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1. Emerging variants develop total escape from potent monoclonal antibodies induced by BA.4/5 infection

Author

Liu, Chang, Das, Raksha, Dijokaite-Guraliuc, Aiste, Zhou, Daming, Mentzer, Alexander J., Supasa, Piyada, Selvaraj, Muneeswaran, Duyvesteyn, Helen M. E., Ritter, Thomas G., Temperton, Nigel, Klenerman, Paul, Dunachie, Susanna J., Paterson, Neil G., Williams, Mark A., Hall, David R., Fry, Elizabeth E., Mongkolsapaya, Juthathip, Ren, Jingshan, Stuart, David I., and Screaton, Gavin R.

Published
2024
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3. Accelerating Inhibitor Discovery With A Deep Generative Foundation Model: Validation for SARS-CoV-2 Drug Targets

Author

Chenthamarakshan, Vijil, Hoffman, Samuel C., Owen, C. David, Lukacik, Petra, Strain-Damerell, Claire, Fearon, Daren, Malla, Tika R., Tumber, Anthony, Schofield, Christopher J., Duyvesteyn, Helen M. E., Dejnirattisai, Wanwisa, Carrique, Loic, Walter, Thomas S., Screaton, Gavin R., Matviiuk, Tetiana, Mojsilovic, Aleksandra, Crain, Jason, Walsh, Martin A., Stuart, David I., and Das, Payel

Subjects
Quantitative Biology - Quantitative Methods, Computer Science - Machine Learning, Quantitative Biology - Biomolecules, Statistics - Machine Learning
Abstract

The discovery of novel inhibitor molecules for emerging drug-target proteins is widely acknowledged as a challenging inverse design problem: Exhaustive exploration of the vast chemical search space is impractical, especially when the target structure or active molecules are unknown. Here we validate experimentally the broad utility of a deep generative framework trained at-scale on protein sequences, small molecules, and their mutual interactions -- that is unbiased toward any specific target. As demonstrators, we consider two dissimilar and relevant SARS-CoV-2 targets: the main protease and the spike protein (receptor binding domain, RBD). To perform target-aware design of novel inhibitor molecules, a protein sequence-conditioned sampling on the generative foundation model is performed. Despite using only the target sequence information, and without performing any target-specific adaptation of the generative model, micromolar-level inhibition was observed in in vitro experiments for two candidates out of only four synthesized for each target. The most potent spike RBD inhibitor also exhibited activity against several variants in live virus neutralization assays. These results therefore establish that a single, broadly deployable generative foundation model for accelerated hit discovery is effective and efficient, even in the most general case where neither target structure nor binder information is available., Comment: Revised title, abstract, and text; additional figures

Published
2022

6. A structure-function analysis shows SARS-CoV-2 BA.2.86 balances antibody escape and ACE2 affinity

Author

Liu, Chang, Zhou, Daming, Dijokaite-Guraliuc, Aiste, Supasa, Piyada, Duyvesteyn, Helen M.E., Ginn, Helen M., Selvaraj, Muneeswaran, Mentzer, Alexander J., Das, Raksha, de Silva, Thushan I., Ritter, Thomas G., Plowright, Megan, Newman, Thomas A.H., Stafford, Lizzie, Kronsteiner, Barbara, Temperton, Nigel, Lui, Yuan, Fellermeyer, Martin, Goulder, Philip, Klenerman, Paul, Dunachie, Susanna J., Barton, Michael I., Kutuzov, Mikhail A., Dushek, Omer, Fry, Elizabeth E., Mongkolsapaya, Juthathip, Ren, Jingshan, Stuart, David I., and Screaton, Gavin R.

Published
2024
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7. Evaluation of T cell responses to naturally processed variant SARS-CoV-2 spike antigens in individuals following infection or vaccination

Author

Yin, Zixi, Chen, Ji-Li, Lu, Yongxu, Wang, Beibei, Godfrey, Leila, Mentzer, Alexander J., Yao, Xuan, Liu, Guihai, Wellington, Dannielle, Zhao, Yiqi, Wing, Peter A.C., Dejnirattisa, Wanwisa, Supasa, Piyada, Liu, Chang, Hublitz, Philip, Beveridge, Ryan, Waugh, Craig, Clark, Sally-Ann, Clark, Kevin, Sopp, Paul, Rostron, Timothy, Mongkolsapaya, Juthathip, Screaton, Gavin R., Ogg, Graham, Ewer, Katie, Pollard, Andrew J., Gilbert, Sarah, Knight, Julian C., Lambe, Teresa, Smith, Geoffrey L., Dong, Tao, and Peng, Yanchun

Published
2023
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8. Rapid escape of new SARS-CoV-2 Omicron variants from BA.2-directed antibody responses

