Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms

Сравнительные сети взаимодействий белков хозяина и коронавирусов выявляют пан-вирусные механизмы заболевания
Katherine S. Pollard, Mohd Anisul Karim, Andrej Šali, Trey Ideker, Aashish Manglik, Andrew A. Peden, Ying Shi, Francesco Berardi, Mark Dorward, Rachel Toth, Dario R. Alessi, Inigo Barrio‐Hernandez, Pedro Beltrão, Ziyang Zhang, David A. Agard, Yifan Cheng, Kaihua Zhang, Kerstin Lindblad‐Toh, Elinor K. Karlsson, Brian K. Shoichet, Ming Sun, Georg Kochs, Adolfo García‐Sastre, Tanja Kortemme, Andreas R. Pfenning, James S. Fraser, Ian Dunham, Michael Hiller, Robert M. Stroud, Robert Grosse, Harris A. Lewin, Hannes Braberg, Klaus‐Peter Koepfli, David A. Ray, Feng Wang, Donovan Trinidad, Jianhua Zhao, Devan Diwanji, David Wu, Jennifer Oki, Theodore L. Roth, Corrie Painter, Jeremy A. Rassen, Kevin Holden, Frank R. Moss, Adam Frost, Daniel Asarnow, Fei Li, James Logue, Matthew B. Frieman, Joseph Hiatt, Michael McGregor, Nevan J. Krogan, Yuan Zhou, Morgan Wirthlin, Gaurav Chauhan, Kirsten Obernier, Ola Wallerman, Kevan M. Shokat, Kris M. White, Mehdi Bouhaddou, Jesus A. Silvas, Daniel R. Southworth, Eric Tse, Kathleen C. Keough, Joana Damas, Michael X. Dong, Diane P. Genereux, Graham M. Hughes, Irene M. Kaplow, Abigail Lind, Jennifer R. S. Meadows, Martin Nweeia, Kliment A. Verba, Yang Li, Gwendolyn Μ. Jang, Margaret Soucheray, Danielle L. Swaney, Ross Swofford, Matthew J. O’Meara, Sunny Zhang, Huong T. Kratochvil, Melody G. Campbell, Oren S. Rosenberg, Nicole S. Persky, Axel F. Brilot, Emma C. Teeling, Beril Tutuncuoglu, Marisa E. McGrath, J.T. Biel, I.D. Young, Sergei Pourmal, Meghna Gupta, Clare Johnson, C. James Hastie, Parinaz Fozouni, Jessica K. Peters, Ujjwal Rathore, Feng Wang, Caleigh M. Azumaya, Jared Carlson-Stevermer, Ruth Hüttenhain, Manon Eckhardt, Jisoo Park, Helene Foussard, Natalia Jura, Ishan Deshpande, Bryan Faust, Mélanie Ott, Nick Hoppe, Maya Ghoussaini, Danish Memon, Yanxin Liu, Suzannah J. Rihn, Henry C. Nguyen, Massimo Palmarini, Arvind H. Patel, Xue Li, Paul V. Thomas, Sebastian Weigang, David E. Gordon, Veronica V. Rezelj, Svenja Ulferts, Alexander S. Jureka, Jeffrey Guo, Jyoti Batra, Robyn M. Kaake, Andrew R. Weckstein, Tristan W. Owens, Erron W. Titus, Merve Çakır, Zeynep Cakir, Tia A. Tummino, Ajda Rojc, Dmitry Kuchenov, Jiewei Xu, Jacqueline M. Fabius, Manisha R. Ummadi, Maya Modak, Paige Haas, Kelsey M. Haas, Zun Zar Chi Naing, Ernst H. Pulido, Eirini Petsalaki, Alistair S. Dunham, Miguel Correa Marrero, David F. Burke, Cassandra Koh, Thomas Vallet, Christian B. Billesbølle, Amy Diallo, Miles Sasha Dickinson, Nadia Herrera, Gregory E. Merz, Michelle Moritz, Carlos Nowotny, Cristina Puchades, Alexandrea N. Rizo, Ursula Schulze‐Gahmen, Amber M. Smith, Alisa Bowen, Julian R. Braxton, Jen Chen, Cynthia M. Chio, Un Seng Chio, Loan Doan, Sebastián Flores, Mingliang Jin, Kate Kim, Victor L. Lam, Junrui Li, Yen-Li Li, Xi Liu, Megan Lo, Kyle E. Lopez, Arthur A. Melo, Phuong Nguyen, Joana Paulino, Komal Ishwar Pawar, Kaitlin Schaefer, Nolwenn Jouvenet, Daniel M. Williams, Marco Vignuzzi, Lisa Miorin, Elena Moreno, Daniel J. Saltzberg, Maliheh Safari, Raphael Trenker, Camille R. Simoneau, Christopher F. Basler, Robert Haupt, Stuart Weston, Amber S. Shun-Shion, Thomas H. Pospiech, Smriti Sangwan, Aye C. Thwin, Tsz Kin Martin Tsui, Natalie Whitis, Zanlin Yu, Fengbo Zhou, Anthony J. Hodder, Romel Rosales, Thomas Kehrer, Mir M. Khalid, Albert Vallejo-Gracia, Maxime Chazal, Matthew Elliott, Fiona Brown, Kerry Burness, Elaine Reid, Stuart G. Wilkinson, Anna Geyer, Daniel M. Giesel, Carla Baillie, Samantha Raggett, Hannah Leech, Nicola Goodman, Reyna Klesh, Kafi Hemphill, Travis J. Maures, Paul Davies, Carmen Abate, Marco Corbo, Bodgan Kirilenko, Huabin Zhao, Oliver A. Ryderq, Vikki Marinescu, Sarahjane Power
2020-10-15

