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DECEMBER 2013 • VOLUME 87 • NO. 23

TABLE OF CONTENTS

SPOTLIGHT Articles of Significant Interest Selected from This Issue by the 12509 Editors STRUCTURE AND ASSEMBLY The Structure and Host Entry of an Invertebrate Parvovirus Geng Meng, Xinzheng Zhang, Pavel 12523–12530 Plevka, Qian Yu, Peter Tijssen, Michael G. Rossmann Glycoprotein Functionality Requires Proper Sanath Kumar Janaka, Devon A. 12805–12813 Alignment of the Ectodomain and the Membrane-Proximal Gregory, Marc C. Johnson Cytoplasmic Tail Configuration of Viral Ribonucleoprotein Complexes within the Yukihiko Sugita, Hiroshi Sagara, 12879–12884 Influenza A Virion Takeshi Noda, Yoshihiro Kawaoka Viroplasm Protein P9-1 of Rice Black-Streaked Dwarf Jianyan Wu, Jia Li, Xiang Mao, Weiwu 12885–12899 Preferentially Binds to Single-Stranded RNA in Its Octamer Wang, Zhaobang Cheng, Yijun Zhou, Form, and the Central Interior Structure Formed by This Xueping Zhou, Xiaorong Tao Octamer Constitutes the Major RNA Binding Site Crystal Structure of Venezuelan Hemorrhagic Fever Virus Marie-Laure Parsy, Karl Harlos, Juha T. 13070–13075 Fusion Glycoprotein Reveals a Class 1 Postfusion Architecture Huiskonen, Thomas A. Bowden with Extensive Glycosylation GENOME REPLICATION AND REGULATION OF VIRAL GENE EXPRESSION Chimeric Exchange of Coronavirus nsp5 Proteases (3CLpro) Christopher C. Stobart, Nicole R. 12611–12618 Identifies Common and Divergent Regulatory Determinants of Sexton, Havisha Munjal, Xiaotao Lu, Protease Activity Katrina L. Molland, Sakshi Tomar, Andrew D. Mesecar, Mark R. Denison A Simplified Positive-Sense-RNA Virus Construction Approach Bunpote Siridechadilok, Methee 12667–12674 That Enhances Analysis Throughput Gomutsukhavadee, Thunyarat Sawaengpol, Sutha Sangiambut, Chunya Puttikhunt, Kwanrutai Chin- inmanu, Prapat Suriyaphol, Prida Malasit, Gavin Screaton, Juthathip Mongkolsapaya

An HIV-1 Replication Pathway Utilizing Reverse Transcription Benjamin Trinité, Eric C. Ohlson, Igor 12701–12720 Products That Fail To Integrate Voznesensky, Shashank P. Rana, Chi N. Chan, Saurabh Mahajan, Jason Alster, Sean A. Burke, Dominik Wodarz, David N. Levy Comprehensive Mapping and Analysis of Kaposi’s Sarcoma- Lydia V. McClure, Rodney P. Kincaid, 12838–12849 Associated Herpesvirus 3= UTRs Identify Differential James M. Burke, Adam Grundhoff, Posttranscriptional Control of Gene Expression in Lytic versus Christopher S. Sullivan Latent Infection Efficient Replication of Epstein-Barr Virus-Derived Plasmids Theresa L. Hodin, Tanbir Najrana, 13020–13028 Requires Tethering by EBNA1 to Host Chromosomes John L. Yates A MicroRNA Encoded by Autographa californica Mengxiao Zhu, Jinwen Wang, Riqiang 13029–13034 Nucleopolyhedrovirus Regulates Expression of Viral Gene Deng, Peiwen Xiong, Hai Liang, ODV-E25 Xunzhang Wang