Author

Conlon, Christopher, Deeks, Alexandra, Frater, John, Gardiner, Siobhan, Jämsén, Anni, Jeffery, Katie, Malone, Tom, Phillips, Eloise, Kronsteiner-Dobramysl, Barbara, Abraham, Priyanka, Bibi, Sagida, Lambe, Teresa, Longet, Stephanie, Tipton, Tom, Carrol, Miles, Stafford, Lizzie, Dijokaite-Guraliuc, Aiste, Das, Raksha, Zhou, Daming, Ginn, Helen M., Liu, Chang, Duyvesteyn, Helen M.E., Huo, Jiandong, Nutalai, Rungtiwa, Supasa, Piyada, Selvaraj, Muneeswaran, de Silva, Thushan I., Plowright, Megan, Newman, Thomas A.H., Hornsby, Hailey, Mentzer, Alexander J., Skelly, Donal, Ritter, Thomas G., Temperton, Nigel, Klenerman, Paul, Barnes, Eleanor, Dunachie, Susanna J., Roemer, Cornelius, Peacock, Thomas P., Paterson, Neil G., Williams, Mark A., Hall, David R., Fry, Elizabeth E., Mongkolsapaya, Juthathip, Ren, Jingshan, Stuart, David I., and Screaton, Gavin R.

Published
2023
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9. Continuous population-level monitoring of SARS-CoV-2 seroprevalence in a large European metropolitan region

Author

Emmenegger, Marc, De Cecco, Elena, Lamparter, David, Jacquat, Raphaël P.B., Riou, Julien, Menges, Dominik, Ballouz, Tala, Ebner, Daniel, Schneider, Matthias M., Morales, Itzel Condado, Doğançay, Berre, Guo, Jingjing, Wiedmer, Anne, Domange, Julie, Imeri, Marigona, Moos, Rita, Zografou, Chryssa, Batkitar, Leyla, Madrigal, Lidia, Schneider, Dezirae, Trevisan, Chiara, Gonzalez-Guerra, Andres, Carrella, Alessandra, Dubach, Irina L., Xu, Catherine K., Meisl, Georg, Kosmoliaptsis, Vasilis, Malinauskas, Tomas, Burgess-Brown, Nicola, Owens, Ray, Hatch, Stephanie, Mongkolsapaya, Juthathip, Screaton, Gavin R., Schubert, Katharina, Huck, John D., Liu, Feimei, Pojer, Florence, Lau, Kelvin, Hacker, David, Probst-Müller, Elsbeth, Cervia, Carlo, Nilsson, Jakob, Boyman, Onur, Saleh, Lanja, Spanaus, Katharina, von Eckardstein, Arnold, Schaer, Dominik J., Ban, Nenad, Tsai, Ching-Ju, Marino, Jacopo, Schertler, Gebhard F.X., Ebert, Nadine, Thiel, Volker, Gottschalk, Jochen, Frey, Beat M., Reimann, Regina R., Hornemann, Simone, Ring, Aaron M., Knowles, Tuomas P.J., Puhan, Milo A., Althaus, Christian L., Xenarios, Ioannis, Stuart, David I., and Aguzzi, Adriano

Published
2023
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10. A delicate balance between antibody evasion and ACE2 affinity for Omicron BA.2.75

Author

Huo, Jiandong, Dijokaite-Guraliuc, Aiste, Liu, Chang, Zhou, Daming, Ginn, Helen M., Das, Raksha, Supasa, Piyada, Selvaraj, Muneeswaran, Nutalai, Rungtiwa, Tuekprakhon, Aekkachai, Duyvesteyn, Helen M.E., Mentzer, Alexander J., Skelly, Donal, Ritter, Thomas G., Amini, Ali, Bibi, Sagida, Adele, Sandra, Johnson, Sile Ann, Paterson, Neil G., Williams, Mark A., Hall, David R., Plowright, Megan, Newman, Thomas A.H., Hornsby, Hailey, de Silva, Thushan I., Temperton, Nigel, Klenerman, Paul, Barnes, Eleanor, Dunachie, Susanna J., Pollard, Andrew J., Lambe, Teresa, Goulder, Philip, Fry, Elizabeth E., Mongkolsapaya, Juthathip, Ren, Jingshan, Stuart, David I., and Screaton, Gavin R.

Published
2023
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11. Effect of priming interval on reactogenicity, peak immunological response, and waning after homologous and heterologous COVID-19 vaccine schedules: exploratory analyses of Com-COV, a randomised control trial