Tom70–ORF9b interactioncomparative viral-human protein interactioncryo-electron microscopy structural characterizationgenetic screening of host factorshost-coronavirus protein-protein interaction networks
The COVID-19 pandemic, caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is a grave threat to public health and the global economy. SARS-CoV-2 is closely related to the more lethal but less transmissible coronaviruses SARS-CoV-1 and Middle East respiratory syndrome coronavirus (MERS-CoV). Here, we have carried out comparative viral-human protein-protein interaction and viral protein localization analyses for all three viruses. Subsequent functional genetic screening identified host factors that functionally impinge on coronavirus proliferation, including Tom70, a mitochondrial chaperone protein that interacts with both SARS-CoV-1 and SARS-CoV-2 ORF9b, an interaction we structurally characterized using cryo-electron microscopy. Combining genetically validated host factors with both COVID-19 patient genetic data and medical billing records identified molecular mechanisms and potential drug treatments that merit further molecular and clinical study.
1
Comparative viral-human protein-protein interaction and viral protein localization analyses were performed for SARS-CoV-2, SARS-CoV-1, and MERS-CoV.
2
Functional genetic screens identified host factors that influence coronavirus proliferation, including mitochondrial chaperone Tom70.
3
Integration of genetically validated host factors with COVID-19 patient genetics and medical billing records revealed molecular mechanisms and potential drug treatments for further study.
4
Tom70 interacts with ORF9b from SARS-CoV-1 and SARS-CoV-2; this interaction was structurally characterized by cryo-electron microscopy.

Comparative host–coronavirus protein–protein interaction networks for SARS-CoV-2, SARS-CoV-1, and MERS-CoV

Pan-viral molecular disease mechanisms and host factors revealed by comparative viral–human protein interactions, viral protein localization, functional genetic screens, structural characterization (Tom70–ORF9b), and integration with patient genetics and medical records to identify mechanisms and potential drug treatments

