Literature DB >> 32645325

The Global Phosphorylation Landscape of SARS-CoV-2 Infection.

Mehdi Bouhaddou1, Danish Memon2, Bjoern Meyer3, Kris M White4, Veronica V Rezelj3, Miguel Correa Marrero2, Benjamin J Polacco1, James E Melnyk5, Svenja Ulferts6, Robyn M Kaake1, Jyoti Batra1, Alicia L Richards1, Erica Stevenson1, David E Gordon1, Ajda Rojc1, Kirsten Obernier1, Jacqueline M Fabius1, Margaret Soucheray1, Lisa Miorin4, Elena Moreno4, Cassandra Koh3, Quang Dinh Tran3, Alexandra Hardy3, Rémy Robinot7, Thomas Vallet3, Benjamin E Nilsson-Payant8, Claudia Hernandez-Armenta2, Alistair Dunham2, Sebastian Weigang9, Julian Knerr6, Maya Modak1, Diego Quintero1, Yuan Zhou1, Aurelien Dugourd10, Alberto Valdeolivas10, Trupti Patil1, Qiongyu Li1, Ruth Hüttenhain1, Merve Cakir1, Monita Muralidharan1, Minkyu Kim1, Gwendolyn Jang1, Beril Tutuncuoglu1, Joseph Hiatt1, Jeffrey Z Guo1, Jiewei Xu1, Sophia Bouhaddou11, Christopher J P Mathy12, Anna Gaulton2, Emma J Manners2, Eloy Félix2, Ying Shi5, Marisa Goff8, Jean K Lim8, Timothy McBride13, Michael C O'Neal13, Yiming Cai13, Jason C J Chang13, David J Broadhurst13, Saker Klippsten13, Emmie De Wit14, Andrew R Leach2, Tanja Kortemme12, Brian Shoichet15, Melanie Ott16, Julio Saez-Rodriguez10, Benjamin R tenOever8, R Dyche Mullins5, Elizabeth R Fischer14, Georg Kochs17, Robert Grosse18, Adolfo García-Sastre19, Marco Vignuzzi20, Jeffery R Johnson21, Kevan M Shokat22, Danielle L Swaney23, Pedro Beltrao24, Nevan J Krogan25.   

Abstract

The causative agent of the coronavirus disease 2019 (COVID-19) pandemic, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), has infected millions and killed hundreds of thousands of people worldwide, highlighting an urgent need to develop antiviral therapies. Here we present a quantitative mass spectrometry-based phosphoproteomics survey of SARS-CoV-2 infection in Vero E6 cells, revealing dramatic rewiring of phosphorylation on host and viral proteins. SARS-CoV-2 infection promoted casein kinase II (CK2) and p38 MAPK activation, production of diverse cytokines, and shutdown of mitotic kinases, resulting in cell cycle arrest. Infection also stimulated a marked induction of CK2-containing filopodial protrusions possessing budding viral particles. Eighty-seven drugs and compounds were identified by mapping global phosphorylation profiles to dysregulated kinases and pathways. We found pharmacologic inhibition of the p38, CK2, CDK, AXL, and PIKFYVE kinases to possess antiviral efficacy, representing potential COVID-19 therapies.
Copyright © 2020 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  AXL; CDK; MAPK; PIKFYVE; SARS-CoV-2; antiviral; casein kinase II; mass spectrometry; p38; phosphoproteomics

Mesh:

Substances:

Year:  2020        PMID: 32645325      PMCID: PMC7321036          DOI: 10.1016/j.cell.2020.06.034

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   41.582


  439 in total

1.  Phosphorylation and activation of cAMP-dependent protein kinase by phosphoinositide-dependent protein kinase.

Authors:  X Cheng; Y Ma; M Moore; B A Hemmings; S S Taylor
Journal:  Proc Natl Acad Sci U S A       Date:  1998-08-18       Impact factor: 11.205

2.  Structure-functional analyses of CRHSP-24 plasticity and dynamics in oxidative stress response.

Authors:  Hai Hou; Fengsong Wang; Wenchi Zhang; Dongmei Wang; Xuemei Li; Mark Bartlam; Xuebiao Yao; Zihe Rao
Journal:  J Biol Chem       Date:  2010-12-22       Impact factor: 5.157

3.  Role of the adapter protein Abi1 in actin-associated signaling and smooth muscle contraction.

Authors:  Tao Wang; Rachel A Cleary; Ruping Wang; Dale D Tang
Journal:  J Biol Chem       Date:  2013-06-05       Impact factor: 5.157

4.  Chromatin loading of E2F-MLL complex by cancer-associated coregulator ANCCA via reading a specific histone mark.

Authors:  Alexey S Revenko; Ekaterina V Kalashnikova; Abigael T Gemo; June X Zou; Hong-Wu Chen
Journal:  Mol Cell Biol       Date:  2010-09-20       Impact factor: 4.272

5.  Human p53 is phosphorylated by p60-cdc2 and cyclin B-cdc2.

Authors:  J R Bischoff; P N Friedman; D R Marshak; C Prives; D Beach
Journal:  Proc Natl Acad Sci U S A       Date:  1990-06       Impact factor: 11.205

6.  ANCCA, an estrogen-regulated AAA+ ATPase coactivator for ERalpha, is required for coregulator occupancy and chromatin modification.