Author

Munro, Alasdair P.S., Bartholomew, Jazz, Presland, Laura, Horswill, Sarah, Warren, Sarah, Varkonyi-Clifford, Sophie, Saich, Stephen, Adams, Kirsty, Ricamara, Marivic, Turner, Nicola, Yee Ting, Nicole Y., Whittley, Sarah, Rampling, Tommy, Desai, Amisha, Brown, Claire H., Qureshi, Ehsaan, Gokani, Karishma, Naker, Kush, Kellett Wright, Johanna K., Williams, Rachel L., Riaz, Tawassal, Penciu, Florentina D., Carson, Amy, Di Maso, Claudio, Mead, Gracie, Howe, Elizabeth G., Vichos, Iason, Ghulam Farooq, Mujtaba, Noristani, Rabiullah, Yao, Xin L., Oldfield, Neil J., Hammersley, Daniel, Belton, Sue, Royal, Simon, San Francisco Ramos, Alberto, Hultin, Cecilia, Galiza, Eva P., Crook, Rebecca, Bula, Marcin, Fyles, Fred, Burhan, Hassan, Maelin, Flora, Hughes, Elen, Okenyi, Emmanuel, Shaw, Robert H, Liu, Xinxue, Stuart, Arabella S V, Greenland, Melanie, Aley, Parvinder K, Andrews, Nick J, Cameron, J Claire, Charlton, Sue, Clutterbuck, Elizabeth A, Collins, Andrea M, Dejnirattisai, Wanwisa, Dinesh, Tanya, Faust, Saul N, Ferreira, Daniela M, Finn, Adam, Green, Christopher A, Hallis, Bassam, Heath, Paul T, Hill, Helen, Lambe, Teresa, Lazarus, Rajeka, Libri, Vincenzo, Long, Fei, Mujadidi, Yama F, Plested, Emma L, Morey, Ella R, Provstgaard-Morys, Samuel, Ramasamy, Maheshi N, Ramsay, Mary, Read, Robert C, Robinson, Hannah, Screaton, Gavin R, Singh, Nisha, Turner, David P J, Turner, Paul J, Walker, Laura L, White, Rachel, Nguyen-Van-Tam, Jonathan S, and Snape, Matthew D

Published
2022
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12. Persistence of immunogenicity after seven COVID-19 vaccines given as third dose boosters following two doses of ChAdOx1 nCov-19 or BNT162b2 in the UK: Three month analyses of the COV-BOOST trial.

Author

Liu, Xinxue, Munro, Alasdair P S, Feng, Shuo, Janani, Leila, Aley, Parvinder K, Babbage, Gavin, Baxter, David, Bula, Marcin, Cathie, Katrina, Chatterjee, Krishna, Dejnirattisai, Wanwisa, Dodd, Kate, Enever, Yvanne, Qureshi, Ehsaan, Goodman, Anna L., Green, Christopher A, Harndahl, Linda, Haughney, John, Hicks, Alexander, van der Klaauw, Agatha A., Kwok, Jonathan, Libri, Vincenzo, Llewelyn, Martin J, McGregor, Alastair C, Minassian, Angela M., Moore, Patrick, Mughal, Mehmood, Mujadidi, Yama F, Holliday, Kyra, Osanlou, Orod, Osanlou, Rostam, Owens, Daniel R, Pacurar, Mihaela, Palfreeman, Adrian, Pan, Daniel, Rampling, Tommy, Regan, Karen, Saich, Stephen, Serafimova, Teona, Saralaya, Dinesh, Screaton, Gavin R, Sharma, Sunil, Sheridan, Ray, Sturdy, Ann, Supasa, Piyada, Thomson, Emma C, Todd, Shirley, Twelves, Chris, Read, Robert C., Charlton, Sue, Hallis, Bassam, Ramsay, Mary, Andrews, Nick, Lambe, Teresa, Nguyen-Van-Tam, Jonathan S, Cornelius, Victoria, Snape, Matthew D, and Faust, Saul N

Published
2022
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16. Oligomerization-driven avidity correlates with SARS-CoV-2 cellular binding and inhibition.

Author

Asor, Roi, Olerinyova, Anna, Burnap, Sean A., Kushwah, Manish S., Soltermann, Fabian, Rudden, Lucas S. P., Hensen, Mario, Vasiljevic, Snežana, Brun, Juliane, Hill, Michelle, Liu Chang, Dejnirattisai, Wanwisa, Supasa, Piyada, Mongkolsapaya, Juthathip, Daming Zhou, Stuart, David I., Screaton, Gavin R., Degiacomi, Matteo T., Zitzmann, Nicole, and Benesch, Justin L. P.

Subjects
ANGIOTENSIN converting enzyme, RECEPTOR antibodies, OLIGOMERIZATION, SARS-CoV-2, CELL membranes
Abstract

Cellular processes are controlled by the thermodynamics of the underlying biomolecular interactions. Frequently, structural investigations use one monomeric binding partner, while ensemble measurements of binding affinities generally yield one affinity representative of a 1:1 interaction, despite the majority of the proteome consisting of oligomeric proteins. For example, viral entry and inhibition in SARS-CoV-2 involve a trimeric spike surface protein, a dimeric angiotensin-converting enzyme 2 (ACE2) cell-surface receptor and dimeric antibodies. Here, we reveal that cooperativity correlates with infectivity and inhibition as opposed to 1:1 binding strength. We show that ACE2 oligomerizes spike more strongly for more infectious variants, while exhibiting weaker 1:1 affinity. Furthermore, we find that antibodies use induced oligomerization both as a primary inhibition mechanism and to enhance the effects of receptor-site blocking. Our results suggest that naive affinity measurements are poor predictors of potency, and introduce an antibody-based inhibition mechanism for oligomeric targets. More generally, they point toward a much broader role of induced oligomerization in controlling biomolecular interactions. [ABSTRACT FROM AUTHOR]

