August 30, 2016 u vol. 113 u no. 35
From the Cover 9699 E5182
Porous nanoring liquid crystals Cardiac dysfunction in sickle cell anemia
9745
Energy scaling in jamming transition
9786
Improved RNA polymerase ribozyme
9892
Embryonic primate cerebral development
Contents THIS WEEK IN PNAS Cover image: Pictured are circular nanorings arranged in a porous smectic phase. Carlos Avendaño et al. demonstrated the self-assembly of highly symmetric nanorings with large internal cavities into liquid-crystalline smectic phases, in which the rings form well-defined layers, and showed that the resulting phases can have free volumes significantly larger than smectic phases formed by rod-shaped or disc-shaped particles. The resulting structures are good candidates for adsorption and storage materials. See the article by Avendaño et al. on pages 9699–9703. Image courtesy of Ella Marushchenko (Ella Maru Studio, Inc.).
9659
In This Issue
LETTERS (ONLINE ONLY) E5092 Jury is still out on the radiative forcing by black carbon Olivier Boucher, Yves Balkanski, Øivind Hodnebrog, Cathrine Lund Myhre, Gunnar Myhre, Johannes Quaas, Bjørn Hallvard Samset, Nick Schutgens, Philip Stier, and Rong Wang
E5094 Reply to Boucher et al.: Rate and timescale of black carbon aging regulate direct radiative forcing Renyi Zhang, Jianfei Peng, Yuan Wang, and Min Hu
E5096 Extrapolating abundance curves has no predictive power for estimating microbial biodiversity Amy Willis
E5097 Reply to Willis: Powerful predictions of biodiversity from ecological models and scaling laws Kenneth J. Locey and Jay T. Lennon
SCIENCE AND CULTURE—How science intersects with culture 9661
Fossilized cricket song brought to life in a work of art Alla Katsnelson
INNER WORKINGS—An over-the-shoulder look at scientists at work 9663
Light-controlled cellular surgery Esther Landhuis
QNAS 9665
QnAs with Huda Y. Zoghbi Prashant Nair
RETROSPECTIVE 9668
Phil Majerus: Champion of low-dose aspirin therapy Stuart A. Kornfeld
Free online through the PNAS open access option.
PNAS u August 30, 2016 u vol. 113 u no. 35 u iii–vii
COMMENTARIES 9670
The heart in sickle cell disease, a model for heart failure with preserved ejection fraction
ENGINEERING
9716
John C. Wood
Biqin Dong, Luay M. Almassalha, Yolanda Stypula-Cyrus, Ben E. Urban, John E. Chandler, The-Quyen Nguyen, Cheng Sun, Hao F. Zhang, and Vadim Backman
See companion article on page E5182
9673
Critically jammed Srikanth Sastry
9722
See companion article on page 9745
9676
See companion article on page 9892
9728
Significance Statements Brief statements written by the authors about the significance of their papers.
ENVIRONMENTAL SCIENCES
9734
Making technological innovation work for sustainable development Laura Diaz Anadon, Gabriel Chan, Alicia G. Harley, Kira Matus, Suerie Moon, Sharmila L. Murthy, and William C. Clark
INAUGURAL ARTICLE 9691
Ultrapotent vinblastines in which added molecular complexity further disrupts the target tubulin dimer–dimer interface Daniel W. Carney, John C. Lukesh III, Daniel M. Brody, Manuela M. Bru¨tsch, and Dale L. Boger
PHYSICAL SCIENCES
PHYSICS
9740
Assembly of porous smectic structures formed from interlocking high-symmetry planar nanorings
Large conditional single-photon cross-phase modulation Kristin M. Beck, Mahdi Hosseini, Yiheng Duan, and Vladan Vuleti c
9745