Authors:  June X Zou; Alexey S Revenko; Li B Li; Abigael T Gemo; Hong-Wu Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2007-11-12       Impact factor: 11.205

7.  Identification of a novel serine phosphorylation site in human glutamine:fructose-6-phosphate amidotransferase isoform 1.

Authors:  Yanyan Li; Céline Roux; Sylvie Lazereg; Jean-Pierre LeCaer; Olivier Laprévote; Bernard Badet; Marie-Ange Badet-Denisot
Journal:  Biochemistry       Date:  2007-10-17       Impact factor: 3.162

8.  Comparative analysis of selected innate immune-related genes following infection of immortal DF-1 cells with highly pathogenic (H5N1) and low pathogenic (H9N2) avian influenza viruses.

Authors:  Ai-Ling Liu; Yu-Feng Li; Wenbao Qi; Xiu-Li Ma; Ke-Xiang Yu; Bing Huang; Ming Liao; Feng Li; Jie Pan; Min-Xun Song
Journal:  Virus Genes       Date:  2015-01-04       Impact factor: 2.332

9.  Site-specific phosphorylation of myosin binding protein-C coordinates thin and thick filament activation in cardiac muscle.

Authors:  Saraswathi Ponnam; Ivanka Sevrieva; Yin-Biao Sun; Malcolm Irving; Thomas Kampourakis
Journal:  Proc Natl Acad Sci U S A       Date:  2019-07-15       Impact factor: 11.205

10.  YSK1 is activated by the Golgi matrix protein GM130 and plays a role in cell migration through its substrate 14-3-3zeta.

Authors:  Christian Preisinger; Benjamin Short; Veerle De Corte; Erik Bruyneel; Alexander Haas; Robert Kopajtich; Jan Gettemans; Francis A Barr
Journal:  J Cell Biol       Date:  2004-03-22       Impact factor: 10.539

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  284 in total

1.  Rho GTPases and the emerging role of tunneling nanotubes in physiology and disease.

Authors:  Suli Zhang; Marcelo G Kazanietz; Mariana Cooke
Journal:  Am J Physiol Cell Physiol       Date:  2020-08-26       Impact factor: 4.249

2.  How to Best Protect People With Diabetes From the Impact of SARS-CoV-2: Report of the International COVID-19 and Diabetes Summit.

Authors:  Jennifer Y Zhang; Trisha Shang; David Ahn; Kong Chen; Gerard Coté; Juan Espinoza; Carlos E Mendez; Elias K Spanakis; Bithika Thompson; Amisha Wallia; Lauren E Wisk; David Kerr; David C Klonoff
Journal:  J Diabetes Sci Technol       Date:  2021-01-21

3.  Profiling SARS-CoV-2 Infection by High-Throughput Shotgun Proteomics.

Authors:  Lucia Grenga; Duarte Gouveia; Jean Armengaud
Journal:  Methods Mol Biol       Date:  2022

Review 4.  LARP1 and LARP4: up close with PABP for mRNA 3' poly(A) protection and stabilization.

Authors:  Sandy Mattijssen; Guennadi Kozlov; Bruno D Fonseca; Kalle Gehring; Richard J Maraia
Journal:  RNA Biol       Date:  2021-01-31       Impact factor: 4.652

5.  The isolated La-module of LARP1 mediates 3' poly(A) protection and mRNA stabilization, dependent on its intrinsic PAM2 binding to PABPC1.

Authors:  Sandy Mattijssen; Guennadi Kozlov; Sergei Gaidamakov; Amitabh Ranjan; Bruno D Fonseca; Kalle Gehring; Richard J Maraia
Journal:  RNA Biol       Date:  2020-12-23       Impact factor: 4.652

6.  Development of a potent and selective chemical probe for the pleiotropic kinase CK2.

Authors:  Carrow I Wells; David H Drewry; Julie E Pickett; Amelie Tjaden; Andreas Krämer; Susanne Müller; Laszlo Gyenis; Daniel Menyhart; David W Litchfield; Stefan Knapp; Alison D Axtman
Journal:  Cell Chem Biol       Date:  2021-01-22       Impact factor: 8.116

Review 7.  Inter-proteomic posttranslational modifications of the SARS-CoV-2 and the host proteins ‒ A new frontier.