Published
2024
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17. Heterologous versus homologous COVID-19 booster vaccination in previous recipients of two doses of CoronaVac COVID-19 vaccine in Brazil (RHH-001): a phase 4, non-inferiority, single blind, randomised study

Author

Bittaye, Mustapha, Woods, Danielle, Davies, Sophie, Smith, Holly, Ulaszewska, Marta, Sanders, Helen, Mabette, Reece, Vernon, Sophie, Valliji, Zara, Mead, Gracie, Tejpal, Chitra, Park, Juyeon, Beveridge, Amy, Eldawi, Ahmed, Felle, Sally, Fraga, Mayara, Muniz Martins, Thaiane, Martins Medrado, Claudia Loureiro, de Arruda Cordeiro Matos, Laiana Januse, Costa Clemens, Sue Ann, Weckx, Lily, Clemens, Ralf, Almeida Mendes, Ana Verena, Ramos Souza, Alessandra, Silveira, Mariana B V, da Guarda, Suzete Nascimento Farias, de Nobrega, Maristela Miyamoto, de Moraes Pinto, Maria Isabel, Gonzalez, Isabela G S, Salvador, Natalia, Franco, Marilia Miranda, de Avila Mendonça, Renata Navis, Queiroz Oliveira, Isabelle Silva, de Freitas Souza, Bruno Solano, Aley, Parvinder, Bibi, Sagida, Cantrell, Liberty, Dejnirattisai, Wanwisa, Liu, Xinxue, Mongkolsapaya, Juthathip, Supasa, Piyada, Screaton, Gavin R, Lambe, Teresa, Voysey, Merryn, and Pollard, Andrew J

Published
2022
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18. Immunogenicity, safety, and reactogenicity of heterologous COVID-19 primary vaccination incorporating mRNA, viral-vector, and protein-adjuvant vaccines in the UK (Com-COV2): a single-blind, randomised, phase 2, non-inferiority trial

Author

Stuart, Arabella S V, Shaw, Robert H, Liu, Xinxue, Greenland, Melanie, Aley, Parvinder K, Andrews, Nick J, Cameron, J C, Charlton, Sue, Clutterbuck, Elizabeth A, Collins, Andrea M, Darton, Tom, Dinesh, Tanya, Duncan, Christopher J A, England, Anna, Faust, Saul N, Ferreira, Daniela M, Finn, Adam, Goodman, Anna L, Green, Christopher A, Hallis, Bassam, Heath, Paul T, Hill, Helen, Horsington, Bryn M, Lambe, Teresa, Lazarus, Rajeka, Libri, Vincenzo, Lillie, Patrick J, Mujadidi, Yama F, Payne, Ruth, Plested, Emma L, Provstgaard-Morys, Samuel, Ramasamy, Maheshi N, Ramsay, Mary, Read, Robert C, Robinson, Hannah, Screaton, Gavin R, Singh, Nisha, Turner, David P J, Turner, Paul J, Vichos, Iason, White, Rachel, Nguyen-Van-Tam, Jonathan S, and Snape, Matthew D

Published
2022
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19. An immunodominant NP105–113-B*07:02 cytotoxic T cell response controls viral replication and is associated with less severe COVID-19 disease

Author

Peng, Yanchun, Felce, Suet Ling, Dong, Danning, Penkava, Frank, Mentzer, Alexander J., Yao, Xuan, Liu, Guihai, Yin, Zixi, Chen, Ji-Li, Lu, Yongxu, Wellington, Dannielle, Wing, Peter A. C., Dominey-Foy, Delaney C. C., Jin, Chen, Wang, Wenbo, Hamid, Megat Abd, Fernandes, Ricardo A., Wang, Beibei, Fries, Anastasia, Zhuang, Xiaodong, Ashley, Neil, Rostron, Timothy, Waugh, Craig, Sopp, Paul, Hublitz, Philip, Beveridge, Ryan, Tan, Tiong Kit, Dold, Christina, Kwok, Andrew J., Rich-Griffin, Charlotte, Dejnirattisa, Wanwisa, Liu, Chang, Kurupati, Prathiba, Nassiri, Isar, Watson, Robert A., Tong, Orion, Taylor, Chelsea A., Kumar Sharma, Piyush, Sun, Bo, Curion, Fabiola, Revale, Santiago, Garner, Lucy C., Jansen, Kathrin, Ferreira, Ricardo C., Attar, Moustafa, Fry, Jeremy W., Russell, Rebecca A., Stauss, Hans J., James, William, Townsend, Alain, Ho, Ling-Pei, Klenerman, Paul, Mongkolsapaya, Juthathip, Screaton, Gavin R., Dendrou, Calliope, Sansom, Stephen N., Bashford-Rogers, Rachael, Chain, Benny, Smith, Geoffrey L., McKeating, Jane A., Fairfax, Benjamin P., Bowness, Paul, McMichael, Andrew J., Ogg, Graham, Knight, Julian C., and Dong, Tao