Scaling ansatz for the jamming transition Carl P. Goodrich, Andrea J. Liu, and James P. Sethna See Commentary on page 9673
SOCIAL SCIENCES ANTHROPOLOGY
9751
European Neolithic societies showed early warning signals of population collapse
9757
Chemical profiling of ancient hearths reveals recurrent salmon use in Ice Age Beringia
APPLIED PHYSICAL SCIENCES
9699
Airborne methane remote measurements reveal heavy-tail flux distribution in Four Corners region Christian Frankenberg, Andrew K. Thorpe, David R. Thompson, Glynn Hulley, Eric Adam Kort, Nick Vance, Jakob Borchardt, Thomas Krings, Konstantin Gerilowski, Colm Sweeney, Stephen Conley, Brian D. Bue, Andrew D. Aubrey, Simon Hook, and Robert O. Green
PERSPECTIVE 9682
Scavenging nucleic acid debris to combat autoimmunity and infectious disease Eda K. Holl, Kara L. Shumansky, Luke B. Borst, Angela D. Burnette, Christopher J. Sample, Elizabeth A. Ramsburg, and Bruce A. Sullenger
PNAS PLUS 9679
Stable propagation of mechanical signals in soft media using stored elastic energy Jordan R. Raney, Neel Nadkarni, Chiara Daraio, Dennis M. Kochmann, Jennifer A. Lewis, and Katia Bertoldi
Regional scattering of primate subplate Zolta´n Molna´r and Anna Hoerder-Suabedissen
Superresolution intrinsic fluorescence imaging of chromatin utilizing native, unmodified nucleic acids for contrast
Sean S. Downey, W. Randall Haas Jr., and Stephen J. Shennan
Carlos Avendan˜o, George Jackson, Erich A. Mu¨ller, and Fernando A. Escobedo
Kyungcheol Choy, Ben A. Potter, Holly J. McKinney, Joshua D. Reuther, Shiway W. Wang, and Matthew J. Wooller
CHEMISTRY
E5098 Nature of ground and electronic excited states of higher acenes
ENVIRONMENTAL SCIENCES
9864
Yang Yang, Ernest R. Davidson, and Weitao Yang
Victor M. Corman, Isabella Eckerle, Ziad A. Memish, Anne M. Liljander, Ronald Dijkman, Hulda Jonsdottir, Kisi J. Z. Juma Ngeiywa, Esther Kamau, Mario Younan, Malakita Al Masri, Abdullah Assiri, Ilona Gluecks, Bakri E. Musa, Benjamin Meyer, Marcel A. Mu¨ller, Mosaad Hilali, Set Bornstein, Ulrich Wernery, Volker Thiel, Joerg Jores, Jan Felix Drexler, and Christian Drosten
E5117 Curvature–undulation coupling as a basis for curvature sensing and generation in bilayer membranes Ryan P. Bradley and Ravi Radhakrishnan
9691
Ultrapotent vinblastines in which added molecular complexity further disrupts the target tubulin dimer–dimer interface Daniel W. Carney, John C. Lukesh III, Daniel M. Brody, Manuela M. Bru¨tsch, and Dale L. Boger
PSYCHOLOGICAL AND COGNITIVE SCIENCES
9763
EARTH, ATMOSPHERIC, AND PLANETARY SCIENCES
9704
Earliest land plants created modern levels of atmospheric oxygen
Reconstructing the last interglacial at Summit, Greenland: Insights from GISP2 Audrey M. Yau, Michael L. Bender, Alexander Robinson, and Edward J. Brook
iv u www.pnas.org
Neurocomputational mechanisms of prosocial learning and links to empathy Patricia L. Lockwood, Matthew A. J. Apps, Vincent Valton, Essi Viding, and Jonathan P. Roiser
9769
Timothy M. Lenton, Tais W. Dahl, Stuart J. Daines, Benjamin J. W. Mills, Kazumi Ozaki, Matthew R. Saltzman, and Philipp Porada
9710
Link of a ubiquitous human coronavirus to dromedary camels
Hedonism and the choice of everyday activities Maxime Taquet, Jordi Quoidbach, Yves-Alexandre de Montjoye, Martin Desseilles, and James J. Gross
9774
