Global analysis of host-pathogen interactions that regulate early stage HIV-1 replication
Renate König,Yingyao Zhou,Daniel Elleder,Tracy L. Diamond,Ghislain M. C. Bonamy,Jeffrey T. Irelan,Chih-yuan Chiang,Buu P. Tu,Paul D. De Jesus,Caroline E. Lilley,Shannon Seidel,Amanda M. Opaluch,Jeremy S. Caldwell,Matthew D. Weitzman,Kelli Kuhen,Sourav Bandyopadhyay,Trey Ideker,Anthony P. Orth,Loren Miraglia,Frederic D. Bushman,John A. T. Young,Sumit K. Chanda +21 more
TLDR
A multiscale approach to assemble a host-pathogen biochemical network containing 213 confirmed host cellular factors and 11 HIV-1-encoded proteins has uncovered multiprotein virus-host interactions that likely act in concert to facilitate the early steps of HIV- 1 infection.About:
This article is published in Cell.The article was published on 2008-10-03 and is currently open access. It has received 967 citations till now. The article focuses on the topics: Viral replication & Transcription (biology).read more
Citations
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A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.
David E. Gordon,Gwendolyn M. Jang,Mehdi Bouhaddou,Jiewei Xu,Kirsten Obernier,Kris M. White,Matthew J. O’Meara,Veronica V. Rezelj,Jeffrey Z. Guo,Danielle L. Swaney,Tia A. Tummino,Ruth Hüttenhain,Robyn M. Kaake,Alicia L. Richards,Beril Tutuncuoglu,Helene Foussard,Jyoti Batra,Kelsey M. Haas,Maya Modak,Minkyu Kim,Paige Haas,Benjamin J. Polacco,Hannes Braberg,Jacqueline M. Fabius,Manon Eckhardt,Margaret Soucheray,Melanie J. Bennett,Merve Cakir,Michael McGregor,Qiongyu Li,Bjoern Meyer,Ferdinand Roesch,Thomas Vallet,Alice Mac Kain,Lisa Miorin,Elena Moreno,Zun Zar Chi Naing,Yuan Zhou,Shiming Peng,Ying Shi,Ziyang Zhang,Wenqi Shen,Ilsa T Kirby,James E. Melnyk,John S. Chorba,Kevin Lou,Shizhong Dai,Inigo Barrio-Hernandez,Danish Memon,Claudia Hernandez-Armenta,Jiankun Lyu,Christopher J.P. Mathy,Tina Perica,Kala Bharath Pilla,Sai J. Ganesan,Daniel J. Saltzberg,Rakesh Ramachandran,Xi Liu,Sara Brin Rosenthal,Lorenzo Calviello,Srivats Venkataramanan,Jose Liboy-Lugo,Yizhu Lin,Xi Ping Huang,Yongfeng Liu,Stephanie A. Wankowicz,Markus Bohn,Maliheh Safari,Fatima S. Ugur,Cassandra Koh,Nastaran Sadat Savar,Quang Dinh Tran,Djoshkun Shengjuler,Sabrina J. Fletcher,Michael C. O’Neal,Yiming Cai,Jason C.J. Chang,David J. Broadhurst,Saker Klippsten,Phillip P. Sharp,Nicole A. Wenzell,Duygu Kuzuoğlu-Öztürk,Hao-Yuan Wang,Raphael Trenker,Janet M. Young,Devin A. Cavero,Devin A. Cavero,Joseph Hiatt,Joseph Hiatt,Theodore L. Roth,Ujjwal Rathore,Ujjwal Rathore,Advait Subramanian,Julia Noack,Mathieu Hubert,Robert M. Stroud,Alan D. Frankel,Oren S. Rosenberg,Kliment A. Verba,David A. Agard,Melanie Ott,Michael Emerman,Natalia Jura,Mark von Zastrow,Eric Verdin,Eric Verdin,Alan Ashworth,Olivier Schwartz,Christophe d'Enfert,Shaeri Mukherjee,Matthew P. Jacobson,Harmit S. Malik,Danica Galonić Fujimori,Trey Ideker,Charles S. Craik,Stephen N. Floor,James S. Fraser,John D. Gross,Andrej Sali,Bryan L. Roth,Davide Ruggero,Jack Taunton,Tanja Kortemme,Pedro Beltrao,Marco Vignuzzi,Adolfo García-Sastre,Kevan M. Shokat,Brian K. Shoichet,Nevan J. Krogan +128 more
TL;DR: A human–SARS-CoV-2 protein interaction map highlights cellular processes that are hijacked by the virus and that can be targeted by existing drugs, including inhibitors of mRNA translation and predicted regulators of the sigma receptors.
Journal ArticleDOI
Human host factors required for influenza virus replication
Renate König,Silke Stertz,Yingyao Zhou,Atsushi Inoue,H.-Heinrich Hoffmann,Suchita Bhattacharyya,Judith G. Alamares,Donna M. Tscherne,Mila Brum Ortigoza,Yuhong Liang,Qinshan Gao,Shane E. Andrews,Sourav Bandyopadhyay,Paul D. De Jesus,Buu P. Tu,Lars Pache,Crystal Shih,Anthony P. Orth,Ghislain M. C. Bonamy,Loren Miraglia,Trey Ideker,Adolfo García-Sastre,John A. T. Young,Peter Palese,Megan L. Shaw,Sumit K. Chanda +25 more
TL;DR: This work uses an integrative systems approach, based on genome-wide RNA interference screening, to identify 295 cellular cofactors required for early-stage influenza virus replication, and identifies those involved in kinase-regulated signalling, ubiquitination and phosphatase activity as the most highly enriched.