Published
2022
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20. Comparative analysis of SARS-CoV-2 neutralization titers reveals consistency between human and animal model serum and across assays

Author

Mühlemann, Barbara, primary, Wilks, Samuel H., additional, Baracco, Lauren, additional, Bekliz, Meriem, additional, Carreño, Juan Manuel, additional, Corman, Victor M., additional, Davis-Gardner, Meredith E., additional, Dejnirattisai, Wanwisa, additional, Diamond, Michael S., additional, Douek, Daniel C., additional, Drosten, Christian, additional, Eckerle, Isabella, additional, Edara, Venkata-Viswanadh, additional, Ellis, Madison, additional, Fouchier, Ron A. M., additional, Frieman, Matthew, additional, Godbole, Sucheta, additional, Haagmans, Bart, additional, Halfmann, Peter J., additional, Henry, Amy R., additional, Jones, Terry C., additional, Katzelnick, Leah C., additional, Kawaoka, Yoshihiro, additional, Kimpel, Janine, additional, Krammer, Florian, additional, Lai, Lilin, additional, Liu, Chang, additional, Lusvarghi, Sabrina, additional, Meyer, Benjamin, additional, Mongkolsapaya, Juthathip, additional, Montefiori, David C., additional, Mykytyn, Anna, additional, Netzl, Antonia, additional, Pollett, Simon, additional, Rössler, Annika, additional, Screaton, Gavin R., additional, Shen, Xiaoying, additional, Sigal, Alex, additional, Simon, Viviana, additional, Subramanian, Rahul, additional, Supasa, Piyada, additional, Suthar, Mehul S., additional, Türeli, Sina, additional, Wang, Wei, additional, Weiss, Carol D., additional, and Smith, Derek J., additional

Published
2024
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21. Guillain-Barré Syndrome Following Zika Virus Infection Is Associated With a Diverse Spectrum of Peripheral Nerve Reactive Antibodies

Author

Davies, Alexander J., Lleixà, Cinta, Siles, Ana M., Gourlay, Dawn S., Berridge, Georgina, Dejnirattisai, Wanwisa, Ramírez-Santana, Carolina, Anaya, Juan-Manuel, Falconar, Andrew K., Romero-Vivas, Claudia M., Osorio, Lyda, Parra, Beatriz, Screaton, Gavin R., Mongkolsapaya, Juthathip, Fischer, Roman, Pardo, Carlos A., Halstead, Susan K., Willison, Hugh J., Querol, Luis, and Rinaldi, Simon

Published
2023
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22. Safety and immunogenicity of the ChAdOx1 nCoV-19 (AZD1222) vaccine against SARS-CoV-2 in HIV infection: a single-arm substudy of a phase 2/3 clinical trial

Author

Watson, Marion E.E., Song, Rinn, Cicconi, Paola, Minassian, Angela M., Bibi, Sagida, Kerridge, Simon, Singh, Nisha, Green, Catherine M., Douglas, Alexander D., Lawrie, Alison M., Clutterbuck, Elizabeth A., Frater, John, Ewer, Katie J, Ogbe, Ane, Pace, Mathew, Adele, Sandra, Adland, Emily, Alagaratnam, Jasmini, Aley, Parvinder K, Ali, Mohammad, Ansari, M Azim, Bara, Anna, Bittaye, Mustapha, Broadhead, Samantha, Brown, Anthony, Brown, Helen, Cappuccini, Federica, Cooney, Enya, Dejnirattisai, Wanwisa, Dold, Christina, Fairhead, Cassandra, Fok, Henry, Folegatti, Pedro M, Fowler, Jamie, Gibbs, Charlotte, Goodman, Anna L, Jenkin, Daniel, Jones, Mathew, Makinson, Rebecca, Marchevsky, Natalie G, Mujadidi, Yama F, Nguyen, Hanna, Parolini, Lucia, Petersen, Claire, Plested, Emma, Pollock, Katrina M, Ramasamy, Maheshi N, Rhead, Sarah, Robinson, Hannah, Robinson, Nicola, Rongkard, Patpong, Ryan, Fiona, Serrano, Sonia, Tipoe, Timothy, Voysey, Merryn, Waters, Anele, Zacharopoulou, Panagiota, Barnes, Eleanor, Dunachie, Susanna, Goulder, Philip, Klenerman, Paul, Screaton, Gavin R, Winston, Alan, Hill, Adrian V S, Gilbert, Sarah C, Pollard, Andrew J, Fidler, Sarah, Fox, Julie, and Lambe, Teresa

Published
2021
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23. A haemagglutination test for rapid detection of antibodies to SARS-CoV-2