Collective hormonal profiles predict group performance Modupe Akinola, Elizabeth Page-Gould, Pranjal H. Mehta, and Jackson G. Lu
Contents
9888
Temporal metastates are associated with differential patterns of time-resolved connectivity, network topology, and attention
9816
Shuang Wu, Sophia R. Majeed, Timothy M. Evans, Marine D. Camus, Nicole M. L. Wong, Yvette Schollmeier, Minjong Park, Jagan R. Muppidi, Andrea Reboldi, Peter Parham, Jason G. Cyster, and Frances M. Brodsky
James M. Shine, Oluwasanmi Koyejo, and Russell A. Poldrack SUSTAINABILITY SCIENCE
9780
Online purchasing creates opportunities to lower the life cycle carbon footprints of consumer products
Clathrin light chains’ role in selective endocytosis influences antibody isotype switching
9822
Steven C. Isley, Paul C. Stern, Scott P. Carmichael, Karun M. Joseph, and Douglas J. Arent
Lysine methylation represses p53 activity in teratocarcinoma cancer cells Jiajun Zhu, Zhixun Dou, Morgan A. Sammons, Arnold J. Levine, and Shelley L. Berger DEVELOPMENTAL BIOLOGY
BIOLOGICAL SCIENCES BIOCHEMISTRY
E5108 Mouse MORC3 is a GHKL ATPase that localizes to H3K4me3 marked chromatin Sisi Li, Linda Yen, William A. Pastor, Jonathan B. Johnston, Jiamu Du, Colin J. Shew, Wanlu Liu, Jamie Ho, Bryan Stender, Amander T. Clark, Alma L. Burlingame, Lucia Daxinger, Dinshaw J. Patel, and Steven E. Jacobsen
9786
E5153 Notch-mediated lateral inhibition regulates proneural wave propagation when combined with EGF-mediated reaction diffusion Makoto Sato, Tetsuo Yasugi, Yoshiaki Minami, Takashi Miura, and Masaharu Nagayama ENVIRONMENTAL SCIENCES
9704
Amplification of RNA by an RNA polymerase ribozyme
Timothy M. Lenton, Tais W. Dahl, Stuart J. Daines, Benjamin J. W. Mills, Kazumi Ozaki, Matthew R. Saltzman, and Philipp Porada
David P. Horning and Gerald F. Joyce
9792
Unraveling the essential role of CysK in CDI toxin activation
9828
Parker M. Johnson, Christina M. Beck, Robert P. Morse, Fernando Garza-Sa´nchez, David A. Low, Christopher S. Hayes, and Celia W. Goulding
9798
EVOLUTION
9834
BIOPHYSICS AND COMPUTATIONAL BIOLOGY
9840
E5125 Structural conservation in the template/pseudoknot domain of vertebrate telomerase RNA from teleost fish to human
Superresolution intrinsic fluorescence imaging of chromatin utilizing native, unmodified nucleic acids for contrast
GENETICS
E5163 Extensive sequence divergence between the reference genomes of two elite indica rice varieties Zhenshan 97 and Minghui 63
Biqin Dong, Luay M. Almassalha, Yolanda Stypula-Cyrus, Ben E. Urban, John E. Chandler, The-Quyen Nguyen, Cheng Sun, Hao F. Zhang, and Vadim Backman
9804
Jianwei Zhang (张建伟), Ling-Ling Chen (陈玲玲), Feng Xing (邢锋), David A. Kudrna, Wen Yao (姚文), Dario Copetti, Ting Mu (穆婷), Weiming Li (李伟明), Jia-Ming Song (宋佳明), Weibo Xie (谢为博), Seunghee Lee, Jayson Talag, Lin Shao (邵林), Yue An (安玥), Chun-Liu Zhang (张春柳), Yidan Ouyang (欧阳亦聃), Shuai Sun (孙帅), Wen-Biao Jiao (焦文标), Fang Lv (吕芳), Bogu Du (杜博贾), Meizhong Luo (罗美中), Carlos Ernesto Maldonado, Jose Luis Goicoechea, Lizhong Xiong (熊立仲), Changyin Wu (吴昌银), Yongzhong Xing (邢永忠), Dao-Xiu Zhou (周道绣), Sibin Yu (余四斌), Yu Zhao (赵毓), Gongwei Wang (王功伟), Yeisoo Yu, Yijie Luo (罗艺洁), Zhi-Wei Zhou (周智伟), Beatriz Elena Padilla Hurtado, Ann Danowitz, Rod A. Wing, and Qifa Zhang (张启发)
Crystal structure of an Fe-S cluster-containing fumarate hydratase enzyme from Leishmania major reveals a unique protein fold Patricia R. Feliciano, Catherine L. Drennan, and M. Cristina Nonato CELL BIOLOGY