Authors:  Suresh Mishra; Geetika Bassi; Bl Grégoire Nyomba
Journal:  Exp Biol Med (Maywood)       Date:  2021-01-19

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

Authors:  David E Gordon; Joseph Hiatt; Mehdi Bouhaddou; Veronica V Rezelj; Svenja Ulferts; Hannes Braberg; Alexander S Jureka; Kirsten Obernier; Jeffrey Z Guo; Jyoti Batra; Robyn M Kaake; Andrew R Weckstein; Tristan W Owens; Meghna Gupta; Sergei Pourmal; Erron W Titus; Merve Cakir; Margaret Soucheray; Michael McGregor; Zeynep Cakir; Gwendolyn Jang; Matthew J O'Meara; Tia A Tummino; Ziyang Zhang; Helene Foussard; Ajda Rojc; Yuan Zhou; Dmitry Kuchenov; Ruth Hüttenhain; Jiewei Xu; Manon Eckhardt; Danielle L Swaney; Jacqueline M Fabius; Manisha Ummadi; Beril Tutuncuoglu; Ujjwal Rathore; Maya Modak; Paige Haas; Kelsey M Haas; Zun Zar Chi Naing; Ernst H Pulido; Ying Shi; Inigo Barrio-Hernandez; Danish Memon; Eirini Petsalaki; Alistair Dunham; Miguel Correa Marrero; David Burke; Cassandra Koh; Thomas Vallet; Jesus A Silvas; Caleigh M Azumaya; Christian Billesbølle; Axel F Brilot; Melody G Campbell; Amy Diallo; Miles Sasha Dickinson; Devan Diwanji; Nadia Herrera; Nick Hoppe; Huong T Kratochvil; Yanxin Liu; Gregory E Merz; Michelle Moritz; Henry C Nguyen; Carlos Nowotny; Cristina Puchades; Alexandrea N Rizo; Ursula Schulze-Gahmen; Amber M Smith; Ming Sun; Iris D Young; Jianhua Zhao; Daniel Asarnow; Justin Biel; Alisa Bowen; Julian R Braxton; Jen Chen; Cynthia M Chio; Un Seng Chio; Ishan Deshpande; Loan Doan; Bryan Faust; Sebastian Flores; Mingliang Jin; Kate Kim; Victor L Lam; Fei Li; Junrui Li; Yen-Li Li; Yang Li; Xi Liu; Megan Lo; Kyle E Lopez; Arthur A Melo; Frank R Moss; Phuong Nguyen; Joana Paulino; Komal Ishwar Pawar; Jessica K Peters; Thomas H Pospiech; Maliheh Safari; Smriti Sangwan; Kaitlin Schaefer; Paul V Thomas; Aye C Thwin; Raphael Trenker; Eric Tse; Tsz Kin Martin Tsui; Feng Wang; Natalie Whitis; Zanlin Yu; Kaihua Zhang; Yang Zhang; Fengbo Zhou; Daniel Saltzberg; Anthony J Hodder; Amber S Shun-Shion; Daniel M Williams; Kris M White; Romel Rosales; Thomas Kehrer; Lisa Miorin; Elena Moreno; Arvind H Patel; Suzannah Rihn; Mir M Khalid; Albert Vallejo-Gracia; Parinaz Fozouni; Camille R Simoneau; Theodore L Roth; David Wu; Mohd Anisul Karim; Maya Ghoussaini; Ian Dunham; Francesco Berardi; Sebastian Weigang; Maxime Chazal; Jisoo Park; James Logue; Marisa McGrath; Stuart Weston; Robert Haupt; C James Hastie; Matthew Elliott; Fiona Brown; Kerry A Burness; Elaine Reid; Mark Dorward; Clare Johnson; Stuart G Wilkinson; Anna Geyer; Daniel M Giesel; Carla Baillie; Samantha Raggett; Hannah Leech; Rachel Toth; Nicola Goodman; Kathleen C Keough; Abigail L Lind; Reyna J Klesh; Kafi R Hemphill; Jared Carlson-Stevermer; Jennifer Oki; Kevin Holden; Travis Maures; Katherine S Pollard; Andrej Sali; David A Agard; Yifan Cheng; James S Fraser; Adam Frost; Natalia Jura; Tanja Kortemme; Aashish Manglik; Daniel R Southworth; Robert M Stroud; Dario R Alessi; Paul Davies; Matthew B Frieman; Trey Ideker; Carmen Abate; Nolwenn Jouvenet; Georg Kochs; Brian Shoichet; Melanie Ott; Massimo Palmarini; Kevan M Shokat; Adolfo García-Sastre; Jeremy A Rassen; Robert Grosse; Oren S Rosenberg; Kliment A Verba; Christopher F Basler; Marco Vignuzzi; Andrew A Peden; Pedro Beltrao; Nevan J Krogan
Journal:  Science       Date:  2020-10-15       Impact factor: 47.728

Review 9.  Mechanisms of COVID-19-induced cardiovascular disease: Is sepsis or exosome the missing link?

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10.  Development, validation, and application of an LC-MS/MS method for the determination of the AXL/FLT3 inhibitor gilteritinib in mouse plasma.

Authors:  Dominique A Garrison; Yan Jin; Muhammad Erfan Uddin; Alex Sparreboom; Sharyn D Baker
Journal:  J Chromatogr B Analyt Technol Biomed Life Sci       Date:  2021-07-30       Impact factor: 3.205

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