Author

Townsend, Alain, Rijal, Pramila, Xiao, Julie, Tan, Tiong Kit, Huang, Kuan-Ying A., Schimanski, Lisa, Huo, Jiandong, Gupta, Nimesh, Rahikainen, Rolle, Matthews, Philippa C., Crook, Derrick, Hoosdally, Sarah, Dunachie, Susanna, Barnes, Eleanor, Street, Teresa, Conlon, Christopher P., Frater, John, Arancibia-Cárcamo, Carolina V., Rudkin, Justine, Stoesser, Nicole, Karpe, Fredrik, Neville, Matthew, Ploeg, Rutger, Oliveira, Marta, Roberts, David J., Lamikanra, Abigail A., Tsang, Hoi Pat, Bown, Abbie, Vipond, Richard, Mentzer, Alexander J., Knight, Julian C., Kwok, Andrew J., Screaton, Gavin R., Mongkolsapaya, Juthathip, Dejnirattisai, Wanwisa, Supasa, Piyada, Klenerman, Paul, Dold, Christina, Baillie, J. Kenneth, Moore, Shona C., Openshaw, Peter J. M., Semple, Malcolm G., Turtle, Lance C. W., Ainsworth, Mark, Allcock, Alice, Beer, Sally, Bibi, Sagida, Skelly, Donal, Stafford, Lizzy, Jeffrey, Katie, O’Donnell, Denise, Clutterbuck, Elizabeth, Espinosa, Alexis, Mendoza, Maria, Georgiou, Dominique, Lockett, Teresa, Martinez, Jose, Perez, Elena, Gallardo Sanchez, Veronica, Scozzafava, Giuseppe, Sobrinodiaz, Alberto, Thraves, Hannah, and Joly, Etienne

Published
2021
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25. Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient

Author

Zhou, Daming, Duyvesteyn, Helen M. E., Chen, Cheng-Pin, Huang, Chung-Guei, Chen, Ting-Hua, Shih, Shin-Ru, Lin, Yi-Chun, Cheng, Chien-Yu, Cheng, Shu-Hsing, Huang, Yhu-Chering, Lin, Tzou-Yien, Ma, Che, Huo, Jiandong, Carrique, Loic, Malinauskas, Tomas, Ruza, Reinis R., Shah, Pranav N. M., Tan, Tiong Kit, Rijal, Pramila, Donat, Robert F., Godwin, Kerry, Buttigieg, Karen R., Tree, Julia A., Radecke, Julika, Paterson, Neil G., Supasa, Piyada, Mongkolsapaya, Juthathip, Screaton, Gavin R., Carroll, Miles W., Gilbert-Jaramillo, Javier, Knight, Michael L., James, William, Owens, Raymond J., Naismith, James H., Townsend, Alain R., Fry, Elizabeth E., Zhao, Yuguang, Ren, Jingshan, Stuart, David I., and Huang, Kuan-Ying A.

Published
2020
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26. A new class of highly potent, broadly neutralizing antibodies isolated from viremic patients infected with dengue virus

Author

Dejnirattisai, Wanwisa, Wongwiwat, Wiyada, Supasa, Sunpetchuda, Zhang, Xiaokang, Dai, Xinghong, Rouvinski, Alexander, Jumnainsong, Amonrat, Edwards, Carolyn, Quyen, Nguyen Than Ha, Duangchinda, Thaneeya, Grimes, Jonathan M, Tsai, Wen-Yang, Lai, Chih-Yun, Wang, Wei-Kung, Malasit, Prida, Farrar, Jeremy, Simmons, Cameron P, Zhou, Z Hong, Rey, Felix A, Mongkolsapaya, Juthathip, and Screaton, Gavin R

Subjects
Medical Microbiology, Biomedical and Clinical Sciences, Immunology, Vaccine Related, Prevention, Infectious Diseases, Immunization, Biotechnology, Rare Diseases, Vector-Borne Diseases, Biodefense, Emerging Infectious Diseases, Infection, Good Health and Well Being, Animals, Antibodies, Monoclonal, Antibodies, Neutralizing, Biological Assay, Cell Line, Dengue, Dengue Virus, Enzyme-Linked Immunosorbent Assay, Humans, Immunoblotting, Viral Envelope Proteins, Biochemistry and cell biology
Abstract

Dengue is a rapidly emerging, mosquito-borne viral infection, with an estimated 400 million infections occurring annually. To gain insight into dengue immunity, we characterized 145 human monoclonal antibodies (mAbs) and identified a previously unknown epitope, the envelope dimer epitope (EDE), that bridges two envelope protein subunits that make up the 90 repeating dimers on the mature virion. The mAbs to EDE were broadly reactive across the dengue serocomplex and fully neutralized virus produced in either insect cells or primary human cells, with 50% neutralization in the low picomolar range. Our results provide a path to a subunit vaccine against dengue virus and have implications for the design and monitoring of future vaccine trials in which the induction of antibody to the EDE should be prioritized.