E5135 Cilium transition zone proteome reveals compartmentalization and differential dynamics of ciliopathy complexes Samuel Dean, Flavia Moreira-Leite, Vladimir Varga, and Keith Gull
E5144 Regulation of intracellular heme trafficking revealed by subcellular reporters Xiaojing Yuan, Nicole Rietzschel, Hanna Kwon, Ana Beatriz Walter Nuno, David A. Hanna, John D. Phillips, Emma L. Raven, Amit R. Reddi, and Iqbal Hamza
9810
Mitotic MELK-eIF4B signaling controls protein synthesis and tumor cell survival Yubao Wang, Michael Begley, Qing Li, Hai-Tsang Huang, Ana Lako, Michael J. Eck, Nathanael S. Gray, Timothy J. Mitchison, Lewis C. Cantley, and Jean J. Zhao
Contents
Geography and major host evolutionary transitions shape the resource use of plant parasites Joaquı´n Calatayud, Jose´ Luis Ho´rreo, Jaime Madrigal-Gonza´lez, Alain Migeon, Miguel A´. Rodrı´guez, Sara Magalha˜es, and Joaquı´n Hortal
Yaqiang Wang, Joseph D. Yesselman, Qi Zhang, Mijeong Kang, and Juli Feigon
9716
Highly rearranged mitochondrial genome in Nycteria parasites (Haemosporidia) from bats Gregory Karadjian, Alexandre Hassanin, Benjamin Saintpierre, Guy-Crispin Gembu Tungaluna, Frederic Ariey, Francisco J. Ayala, Irene Landau, and Linda Duval
E5117 Curvature–undulation coupling as a basis for curvature sensing and generation in bilayer membranes Ryan P. Bradley and Ravi Radhakrishnan
Thylakoid luminal θ-carbonic anhydrase critical for growth and photosynthesis in the marine diatom Phaeodactylum tricornutum Sae Kikutani, Kensuke Nakajima, Chikako Nagasato, Yoshinori Tsuji, Ai Miyatake, and Yusuke Matsuda
Recognition and targeting mechanisms by chaperones in flagellum assembly and operation Nandish Khanra, Paolo Rossi, Anastassios Economou, and Charalampos G. Kalodimos
Earliest land plants created modern levels of atmospheric oxygen
9846
Genome-wide quantification of rare somatic mutations in normal human tissues using massively parallel sequencing Margaret L. Hoang, Isaac Kinde, Cristian Tomasetti, K. Wyatt McMahon, Thomas A. Rosenquist, Arthur P. Grollman, Kenneth W. Kinzler, Bert Vogelstein, and Nickolas Papadopoulos IMMUNOLOGY AND INFLAMMATION
E5172 Patrolling monocytes promote intravascular neutrophil activation and glomerular injury in the acutely inflamed glomerulus Michaela Finsterbusch, Pam Hall, Anqi Li, Sapna Devi, Clare L. V. Westhorpe, A. Richard Kitching, and Michael J. Hickey
PNAS u August 30, 2016 u vol. 113 u no. 35 u v
9852
Devapregasan Moodley, Hideyuki Yoshida, Sara Mostafavi, Natasha Asinovski, Adriana Ortiz-Lopez, Peter Symanowicz, Jean-Baptiste Telliez, Martin Hegen, James D. Clark, Diane Mathis, and Christophe Benoist
9858
NEUROSCIENCE
Network pharmacology of JAK inhibitors
Glimpse of natural selection of long-lived T-cell clones in healthy life Baojun Zhang, Qingzhu Jia, Cheryl Bock, Gang Chen, Haili Yu, Qingshan Ni, Ying Wan, Qijing Li, and Yuan Zhuang
MEDICAL SCIENCES
E5212 Holdase activity of secreted Hsp70 masks amyloid-β42 neurotoxicity in Drosophila Pedro Fernandez-Funez, Jonatan Sanchez-Garcia, Lorena de Mena, Yan Zhang, Yona Levites, Swati Khare, Todd E. Golde, and Diego E. Rincon-Limas
E5222 Single-cell RNAseq reveals cell adhesion molecule profiles in electrophysiologically defined neurons Csaba Fo¨ldy, Spyros Darmanis, Jason Aoto, Robert C. Malenka, Stephen R. Quake, and Thomas C. Su¨dhof
