Single-cell multi-omics analysis of the immune response in COVID-19
Creators: name: Stephenson, Emily
name: Reynolds, Gary
name: Botting, Rachel A.
name: Calero-Nieto, Fernando J.
name: Morgan, Michael D.
name: Tuong, Zewen Kelvin
name: Bach, Karsten
name: Sungnak, Waradon
name: Worlock, Kaylee B.
name: Yoshida, Masahiro
name: Kumasaka, Natsuhiko
name: Kania, Katarzyna
name: Engelbert, Justin
name: Olabi, Bayanne
name: Spegarova, Jarmila Stremenova
name: Wilson, Nicola K.
name: Mende, Nicole
name: Jardine, Laura
name: Gardner, Louis C. S.
name: Goh, Issac
name: Horsfall, Dave
name: McGrath, Jim
name: Webb, Simone
name: Mather, Michael W.
name: Lindeboom, Rik G. H.
name: Dann, Emma
name: Huang, Ni
name: Polanski, Krzysztof
name: Prigmore, Elena
name: Gothe, Florian
name: Scott, Jonathan
name: Payne, Rebecca P.
name: Baker, Kenneth F.
name: Hanrath, Aidan T.
name: Schim Van Der Loeff, Ina C. D.
name: Barr, Andrew S.
name: Sanchez-Gonzalez, Amada
name: Bergamaschi, Laura
name: Mescia, Federica
name: Barnes, Josephine L.
name: Kilich, Eliz
name: De Wilton, Angus
name: Saigal, Anita
name: Saleh, Aarash
name: Janes, Sam M.
name: Smith, Claire M.
name: Gopee, Nusayhah
name: Wilson, Caroline
name: Coupland, Paul
name: Coxhead, Jonathan M.
name: Kiselev, Vladimir Yu
name: Van Dongen, Stijn
name: Bacardit, Jaume
name: King, Hamish W.
name: Rostron, Anthony J.
name: Simpson, A. John
name: Hambleton, Sophie
name: Laurenti, Elisa
name: Lyons, Paul A.
name: Meyer, Kerstin B.
name: Nikolić, Marko Z.
name: Duncan, Christopher J. A.
name: Teichmann, Sarah A.
name: Clatworthy, Menna R.
name: Marioni, John C.
name: Göttgens, Berthold
name: Haniffa, Muzlifah
name: Baker, Stephen
name: Bradley, John R.
name: Dougan, Gordon
name: Goodfellow, Ian G.
name: Gupta, Ravindra K.
name: Hess, Christoph
name: Kingston, Nathalie
name: Lehner, Paul J.
name: Matheson, Nicholas J.
name: Owehand, Willem H.
name: Saunders, Caroline
name: Smith, Kenneth G. C.
name: Summers, Charlotte
name: Thaventhiran, James E. D.
name: Toshner, Mark
name: Weekes, Michael P.
name: Bucke, Ashlea
name: Calder, Jo
name: Canna, Laura
name: Domingo, Jason
name: Elmer, Anne
name: Fuller, Stewart
name: Harris, Julie
name: Hewitt, Sarah
name: Kennet, Jane
name: Jose, Sherly
name: Kourampa, Jenny
name: Meadows, Anne
name: O’Brien, Criona
name: Price, Jane
name: Publico, Cherry
name: Rastall, Rebecca
name: Ribeiro, Carla
name: Rowlands, Jane
name: Ruffolo, Valentina
name: Tordesillas, Hugo
name: Bullman, Ben
name: Dunmore, Benjamin J.
name: Fawke, Stuart
name: Gräf, Stefan
name: Hodgson, Josh
name: Huang, Christopher
name: Hunter, Kelvin
name: Jones, Emma
name: Legchenko, Ekaterina
name: Matara, Cecilia
name: Martin, Jennifer
name: O’Donnell, Ciara
name: Pointon, Linda
name: Pond, Nicole
name: Shih, Joy
name: Sutcliffe, Rachel
name: Tilly, Tobias
name: Treacy, Carmen
name: Tong, Zhen
name: Wood, Jennifer
name: Wylot, Marta
name: Betancourt, Ariana
name: Bower, Georgie
name: De Sa, Aloka
name: Epping, Madeline
name: Huhn, Oisin
name: Jackson, Sarah
name: Jarvis, Isobel
name: Marsden, Jimmy
name: Nice, Francesca
name: Okecha, Georgina
name: Omarjee, Ommar
name: Perera, Marianne
name: Richoz, Nathan
name: Sharma, Rahul
name: Turner, Lori
name: De Bie, Eckart M. D. D.