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Stress-Induced Cellular Transcription Factors Expressed in Devis Sinani, Ethan Cordes, Aspen 13042–13047 Trigeminal Ganglionic Neurons Stimulate the Herpes Simplex Workman, Prasanth Thunuguntia, Virus 1 ICP0 Promoter Clinton Jones West Nile Virus Genome with Glycosylated Envelope Protein Justin A. Roby, Roy A. Hall, Alexander 13063–13069 and Deletion of Alpha Helices 1, 2, and 4 in the Capsid Protein Is A. Khromykh Noninfectious and Efficiently Secretes Subviral Particles GENETIC DIVERSITY AND EVOLUTION Deep-Sequencing Analysis of the Association between the Mika Miura, Shinya Maekawa, Shinichi 12541–12551 Quasispecies Nature of the Hepatitis C Virus Core Region and Takano, Nobutoshi Komatsu, Akihisa Disease Progression Tatsumi, Yukiko Asakawa, Kuniaki Shindo, Fumitake Amemiya, Yasuhiro Nakayama, Taisuke Inoue, Minoru Sakamoto, Atsuya Yamashita, Kohji Moriishi, Nobuyuki Enomoto

Determining the Cellular Diversity of Hepatitis C Virus E. Carol McWilliam Leitch, John 12648–12655 Quasispecies by Single-Cell Viral Sequencing McLauchlan Discovery of a Unique Novel Clade of Mosquito-Associated Marco Marklewitz, Florian Zirkel, 12850–12865 Bunyaviruses Innocent B. Rwego, Hanna Heidemann, Pascal Trippner, Andreas Kurth, René Kallies, Thomas Briese, W. Ian Lipkin, Christian Drosten, Thomas R. Gillespie, Sandra Junglen Phylogenomic Network and Comparative Genomics Reveal a Ho Bin Jang, Fernand F. Fagutao, 12866–12878 Diverged Member of the ␾KZ-Related Group, Marine Vibrio Seong Won Nho, Seong Bin Park, In Phage ␾JM-2012 Seok Cha, Jong Earn Yu, Jung Seok Lee, Se Pyeong Im, Takashi Aoki, Tae Sung Jung Genome Scale Evolution of Myxoma Virus Reveals Host- Peter J. Kerr, Matthew B. Rogers, Adam 12900–12915 Pathogen Adaptation and Rapid Geographic Spread Fitch, Jay V. DePasse, Isabella M. Cattadori, Alan C. Twaddle, Peter J. Hudson, David C. Tscharke, Andrew F. Read, Edward C. Holmes, Elodie Ghedin VIRUS-CELL INTERACTIONS A Mutant Influenza Virus That Uses an N1 Neuraminidase as Kathryn A. Hooper, Jesse D. Bloom 12531–12540 the Receptor-Binding Protein Middle East Respiratory Syndrome Coronavirus Infection Kazuya Shirato, Miyuki Kawase, 12552–12561 Mediated by the Transmembrane Serine Protease TMPRSS2 Shutoku Matsuyama

White Spot Syndrome Virus IE1 and WSV056 Modulate the G1/S Xiaozhuo Ran, Xiaofang Bian, 12576–12582 Transition by Binding to the Host Retinoblastoma Protein Yongchang Ji, Xiumin Yan, Feng Yang, Fang Li Seminal Plasma and Semen Amyloids Enhance Cytomegalovirus Qiyi Tang, Nadia R. Roan, Yasuhiro 12583–12591 Infection in Cell Culture Yamamura Baculovirus F-Box Protein LEF-7 Modifies the Host DNA Jonathan K. Mitchell, Nathaniel M. 12592–12599 Damage Response To Enhance Virus Multiplication Byers, Paul D. Friesen Identification of Novel Host Factors via Conserved Domain Jing-Yi Lin, Peter D. Nagy 12600–12610 Search: Cns1 Cochaperone Is a Novel Restriction Factor of Tombusvirus Replication in Yeast Displacement of the C Terminus of Herpes Simplex Virus gD Is John R. Gallagher, Wan Ting Saw, 12656–12666 Sufficient To Expose the Fusion-Activating Interfaces on gD Doina Atanasiu, Huan Lou, Roselyn J. Eisenberg, Gary H. Cohen

