Proteomics

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SARS-CoV-2 variants evolve convergent strategies to remodel the host response: Affinity Purification Mass Spectrometry (APMS)

ABSTRACT: We sought to compare differences in the SARS-CoV-2 virus-human protein interaction networks between mutated (from the SARS-CoV-2 variants of concern) and wild-type viral proteins. Here, we ectopically expressed 2x-strep-tagged constructs encoding mutant or wild-type SARS-CoV-2 viral proteins in HEK293T cells followed by affinity purification mass spectrometry (APMS). This allowed us to quantify differences in protein-protein interactions attributable to mutations present within SARS-CoV-2 variant proteins.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human) Severe Acute Respiratory Syndrome Coronavirus 2

TISSUE(S): Early Embryonic Cell, Kidney

DISEASE(S): Covid-19

SUBMITTER: Mehdi Bouhaddou  

LAB HEAD: Nevan J.

PROVIDER: PXD036798 | Pride | 2024-02-16

REPOSITORIES: Pride

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SARS-CoV-2 variants evolve convergent strategies to remodel the host response.

Bouhaddou Mehdi M   Reuschl Ann-Kathrin AK   Polacco Benjamin J BJ   Thorne Lucy G LG   Ummadi Manisha R MR   Ye Chengjin C   Rosales Romel R   Pelin Adrian A   Batra Jyoti J   Jang Gwendolyn M GM   Xu Jiewei J   Moen Jack M JM   Richards Alicia L AL   Zhou Yuan Y   Harjai Bhavya B   Stevenson Erica E   Rojc Ajda A   Ragazzini Roberta R   Whelan Matthew V X MVX   Furnon Wilhelm W   De Lorenzo Giuditta G   Cowton Vanessa V   Syed Abdullah M AM   Ciling Alison A   Deutsch Noa N   Pirak Daniel D   Dowgier Giulia G   Mesner Dejan D   Turner Jane L JL   McGovern Briana L BL   Rodriguez M Luis ML   Leiva-Rebollo Rocio R   Dunham Alistair S AS   Zhong Xiaofang X   Eckhardt Manon M   Fossati Andrea A   Liotta Nicholas F NF   Kehrer Thomas T   Cupic Anastasija A   Rutkowska Magdalena M   Mena Ignacio I   Aslam Sadaf S   Hoffert Alyssa A   Foussard Helene H   Olwal Charles Ochieng' CO   Huang Weiqing W   Zwaka Thomas T   Pham John J   Lyons Molly M   Donohue Laura L   Griffin Aliesha A   Nugent Rebecca R   Holden Kevin K   Deans Robert R   Aviles Pablo P   Lopez-Martin Jose A JA   Jimeno Jose M JM   Obernier Kirsten K   Fabius Jacqueline M JM   Soucheray Margaret M   Hüttenhain Ruth R   Jungreis Irwin I   Kellis Manolis M   Echeverria Ignacia I   Verba Kliment K   Bonfanti Paola P   Beltrao Pedro P   Sharan Roded R   Doudna Jennifer A JA   Martinez-Sobrido Luis L   Patel Arvind H AH   Palmarini Massimo M   Miorin Lisa L   White Kris K   Swaney Danielle L DL   Garcia-Sastre Adolfo A   Jolly Clare C   Zuliani-Alvarez Lorena L   Towers Greg J GJ   Krogan Nevan J NJ  

Cell 20230921 21

SARS-CoV-2 variants of concern (VOCs) emerged during the COVID-19 pandemic. Here, we used unbiased systems approaches to study the host-selective forces driving VOC evolution. We discovered that VOCs evolved convergent strategies to remodel the host by modulating viral RNA and protein levels, altering viral and host protein phosphorylation, and rewiring virus-host protein-protein interactions. Integrative computational analyses revealed that although Alpha, Beta, Gamma, and Delta ultimately conv  ...[more]

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