Published
2015

28. Generation of SARS-CoV-2 escape mutations by monoclonal antibody therapy

Author

Ragonnet-Cronin, Manon, primary, Nutalai, Rungtiwa, additional, Huo, Jiandong, additional, Dijokaite-Guraliuc, Aiste, additional, Das, Raksha, additional, Tuekprakhon, Aekkachai, additional, Supasa, Piyada, additional, Liu, Chang, additional, Selvaraj, Muneeswaran, additional, Groves, Natalie, additional, Hartman, Hassan, additional, Ellaby, Nicholas, additional, Mark Sutton, J., additional, Bahar, Mohammad W., additional, Zhou, Daming, additional, Fry, Elizabeth, additional, Ren, Jingshan, additional, Brown, Colin, additional, Klenerman, Paul, additional, Dunachie, Susanna J., additional, Mongkolsapaya, Juthathip, additional, Hopkins, Susan, additional, Chand, Meera, additional, Stuart, David I., additional, Screaton, Gavin R., additional, and Rokadiya, Sakib, additional

Published
2023
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29. Persistence of immune response in heterologous COVID vaccination schedules in the Com-COV2 study – A single-blind, randomised trial incorporating mRNA, viral-vector and protein-adjuvant vaccines

Author

Shaw, Robert H., primary, Greenland, Melanie, additional, Stuart, Arabella S.V., additional, Aley, Parvinder K., additional, Andrews, Nick J., additional, Cameron, J. Claire, additional, Charlton, Sue, additional, Clutterbuck, Elizabeth A., additional, Collins, Andrea M., additional, Darton, Tom, additional, Dinesh, Tanya, additional, Duncan, Christopher J.A., additional, Faust, Saul N., additional, Ferreira, Daniela M., additional, Finn, Adam, additional, Goodman, Anna L., additional, Green, Christopher A., additional, Hallis, Bassam, additional, Heath, Paul T., additional, Hill, Helen, additional, Lambe, Teresa, additional, Libri, Vincenzo, additional, Lillie, Patrick J., additional, Morey, Ella, additional, Mujadidi, Yama F., additional, Payne, Ruth, additional, Plested, Emma L., additional, Provstgaard-Morys, Samuel, additional, Ramasamy, Maheshi N., additional, Ramsay, Mary, additional, Read, Robert C., additional, Robinson, Hannah, additional, Screaton, Gavin R., additional, Singh, Nisha, additional, Turner, David P.J., additional, Turner, Paul J., additional, White, Rachel, additional, Nguyen-Van-Tam, Jonathan S., additional, Liu, Xinxue, additional, and Snape, Matthew D., additional

Published
2023
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36. Corrigendum to “Persistence of immunogenicity after seven COVID-19 vaccines given as third dose boosters following two doses of ChAdOx1 nCov-19 or BNT162b2 in the UK: Three month analyses of the COV-BOOST trial” [J Infect 84(6) (2022) 795–813, 5511]

Author

Liu, Xinxue, primary, Munro, Alasdair PS, additional, Feng, Shuo, additional, Janani, Leila, additional, Aley, Parvinder K, additional, Babbage, Gavin, additional, Baxter, David, additional, Bula, Marcin, additional, Cathie, Katrina, additional, Chatterjee, Krishna, additional, Dejnirattisai, Wanwisa, additional, Dodd, Kate, additional, Enever, Yvanne, additional, Qureshi, Ehsaan, additional, Goodman, Anna L., additional, Green, Christopher A, additional, Harndahl, Linda, additional, Haughney, John, additional, Hicks, Alexander, additional, van der Klaauw, Agatha A., additional, Kwok, Jonathan, additional, Libri, Vincenzo, additional, Llewelyn, Martin J, additional, McGregor, Alastair C, additional, Minassian, Angela M., additional, Moore, Patrick, additional, Mughal, Mehmood, additional, Mujadidi, Yama F, additional, Holliday, Kyra, additional, Osanlou, Orod, additional, Osanlou, Rostam, additional, Owens, Daniel R, additional, Pacurar, Mihaela, additional, Palfreeman, Adrian, additional, Pan, Daniel, additional, Rampling, Tommy, additional, Regan, Karen, additional, Saich, Stephen, additional, Serafimova, Teona, additional, Saralaya, Dinesh, additional, Screaton, Gavin R, additional, Sharma, Sunil, additional, Sheridan, Ray, additional, Sturdy, Ann, additional, Supasa, Piyada, additional, Thomson, Emma C, additional, Todd, Shirley, additional, Twelves, Chris, additional, Read, Robert C., additional, Charlton, Sue, additional, Hallis, Bassam, additional, Ramsay, Mary, additional, Andrews, Nick, additional, Lambe, Teresa, additional, Nguyen-Van-Tam, Jonathan S, additional, Cornelius, Victoria, additional, Snape, Matthew D, additional, and Faust, Saul N, additional

Published
2023
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38. Rapid escape of new SARS-CoV-2 Omicron variants from BA.2-directed antibody responses