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Zinc-Dependent Interaction between JAB1 and Pre-S2 Mutant Jye-Lin Hsu, Woei-Jer Chuang, Ih-Jen 12675–12684 Large Surface Antigen of Hepatitis B Virus and Its Implications Su, Wen-Jun Gui, Yu-Ying Chang, for Viral Hepatocarcinogenesis Yun-Ping Lee, Yu-Lin Ai, David T. Chuang, Wenya Huang Murine Norovirus Transcytosis across an In Vitro Polarized Mariam B. Gonzalez-Hernandez, 12685–12693 Murine Intestinal Epithelial Monolayer Is Mediated by M-Like Thomas Liu, Luz P. Blanco, Heather Cells Auble, Hilary C. Payne, Christiane E. Wobus Bromo- and Extraterminal Domain Chromatin Regulators Serve Saumya Shree Gupta, Tobias Maetzig, 12721–12736 as Cofactors for Murine Leukemia Virus Integration Goedele N. Maertens, Azar Sharif, Michael Rothe, Magdalena Weidner- Glunde, Melanie Galla, Axel Schambach, Peter Cherepanov, Thomas F. Schulz The Protein Interaction Network of Bacteriophage Lambda with Sonja Blasche, Stefan Wuchty, 12745–12755 Its Host, Escherichia coli Seesandra V. Rajagopala, Peter Uetz Prohibitin Interacts with Envelope Proteins of White Spot Jiang-Feng Lan, Xin-Cang Li, Jie-Jie 12756–12765 Syndrome Virus and Prevents Infection in the Red Swamp Sun, Jing Gong, Xian-Wei Wang, Xiu- Crayfish, Procambarus clarkii Zhen Shi, Li-Jie Shi, Yu-Ding Weng, Xiao-Fan Zhao, Jin-Xing Wang

Yellow Fever Vaccination Elicits Broad Functional CD4؉ T Cell Eddie A. James, Rebecca E. LaFond, 12794–12804 Responses That Recognize Structural and Nonstructural Theresa J. Gates, Duy T. Mai, Uma Proteins Malhotra, William W. Kwok Herpes Simplex Virus 1 Serine/Threonine Kinase US3 Shuai Wang, Kezhen Wang, Rongtuan 12814–12827 Hyperphosphorylates IRF3 and Inhibits Beta Interferon Lin, Chunfu Zheng Production Novel Apoptosis Suppressor Apsup from the Baculovirus Hayato Yamada, Koji Kitaguchi, Rina 12925–12934 Lymantria dispar Multiple Nucleopolyhedrovirus Precludes Hamajima, Michihiro Kobayashi, Apoptosis by Preventing Proteolytic Processing of Initiator Motoko Ikeda Caspase Dronc Chicken Interferon-Inducible Transmembrane Protein 3 S. E. Smith, M. S. Gibson, R. S. Wash, 12957–12966 Restricts Influenza and Lyssaviruses In Vitro F. Ferrara, E. Wright, N. Temperton, P. Kellam, M. Fife Nonstructural Protein ␴1s Mediates Reovirus-Induced Cell Karl W. Boehme, Katharina Hammer, 12967–12979 Cycle Arrest and Apoptosis William C. Tollefson, Jennifer L. Konopka-Anstadt, Takeshi Kobayashi, Terence S. Dermody Hypoxia Induces Permeability and Giant Cell Responses of Irina N. Gavrilovskaya, Elena E. 12999–13008 Andes Virus-Infected Pulmonary Endothelial Cells by Gorbunova, Erich R. Mackow Activating the mTOR-S6K Signaling Pathway The T Antigen Locus of Merkel Cell Polyomavirus Naveed Shahzad, Masahiro Shuda, 13009–13019 Downregulates Human Toll-Like Receptor 9 Expression Tarik Gheit, Hyun Jin Kwun, Iris Cornet, Djamel Saidj, Claudia Zannetti, Uzma Hasan, Yuan Chang, Patrick S. Moore, Rosita Accardi, Massimo Tommasino CELLULAR RESPONSE TO INFECTION Gamma Interferon Regulates Contraction of the Influenza Nayana Prabhu, Adrian W. Ho, 12510–12522 Virus-Specific CD8 T Cell Response and Limits the Size of the Kenneth H. S. Wong, Paul Edward Memory Population Hutchinson, Yen Leong Chua, Matheswaran Kandasamy, Debbie C. P. Lee, Baalasubramanian Sivasankar, David Michael Kemeny