9888
E5182 Sickle cell anemia mice develop a unique cardiomyopathy with restrictive physiology Nihal Bakeer, Jeanne James, Swarnava Roy, Janaka Wansapura, Shiva Kumar Shanmukhappa, John N. Lorenz, Hanna Osinska, Kurt Backer, Anne-Cecile Huby, Archana Shrestha, Omar Niss, Robert Fleck, Charles T. Quinn, Michael D. Taylor, Enkhsaikhan Purevjav, Bruce J. Aronow, Jeffrey A. Towbin, and Punam Malik
James M. Shine, Oluwasanmi Koyejo, and Russell A. Poldrack
9892
See Commentary on page 9676
9898 MICROBIOLOGY
E5192 p53 down-regulates SARS coronavirus replication and is targeted by the SARS-unique domain and PLpro via E3 ubiquitin ligase RCHY1
9864
Link of a ubiquitous human coronavirus to dromedary camels Victor M. Corman, Isabella Eckerle, Ziad A. Memish, Anne M. Liljander, Ronald Dijkman, Hulda Jonsdottir, Kisi J. Z. Juma Ngeiywa, Esther Kamau, Mario Younan, Malakita Al Masri, Abdullah Assiri, Ilona Gluecks, Bakri E. Musa, Benjamin Meyer, Marcel A. Mu¨ller, Mosaad Hilali, Set Bornstein, Ulrich Wernery, Volker Thiel, Joerg Jores, Jan Felix Drexler, and Christian Drosten
9870
FliW antagonizes CsrA RNA binding by a noncompetitive allosteric mechanism
9904
9910
9882
Comparative genomics of biotechnologically important yeasts Robert Riley, Sajeet Haridas, Kenneth H. Wolfe, Mariana R. Lopes, Chris Todd Hittinger, Markus Go¨ker, Asaf A. Salamov, Jennifer H. Wisecaver, Tanya M. Long, Christopher H. Calvey, Andrea L. Aerts, Kerrie W. Barry, Cindy Choi, Alicia Clum, Aisling Y. Coughlan, Shweta Deshpande, Alexander P. Douglass, Sara J. Hanson, Hans-Peter Klenk, Kurt M. LaButti, Alla Lapidus, Erika A. Lindquist, Anna M. Lipzen, Jan P. Meier-Kolthoff, Robin A. Ohm, Robert P. Otillar, Jasmyn L. Pangilinan, Yi Peng, Antonis Rokas, Carlos A. Rosa, Carmen Scheuner, Andriy A. Sibirny, Jason C. Slot, J. Benjamin Stielow, Hui Sun, Cletus P. Kurtzman, Meredith Blackwell, Igor V. Grigoriev, and Thomas W. Jeffries
vi u www.pnas.org
Reticular lamina and basilar membrane vibrations in living mouse cochleae Tianying Ren, Wenxuan He, and David Kemp
9916
Enhancement of hERG channel activity by scFv antibody fragments targeted to the PAS domain Carol A. Harley, Greg Starek, David K. Jones, Andreia S. Fernandes, Gail A. Robertson, and Joa˜o H. Morais-Cabral
9922
Motor, cognitive, and affective areas of the cerebral cortex influence the adrenal medulla Richard P. Dum, David J. Levinthal, and Peter L. Strick PHARMACOLOGY
9928
Signal transmission through the CXC chemokine receptor 4 (CXCR4) transmembrane helices Melanie P. Wescott, Irina Kufareva, Cheryl Paes, Jason R. Goodman, Yana Thaker, Bridget A. Puffer, Eli Berdougo, Joseph B. Rucker, Tracy M. Handel, and Benjamin J. Doranz
Key experimental evidence of chromosomal DNA transfer among selected tuberculosiscausing mycobacteria Eva C. Boritsch, Varun Khanna, Alexandre Pawlik, Nadine Honore´, Victor H. Navas, Laurence Ma, Christiane Bouchier, Torsten Seemann, Philip Supply, Timothy P. Stinear, and Roland Brosch
Peripheral and central CB1 cannabinoid receptors control stress-induced impairment of memory consolidation Arnau Busquets-Garcia, Maria Gomis-Gonza´lez, Raj Kamal Srivastava, Laura Cutando, Antonio Ortega-Alvaro, Sabine Ruehle, Floortje Remmers, Laura Bindila, Luigi Bellocchio, Giovanni Marsicano, Beat Lutz, Rafael Maldonado, and Andre´s Ozaita
