarkers for Huntington's disease in peripheral blood Heike Runne, Alexandre Kuhn, Edward J. Wild, Wirahpati Pratyaksha, Mark Kristiansen, Jeremy D. Isaacs, Etienne Régulier, Mauro Delorenzi, Sarah J. Tabrizi, and Ruth Luthi-Carter PMCID: PMC1964868 Inhibition of the leucine-rich repeat protein LINGO-1 enhances survival, structure, and function of dopaminergic neurons in Parkinson's disease models Haruhisa Inoue, Ling Lin, Xinhua Lee, Zhaohui Shao, Shannon Mendes, Pamela Snodgrass-Belt, Harry Sweigard, Tom Engber, Blake Pepinsky, Lichuan Yang, M. Flint Beal, Sha Mi, and Ole Isacson PMCID: PMC1955463 CD200 and its receptor, CD200R, modulate bone mass via the differentiation of osteoclasts Weiguo Cui, Esteban Cuartas, Juan Ke, Qing Zhang, Halldor B. Einarsson, Jonathon D. Sedgwick, Jun Li, and Agnès Vignery PMCID: PMC1955461 ALL1 fusion proteins induce deregulation of EphA7 and ERK phosphorylation in human acute leukemias Hiroshi Nakanishi, Tatsuya Nakamura, Eli Canaani, and Carlo M. Croce PMCID: PMC1964835 Role of VEGF in maintaining renal structure and function under normotensive and hypertensive conditions Andrew Advani, Darren J. Kelly, Suzanne L. Advani, Alison J. Cox, Kerri Thai, Yuan Zhang, Kathryn E. White, Renae M. Gow, Sally M. Marshall, Brent M. Steer, Philip A. Marsden, P. Elizabeth Rakoczy, and Richard E. Gilbert PMCID: PMC1964850 Breaking up the correlation between efficacy and toxicity for nonviral gene delivery Miriam Breunig, Uta Lungwitz, Renate Liebl, and Achim Goepferich PMCID: PMC1964826 Reprogramming of keratin biosynthesis by sulforaphane restores skin integrity in epidermolysis bullosa simplex Michelle L. Kerns, Daryle DePianto, Albena T. Dinkova-Kostova, Paul Talalay, and Pierre A. Coulombe PMCID: PMC1964870 Sonic hedgehog-induced type 3 deiodinase blocks thyroid hormone action enhancing proliferation of normal and malignant keratinocytes Monica Dentice, Cristina Luongo, Stephen Huang, Raffaele Ambrosio, Antonia Elefante, Delphine Mirebeau-Prunier, Ann Marie Zavacki, Gianfranco Fenzi, Marina Grachtchouk, Mark Hutchin, Andrzej A. Dlugosz, Antonio C. Bianco, Caterina Missero, P. Reed Larsen, and Domenico Salvatore PMCID: PMC1964817 Transcriptome-wide analysis of blood vessels laser captured from human skin and chronic wound-edge tissue Sashwati Roy, Darshan Patel, Savita Khanna, Gayle M. Gordillo, Sabyasachi Biswas, Avner Friedman, and Chandan K. Sen PMCID: PMC1964861 Effect of the nonreducing end of Shigella dysenteriae type 1 O-specific oligosaccharides on their immunogenicity as conjugates in mice Vince Pozsgay, Joanna Kubler-Kielb, Rachel Schneerson, and John B. Robbins PMCID: PMC1955462 Microbiology INAUGURAL ARTICLE by a Recently Elected Academy Member: A pathogenicity island replicon in Staphylococcus aureus replicates as an unstable plasmid Carles Úbeda, Peter Barry, José R. Penadés, and Richard P. Novick PMCID: PMC1964853 An inducible lambdoid prophage encoding cytolethal distending toxin (Cdt-I) and a type III effector protein in enteropathogenic Escherichia coli Masahiro Asakura, Atsushi Hinenoya, Mohammad S. Alam, Kensuke Shima, Shamim Hasan Zahid, Lei Shi, Norihiko Sugimoto, A. N. Ghosh, T. Ramamurthy, Shah M. Faruque, G. Balakrish Nair, and Shinji Yamasaki PMCID: PMC1964815 Neuroscience Essential role for autophagy protein Atg7 in the maintenance of axonal homeostasis and the prevention of axonal degeneration Masaaki Komatsu, Qing Jun Wang, Gay R. Holstein, Victor L. Friedrich, Jr., Jun-ichi Iwata, Eiki Kominami, Brian T. Chait, Keiji Tanaka, and Zhenyu Yue PMCID: PMC1964831 Gamma oscillations dynamically couple hippocampal CA3 and CA1 regions during memory task performance Sean M. Montgomery and György Buzsáki PMCID: PMC1964875 From the Cover:
Dominant-negative DISC1 transgenic mice display schizophrenia-associated phenotypes detected by measures translatable to humans Takatoshi Hikida, Hanna Jaaro-Peled, Saurav Seshadri, Kenichi Oishi, Caroline Hookway, Stephanie Kong, Di Wu, Rong Xue, Manuella Andradé, Stephanie Tankou, Susumu Mori, Michela Gallagher, Koko Ishizuka, Mikhail Pletnikov, Satoshi Kida, and Akira Sawa PMCID: PMC1964873 Contribution of the receptor guanylyl cyclase GC-D to chemosensory function in the olfactory epithelium Trese Leinders-Zufall, Renee E. Cockerham, Stylianos Michalakis, Martin Biel, David L. Garbers, Randall R. Reed, Frank Zufall, and Steven D. Munger PMCID: PMC1964822 Neuronal population coding of continuous and discrete quantity in the primate posterior parietal cortex Oana Tudusciuc and Andreas Nieder PMCID: PMC1964866 Central serotonergic neurons are differentially required for opioid analgesia but not for morphine tolerance or morphine reward Zhong-Qiu Zhao, Yong-Jing Gao, Yan-Gang Sun, Cheng-Shui Zhao, Robert W. Gereau, IV, and Zhou-Feng Chen PMCID: PMC1964813 Pharmacology Inhibitors of metabolism rescue cell death in Huntington's disease models Hemant Varma, Richard Cheng, Cindy Voisine, Anne C. Hart, and Brent R. Stockwell PMCID: PMC1964858 Plant Biology A cyclic nucleotide-gated channel is essential for polarized tip growth of pollen Sabine Frietsch, Yong-Fei Wang, Chris Sladek, Lisbeth R. Poulsen, Shawn M. Romanowsky, Julian I. Schroeder, and Jeffrey F. Harper PMCID: PMC1964830 Arabidopsis CYCD3 D-type cyclins link cell proliferation and endocycles and are rate-limiting for cytokinin responses Walter Dewitte, Simon Scofield, Annette A. Alcasabas, Spencer C. Maughan, Margit Menges, Nils Braun, Carl Collins, Jeroen Nieuwland, Els Prinsen, Venkatesan Sundaresan, and James A. H. Murray PMCID: PMC1964848 Social Sciences Anthropology A comprehensive archaeological map of the world's largest preindustrial settlement complex at Angkor, Cambodia Damian Evans, Christophe Pottier, Roland Fletcher, Scott Hensley, Ian Tapley, Anthony Milne, and Michael Barbetti PMCID: PMC1964867 Corrections Correction for Eswaramoorthy et al., Mechanism of action of a flavin-containing monooxygenase PMCID: PMC1964824 Corrects: Subramaniam Eswaramoorthy, et al. Mechanism of action of a flavin-containing monooxygenase. Proc Natl Acad Sci U S A. 2006 June 27; 103(26): 9832–9837. Correction for Ho et al., Isolation of anti-CD22 Fv with high affinity by Fv display on human cells PMCID: PMC1964841 Corrects: Mitchell Ho, et al. Isolation of anti-CD22 Fv with high affinity by Fv display on human cells. Proc Natl Acad Sci U S A. 2006 June 20; 103(25): 9637–9642. Retraction Retraction for Sowell et al., Vitamin C conjugates of genotoxic lipid peroxidation products: Structural characterization and detection in human plasma John Sowell, Balz Frei, and Jan F. Stevens PMCID: PMC1964810 Retracts: John Sowell, et al. Vitamin C conjugates of genotoxic lipid peroxidation products: Structural characterization and detection in human plasma. Proc Natl Acad Sci U S A. 2004 December 28; 101(52): 17964–17969. |