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Aged Mice Exhibit a Severely Diminished CD8 T Cell Response Ross B. Fulton, Kayla A. Weiss, Lecia L. 12694–12700 following Respiratory Syncytial Virus Infection Pewe, John T. Harty, Steven M. Varga Human Parvovirus B19 Infection Causes Cell Cycle Arrest of Yong Luo, Steve Kleiboeker, Xuefeng 12766–12775 Human Erythroid Progenitors at Late S Phase That Favors Viral Deng, Jianming Qiu DNA Replication Local Blockade of Epithelial PDL-1 in the Airways Enhances T Beth McNally, Fang Ye, Meredith 12916–12924 Cell Function and Viral Clearance during Influenza Virus Willette, Emilio Flaño Infection SAMHD1 Restricts Herpes Simplex Virus 1 in Macrophages by Eui Tae Kim, Tommy E. White, Alberto 12949–12956 Limiting DNA Replication Brandariz-Núñez, Felipe Diaz-Griffero, Matthew D. Weitzman TRANSFORMATION AND ONCOGENESIS Epstein-Barr Virus and Human Herpesvirus 6 Detection in a Michael J. Strong, Tina O’Grady, Zhen 13059–13062 Non-Hodgkin’s Diffuse Large B-Cell Lymphoma Cohort by Lin, Guorong Xu, Melody Baddoo, Using RNA Sequencing Chris Parsons, Kun Zhang, Christopher M. Taylor, Erik K. Flemington GENE DELIVERY Mechanistic Insights into the Enhancement of Adeno- Angela M. Mitchell, R. Jude Samulski 13035–13041 Associated Virus Transduction by Proteasome Inhibitors VACCINES AND ANTIVIRAL AGENTS A Unique and Conserved Neutralization Epitope in H5N1 Xueyong Zhu, Yong-Hui Guo, Tao 12619–12635 Influenza Viruses Identified by an Antibody against the Jiang, Ya-Di Wang, Kwok-Hung Chan, A/Goose/Guangdong/1/96 Hemagglutinin Xiao-Feng Li, Wenli Yu, Ryan McBride, James C. Paulson, Kwok-Yung Yuen, Cheng-Feng Qin, Xiao-Yan Che, Ian A. Wilson Identification of Alpha Interferon-Induced Envelope Mutations Stéphanie B. N. Serre, Henrik B. 12776–12793 of Hepatitis C Virus In Vitro Associated with Increased Viral Krarup, Jens Bukh, Judith M. Gottwein Fitness and Interferon Resistance Highly Divergent Type 2 and 3 Vaccine-Derived Polioviruses Haider Al-Hello, Jaume Jorba, Soile 13076–13080 Isolated from Sewage in Tallinn, Estonia Blomqvist, Riina Raud, Olen Kew, Merja Roivainen PATHOGENESIS AND IMMUNITY High-Avidity and Potently Neutralizing Cross-Reactive Human Wen-Yang Tsai, Chih-Yun Lai, Yi- 12562–12575 Monoclonal Antibodies Derived from Secondary Dengue Virus Chieh Wu, Hong-En Lin, Carolyn Infection Edwards, Amonrat Jumnainsong, Srisakul Kliks, Scott Halstead, Juthathip Mongkolsapaya, Gavin R. Screaton, Wei-Kung Wang PC61 (Anti-CD25) Treatment Inhibits Influenza A Virus- Anke R. M. Kraft, Myriam F. 12636–12647 Expanded Regulatory T Cells and Severe Lung Pathology during Wlodarczyk, Laurie L. Kenney, Liisa K. a Subsequent Heterologous Lymphocytic Choriomeningitis Selin Virus Infection Dynamics of Viral Evolution and Neutralizing Antibody Antoine Chaillon, Gabriel A. Wagner, 12737–12744 Response after HIV-1 Superinfection N. Lance Hepler, Susan J. Little, Sergei L. Kosakovsky Pond, Gemma Caballero, Mary E. Pacold, Pham Phung, Terri Wrin, Douglas D. Richman, Joel O. Wertheim, Davey M. Smith