name: Bunclark, Katherine
name: Josipovic, Masa
name: Mackay, Michael
name: Michael, Alice
name: Rossi, Sabrina
name: Selvan, Mayurun
name: Spencer, Sarah
name: Yong, Cissy
name: Ansaripour, Ali
name: Mwaura, Lucy
name: Patterson, Caroline
name: Polwarth, Gary
name: Polgarova, Petra
name: Stefano, Giovanni Di
name: Allison, John
name: Butcher, Helen
name: Caputo, Daniela
name: Clapham-Riley, Debbie
name: Dewhurst, Eleanor
name: Furlong, Anita
name: Graves, Barbara
name: Gray, Jennifer
name: Ivers, Tasmin
name: Kasanicki, Mary
name: Gresley, Emma Le
name: Linger, Rachel
name: Meloy, Sarah
name: Muldoon, Francesca
name: Ovington, Nigel
name: Papadia, Sofia
name: Phelan, Isabel
name: Stark, Hannah
name: Stirrups, Kathleen E.
name: Townsend, Paul
name: Walker, Neil
name: Webster, Jennifer
Publisher: name: Apollo - University of Cambridge Repository
Year: 2021
Subjects: Article
/631/326/596/4130
/631/250/232
/692/699/255/2514
/631/208/514/1949
/631/250/254
article

description: Funder: Lister Institute of Preventive Medicine; doi: https://doi.org/10.13039/501100001255
description: Funder: University College London, Birkbeck MRC Doctoral Training Programme
description: Funder: The Jikei University School of Medicine
description: Funder: Action Medical Research (GN2779)
description: Funder: NIHR Clinical Lectureship (CL-2017-01-004)
description: Funder: NIHR (ACF-2018-01-004) and the BMA Foundation
description: Funder: Chan Zuckerberg Initiative (grant 2017-174169) and from Wellcome (WT211276/Z/18/Z and Sanger core grant WT206194)
description: Funder: UKRI Innovation/Rutherford Fund Fellowship allocated by the MRC and the UK Regenerative Medicine Platform (MR/5005579/1 to M.Z.N.). M.Z.N. and K.B.M. have been funded by the Rosetrees Trust (M944)
description: Funder: Barbour Foundation
description: Funder: ERC Consolidator and EU MRG-Grammar awards
description: Funder: Versus Arthritis Cure Challenge Research Grant (21777), and an NIHR Research Professorship (RP-2017-08-ST2-002)
description: Funder: European Molecular Biology Laboratory (EMBL)
description: Abstract: Analysis of human blood immune cells provides insights into the coordinated response to viral infections such as severe acute respiratory syndrome coronavirus 2, which causes coronavirus disease 2019 (COVID-19). We performed single-cell transcriptome, surface proteome and T and B lymphocyte antigen receptor analyses of over 780,000 peripheral blood mononuclear cells from a cross-sectional cohort of 130 patients with varying severities of COVID-19. We identified expansion of nonclassical monocytes expressing complement transcripts (CD16+C1QA/B/C+) that sequester platelets and were predicted to replenish the alveolar macrophage pool in COVID-19. Early, uncommitted CD34+ hematopoietic stem/progenitor cells were primed toward megakaryopoiesis, accompanied by expanded megakaryocyte-committed progenitors and increased platelet activation. Clonally expanded CD8+ T cells and an increased ratio of CD8+ effector T cells to effector memory T cells characterized severe disease, while circulating follicular helper T cells accompanied mild disease. We observed a relative loss of IgA2 in symptomatic disease despite an overall expansion of plasmablasts and plasma cells. Our study highlights the coordinated immune response that contributes to COVID-19 pathogenesis and reveals discrete cellular components that can be targeted for therapy.