Journal ArticleDOI
Genome-wide RNAi screen identifies human host factors crucial for influenza virus replication
Alexander Karlas,Nikolaus Machuy,Yu Jin Shin,Klaus-Peter Pleissner,Anita Artarini,Dagmar Heuer,Daniel Becker,Hany Khalil,Lesley A. Ogilvie,Simone Hess,André P. Mäurer,Elke Müller,Thorsten Wolff,Thomas Rudel,Thomas F. Meyer +14 more
TL;DR: The discovery of 287 human host cell genes influencing influenza A virus replication in a genome-wide RNA interference (RNAi) screen is reported, and SON DNA binding protein was found to be important for normal trafficking of influenza virions to late endosomes early in infection.
Journal ArticleDOI
Global landscape of HIV-human protein complexes
Stefanie Jäger,Peter Cimermancic,Peter Cimermancic,Natali Gulbahce,Natali Gulbahce,Jeffrey R. Johnson,Jeffrey R. Johnson,Jeffrey R. Johnson,Kathryn E. McGovern,Kathryn E. McGovern,Starlynn Clarke,Michael Shales,Michael Shales,Gaelle Mercenne,Lars Pache,Kathy H. Li,Kathy H. Li,Hilda Hernandez,Hilda Hernandez,Gwendolyn M. Jang,Gwendolyn M. Jang,Shoshannah L. Roth,Eyal Akiva,Eyal Akiva,John M. Marlett,Melanie L. Stephens,Iván D'Orso,Iván D'Orso,Jason D Fernandes,Marie E. Fahey,Marie E. Fahey,Cathal Mahon,Cathal Mahon,Anthony J. O’Donoghue,Aleksandar Todorovic,John H. Morris,David Maltby,Tom Alber,Gerard Cagney,Frederic D. Bushman,John A. T. Young,Sumit K. Chanda,Wesley I. Sundquist,Tanja Kortemme,Tanja Kortemme,Ryan D. Hernandez,Ryan D. Hernandez,Charles S. Craik,Charles S. Craik,Alma L. Burlingame,Alma L. Burlingame,Andrej Sali,Alan D. Frankel,Alan D. Frankel,Nevan J. Krogan +54 more
TL;DR: The use of affinity tagging and purification mass spectrometry is reported to determine systematically the physical interactions of all 18 HIV-1 proteins and polyproteins with host proteins in two different human cell lines (HEK293 and Jurkat).
Journal ArticleDOI
A Physical and Regulatory Map of Host-Influenza Interactions Reveals Pathways in H1N1 Infection
Sagi Shapira,Sagi Shapira,Irit Gat-Viks,Bennett O.V. Shum,Amélie Dricot,Marciela M. de Grace,Marciela M. de Grace,Liguo Wu,Liguo Wu,Piyush Gupta,Tong Hao,Serena J. Silver,David E. Root,David E. Hill,Aviv Regev,Aviv Regev,Nir Hacohen,Nir Hacohen +17 more
TL;DR: A combination of yeast two-hybrid analysis and genome-wide expression profiling implicated hundreds of human factors in mediating viral-host interactions and pointed to potential roles for some unanticipated host and viral proteins in viral infection and the host response.
References
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An automated method for finding molecular complexes in large protein interaction networks.
TL;DR: A novel graph theoretic clustering algorithm, "Molecular Complex Detection" (MCODE), that detects densely connected regions in large protein-protein interaction networks that may represent molecular complexes is described.
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Identification of Host Proteins Required for HIV Infection Through a Functional Genomic Screen
Abraham L. Brass,Derek M. Dykxhoorn,Yair Benita,Nan Yan,Alan Engelman,Ramnik J. Xavier,Judy Lieberman,Stephen J. Elledge +7 more
TL;DR: This article performed a large-scale small interfering RNA screen to identify host factors required by HIV-1 and identified more than 250 HIV-dependency factors (HDFs), which participate in a broad array of cellular functions and implicate new pathways in the viral life cycle.
Identification of host proteins required for HIV infection through a functional genomic screen
TL;DR: A large-scale small interfering RNA screen was performed to identify host factors required by HIV-1 and more than 250 HIV-dependency factors (HDFs) were identified, suggesting that viruses evolve in host cells that optimally perform the functions required for their life cycle.
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Inhibitors of Strand Transfer That Prevent Integration and Inhibit HIV-1 Replication in Cells
Daria J. Hazuda,Peter J. Felock,Marc V. Witmer,Abigail Wolfe,Kara A. Stillmock,Jay A. Grobler,Amy S. Espeseth,Lori J. Gabryelski,William A. Schleif,Carol Blau,Michael D. Miller +10 more
TL;DR: Diketo acid inhibitors of HIV-1 integrase that manifest antiviral activity as a consequence of their effect on integration are described.
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Integration of murine leukemia virus DNA depends on mitosis
TL;DR: Viral nucleoprotein complexes isolated from arrested cells contain full‐length viral DNA and can integrate this viral DNA in vitro, showing that the block to integration in arrested cells is not due to a lack of mature integration machinery.
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