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A Mouse Monoclonal Antibody against Dengue Virus Type 1 Atsushi Yamanaka, Tomohiro Kotaki, 12828–12837 Mochizuki Strain Targeting Envelope Protein Domain II and Eiji Konishi Displaying Strongly Neutralizing but Not Enhancing Activity Herpes Simplex Virus 1 E3 Ubiquitin Ligase ICP0 Protein Jie Zhang, Kezhen Wang, Shuai Wang, 12935–12948 Inhibits Tumor Necrosis Factor Alpha-Induced NF-␬B Chunfu Zheng Activation by Interacting with p65/RelA and p50/NF-␬B1 Apoptosis Induction Influences Reovirus Replication and Andrea J. Pruijssers, Holger Hengel, Ty 12980–12989 Virulence in Newborn Mice W. Abel, Terence S. Dermody The L Gene of J Paramyxovirus Plays a Critical Role in Viral Zhuo Li, Jie Xu, Zhenhai Chen, Xiudan 12990–12998 Pathogenesis Gao, Lin-Fa Wang, Christopher Basler, Kaori Sakamoto, Biao He

A Single Amino Acid Mutation in the Envelope Cytoplasmic Tail Matthew W. Breed, Andrea P. O. 13048–13052 Restores the Ability of an Attenuated Simian Immunodeficiency Jordan, Pyone P. Aye, Chie Sugimoto, Virus Mutant To Deplete Mucosal CD4؉ T Cells Xavier Alvarez, Marcelo J. Kuroda, Bapi Pahar, Brandon F. Keele, James A. Hoxie, Andrew A. Lackner The Human Interferon-Induced MxA Protein Inhibits Early Han Xiao, Marian J. Killip, Peter 13053–13058 Stages of Influenza A Virus Infection by Retaining the Incoming Staeheli, Richard E. Randall, David Viral Genome in the Cytoplasm Jackson ERRATUM Construction of a Sonchus Yellow Net Virus Minireplicon: a Uma Ganesan, Jennifer N. Bragg, Min 13081 Step toward Reverse Genetic Analysis of Plant Negative-Strand Deng, Sharon Marr, Mi Yeon Lee, RNA Viruses ShaSha Qian, Manling Shi, Justin Kappel, Cole Peters, Yeon Lee, Michael M. Goodin, Ralf G. Dietzgen, Zhenghe Li, Andrew O. Jackson AUTHORS’ CORRECTIONS Human Cytomegalovirus Subverts the Functions of Monocytes, Giada Frascaroli, Stefania Varani, 13082–13083 Impairing Chemokine-Mediated Migration and Leukocyte Barbara Moepps, Christian Sinzger, Recruitment Maria Paola Landini, Thomas Mertens Molecular Evolution of the HIV-1 Thai Epidemic between the Gustavo H. Kijak, Sodsai Tovanabutra, 13084 Time of RV144 Immunogen Selection to the Execution of the Supachai Rerks-Ngarm, Sorachai Vaccine Efficacy Trial Nitayaphan, Chirapa Eamsila, Prayura Kunasol, Chirasak Khamboonruang, Prasert Thongcharoen, Chawetsan Namwat, Nakorn Premsri, Michael Benenson, Patricia Morgan, Meera Bose, Eric Sanders-Buell, Robert Paris, Merlin L. Robb, Deborah L. Birx, Mark S. De Souza, Francine E. McCutchan, Nelson L. Michael, Jerome H. Kim Virion Factors That Target Daxx To Overcome Intrinsic Sabrina Schreiner, Harald Wodrich 13085 Immunity

Cover photograph (Copyright © 2013, American Society for Microbiology. All Rights Reserved.): Perspective composite view (EM/X-ray) of the ready-to-infect, activated form of p2 lactococcal phage showing in foreground the open phage’s baseplate and its DNA exit channel. The receptor binding proteins point toward the host’s cell wall (brown). Upper left, the resting form of the phage, with closed baseplate, ap- proaches the host. (See related article in November 2013, vol. 87, no. 22, p. 12302.)