Publication Details
Publication Date
2020-10-15
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Authors
Katherine S. Pollard
Mohd Anisul Karim
Andrej Šali
Trey Ideker
Aashish Manglik
Andrew A. Peden
Ying Shi
Francesco Berardi
Mark Dorward
Rachel Toth
Dario R. Alessi
Inigo Barrio‐Hernandez
Pedro Beltrão
Ziyang Zhang
David A. Agard
Yifan Cheng
Kaihua Zhang
Kerstin Lindblad‐Toh
Elinor K. Karlsson
Brian K. Shoichet
Ming Sun
Georg Kochs
Adolfo García‐Sastre
Tanja Kortemme
Andreas R. Pfenning
James S. Fraser
Ian Dunham
Michael Hiller
Robert M. Stroud
Robert Grosse
Harris A. Lewin
Hannes Braberg
Klaus‐Peter Koepfli
David A. Ray
Feng Wang
Donovan Trinidad
Jianhua Zhao
Devan Diwanji
David Wu
Jennifer Oki
Theodore L. Roth
Corrie Painter
Jeremy A. Rassen
Kevin Holden
Frank R. Moss
Adam Frost
Daniel Asarnow
Fei Li
James Logue
Matthew B. Frieman
Joseph Hiatt
Michael McGregor
Nevan J. Krogan
Yuan Zhou
Morgan Wirthlin
Gaurav Chauhan
Kirsten Obernier
Ola Wallerman
Kevan M. Shokat
Kris M. White
Mehdi Bouhaddou
Jesus A. Silvas
Daniel R. Southworth
Eric Tse
Kathleen C. Keough
Joana Damas
Michael X. Dong
Diane P. Genereux
Graham M. Hughes
Irene M. Kaplow
Abigail Lind
Jennifer R. S. Meadows
Martin Nweeia
Kliment A. Verba
Yang Li
Gwendolyn Μ. Jang
Margaret Soucheray
Danielle L. Swaney
Ross Swofford
Matthew J. O’Meara
Sunny Zhang
Huong T. Kratochvil
Melody G. Campbell
Oren S. Rosenberg
Nicole S. Persky
Axel F. Brilot
Emma C. Teeling
Beril Tutuncuoglu
Marisa E. McGrath
J.T. Biel
I.D. Young
Sergei Pourmal
Meghna Gupta
Clare Johnson
C. James Hastie
Parinaz Fozouni
Jessica K. Peters
Ujjwal Rathore
Feng Wang
Caleigh M. Azumaya
Jared Carlson-Stevermer
Ruth Hüttenhain
Manon Eckhardt
Jisoo Park
Helene Foussard
Natalia Jura
Ishan Deshpande
Bryan Faust
Mélanie Ott
Nick Hoppe
Maya Ghoussaini
Danish Memon
Yanxin Liu
Suzannah J. Rihn
Henry C. Nguyen
Massimo Palmarini
Arvind H. Patel
Xue Li
Paul V. Thomas
Sebastian Weigang
David E. Gordon
Veronica V. Rezelj
Svenja Ulferts
Alexander S. Jureka
Jeffrey Guo
Jyoti Batra
Robyn M. Kaake
Andrew R. Weckstein
Tristan W. Owens
Erron W. Titus
Merve Çakır
Zeynep Cakir
Tia A. Tummino
Ajda Rojc
Dmitry Kuchenov
Jiewei Xu
Jacqueline M. Fabius
Manisha R. Ummadi
Maya Modak
Paige Haas
Kelsey M. Haas
Zun Zar Chi Naing
Ernst H. Pulido
Eirini Petsalaki
Alistair S. Dunham
Miguel Correa Marrero
David F. Burke
Cassandra Koh
Thomas Vallet
Christian B. Billesbølle
Amy Diallo
Miles Sasha Dickinson
Nadia Herrera
Gregory E. Merz
Michelle Moritz
Carlos Nowotny
Cristina Puchades
Alexandrea N. Rizo
Ursula Schulze‐Gahmen
Amber M. Smith
Alisa Bowen
Julian R. Braxton
Jen Chen
Cynthia M. Chio
Un Seng Chio
Loan Doan
Sebastián Flores
Mingliang Jin
Kate Kim
Victor L. Lam
Junrui Li
Yen-Li Li
Xi Liu
Megan Lo
Kyle E. Lopez
Arthur A. Melo
Phuong Nguyen
Joana Paulino
Komal Ishwar Pawar
Kaitlin Schaefer
Nolwenn Jouvenet
Daniel M. Williams
Marco Vignuzzi
Lisa Miorin
Elena Moreno
Daniel J. Saltzberg
Maliheh Safari
Raphael Trenker
Camille R. Simoneau
Christopher F. Basler
Robert Haupt
Stuart Weston
Amber S. Shun-Shion
Thomas H. Pospiech
Smriti Sangwan
Aye C. Thwin
Tsz Kin Martin Tsui
Natalie Whitis
Zanlin Yu
Fengbo Zhou
Anthony J. Hodder
Romel Rosales
Thomas Kehrer
Mir M. Khalid
Albert Vallejo-Gracia
Maxime Chazal
Matthew Elliott
Fiona Brown
Kerry Burness
Elaine Reid
Stuart G. Wilkinson
Anna Geyer
Daniel M. Giesel
Carla Baillie
Samantha Raggett
Hannah Leech
Nicola Goodman
Reyna Klesh
Kafi Hemphill
Travis J. Maures
Paul Davies
Carmen Abate
Marco Corbo
Bodgan Kirilenko
Huabin Zhao
Oliver A. Ryderq
Vikki Marinescu
Sarahjane Power
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