Sampriti Mukherjee, Reid T. Oshiro, Helen Yakhnin, Paul Babitzke, and Daniel B. Kearns
9876
Heterosynaptic GABAergic plasticity bidirectionally driven by the activity of pre- and postsynaptic NMDA receptors Jonathan Mapelli, Daniela Gandolfi, Antonietta Vilella, Michele Zoli, and Albertino Bigiani
E5202 Two distinct mechanisms of transcriptional regulation by the redox sensor YodB Sang Jae Lee, In-Gyun Lee, Ki-Young Lee, Dong-Gyun Kim, Hyun-Jong Eun, Hye-Jin Yoon, Susanna Chae, Sung-Hyun Song, Sa-Ouk Kang, Min-Duk Seo, Hyoun Sook Kim, Sung Jean Park, and Bong-Jin Lee
Secondary expansion of the transient subplate zone in the developing cerebrum of human and nonhuman primates Alvaro Duque, Zeljka Krsnik, Ivica Kostovi c , and Pasko Rakic
See Commentary on page 9670
Yue Ma-Lauer, Javier Carbajo-Lozoya, Marco Y. Hein, Marcel A. Mu¨ller, Wen Deng, Jian Lei, Benjamin Meyer, Yuri Kusov, Brigitte von Brunn, Dev Raj Bairad, Sabine Hu¨nten, Christian Drosten, Heiko Hermeking, Heinrich Leonhardt, Matthias Mann, Rolf Hilgenfeld, and Albrecht von Brunn
Temporal metastates are associated with differential patterns of time-resolved connectivity, network topology, and attention
PHYSIOLOGY
9934
Bioelectric impact of pathological angiogenesis on vascular function Donald G. Puro, Ryohsuke Kohmoto, Yasushi Fujita, Thomas W. Gardner, and Dolly A. Padovani-Claudio PLANT BIOLOGY
E5232 Regulatory network analysis reveals novel regulators of seed desiccation tolerance in Arabidopsis thaliana Sandra Isabel Gonza´lez-Morales, Ricardo A. Cha´vez-Montes, Corina Hayano-Kanashiro, Gerardo Alejo-Jacuinde, Thelma Y. Rico-Cambron, Stefan de Folter, and Luis Herrera-Estrella
E5242 Rapid hyperosmotic-induced Ca2+ responses in Arabidopsis thaliana exhibit sensory potentiation and involvement of plastidial KEA transporters Aaron B. Stephan, Hans-Henning Kunz, Eric Yang, and Julian I. Schroeder
Contents
SUSTAINABILITY SCIENCE
9751
European Neolithic societies showed early warning signals of population collapse
MEDICAL SCIENCES
E5251 Growth hormone is permissive for neoplastic colon growth Vera Chesnokova, Svetlana Zonis, Cuiqi Zhou, Maria Victoria Recouvreux, Anat Ben-Shlomo, Takako Araki, Robert Barrett, Michael Workman, Kolja Wawrowsky, Vladimir A. Ljubimov, Magdalena Uhart, and Shlomo Melmed
Sean S. Downey, W. Randall Haas Jr., and Stephen J. Shennan SYSTEMS BIOLOGY
9940
Mapping signaling pathway cross-talk in Drosophila cells Noemie Ammeux, Benjamin E. Housden, Andrew Georgiadis, Yanhui Hu, and Norbert Perrimon
MICROBIOLOGY
CORRECTIONS (ONLINE ONLY) APPLIED BIOLOGICAL SCIENCES, ENGINEERING
E5250 Dendrimer-RNA nanoparticles generate protective immunity against lethal Ebola, H1N1 influenza, and Toxoplasma gondii challenges with a single dose Jasdave S. Chahal, Omar F. Khan, Christopher L. Cooper, Justine S. McPartlan, Jonathan K. Tsosie, Lucas D. Tilley, Saima M. Sidik, Sebastian Lourido, Robert Langer, Sina Bavari, Hidde L. Ploegh, and Daniel G. Anderson
Contents
E5252 Novel coding, translation, and gene expression of a replicating covalently closed circular RNA of 220 nt Mounir Georges AbouHaidar, Srividhya Venkataraman, Ashkan Golshani, Bolin Liu, and Tauqeer Ahmad
ix
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PNAS u August 30, 2016 u vol. 113 u no. 35 u vii