Author

Dijokaite-Guraliuc, Aiste, primary, Das, Raksha, additional, Zhou, Daming, additional, Ginn, Helen M., additional, Liu, Chang, additional, Duyvesteyn, Helen M.E., additional, Huo, Jiandong, additional, Nutalai, Rungtiwa, additional, Supasa, Piyada, additional, Selvaraj, Muneeswaran, additional, de Silva, Thushan I., additional, Plowright, Megan, additional, Newman, Thomas A.H., additional, Hornsby, Hailey, additional, Mentzer, Alexander J., additional, Skelly, Donal, additional, Ritter, Thomas G., additional, Temperton, Nigel, additional, Klenerman, Paul, additional, Barnes, Eleanor, additional, Dunachie, Susanna J., additional, Roemer, Cornelius, additional, Peacock, Thomas P., additional, Paterson, Neil G., additional, Williams, Mark A., additional, Hall, David R., additional, Fry, Elizabeth E., additional, Mongkolsapaya, Juthathip, additional, Ren, Jingshan, additional, Stuart, David I., additional, Screaton, Gavin R., additional, Conlon, Christopher, additional, Deeks, Alexandra, additional, Frater, John, additional, Gardiner, Siobhan, additional, Jämsén, Anni, additional, Jeffery, Katie, additional, Malone, Tom, additional, Phillips, Eloise, additional, Kronsteiner-Dobramysl, Barbara, additional, Abraham, Priyanka, additional, Bibi, Sagida, additional, Lambe, Teresa, additional, Longet, Stephanie, additional, Tipton, Tom, additional, Carrol, Miles, additional, and Stafford, Lizzie, additional

Published
2023
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42. Rapid escape of new SARS-CoV-2 Omicron variants from BA.2 directed antibody responses

Author

Dijokaite-Guraliuc, Aiste, Das, Raksha, Zhou, Daming, Ginn, Helen M., Liu, Chang, Duyvesteyn, Helen M.E., Huo, Jiandong, Nutalai, Rungtiwa, Supasa, Piyada, Selvaraj, Muneeswaran, de Silva, Thushan I., Plowright, Megan, Newman, Thomas A.H., Hornsby, Hailey, Mentzer, Alexander J., Skelly, Donal, Ritter, Thomas G., Temperton, Nigel, Klenerman, Paul, Barnes, Eleanor, Dunachie, Susanna J., Roemer, Cornelius, Peacock, Thomas P., Paterson, Neil G., Williams, Mark A., Hall, David R., Fry, Elizabeth E., Mongkolsapaya, Juthathip, Ren, Jingshan, Stuart, David I., Screaton, Gavin R., Dijokaite-Guraliuc, Aiste, Das, Raksha, Zhou, Daming, Ginn, Helen M., Liu, Chang, Duyvesteyn, Helen M.E., Huo, Jiandong, Nutalai, Rungtiwa, Supasa, Piyada, Selvaraj, Muneeswaran, de Silva, Thushan I., Plowright, Megan, Newman, Thomas A.H., Hornsby, Hailey, Mentzer, Alexander J., Skelly, Donal, Ritter, Thomas G., Temperton, Nigel, Klenerman, Paul, Barnes, Eleanor, Dunachie, Susanna J., Roemer, Cornelius, Peacock, Thomas P., Paterson, Neil G., Williams, Mark A., Hall, David R., Fry, Elizabeth E., Mongkolsapaya, Juthathip, Ren, Jingshan, Stuart, David I., and Screaton, Gavin R.

Abstract

In November 2021 Omicron BA.1, containing a raft of new spike mutations emerged and quickly spread globally. Intense selection pressure to escape the antibody response produced by vaccines or SARS-CoV-2 infection then led to a rapid succession of Omicron sub-lineages with waves of BA.2 then BA.4/5 infection. Recently, many variants have emerged such as BQ.1 and XBB, which carry up to 8 additional RBD amino-acid substitutions compared to BA.2. We describe a panel of 25 potent mAbs generated from vaccinees suffering BA.2 breakthrough infections. Epitope mapping shows potent mAb binding shifting to 3 clusters, 2 corresponding to early-pandemic binding hotspots. The RBD mutations in recent variants map close to these binding sites and knock out or severely knock down neutralization activity of all but 1 potent mAb. This recent mAb escape corresponds with large falls in neutralization titre of vaccine or BA.1, BA.2 or BA.4/5 immune serum.

Published
2023

43. Remarkably low affinity of CD4/peptide-major histocompatibility complex class II protein interactions

Author

Jönsson, Peter, Southcombe, Jennifer H., Santos, Ana Mafalda, Huo, Jiandong, Fernandes, Ricardo A., McColl, James, Lever, Melissa, Evans, Edward J., Hudson, Alexander, Chang, Veronica T., Hanke, Tomáš, Godkin, Andrew, Dunne, Paul D., Horrocks, Mathew H., Palayret, Matthieu, Screaton, Gavin R., Petersen, Jan, Rossjohn, Jamie, Fugger, Lars, Dushek, Omer, Xu, Xiao-Ning, Davis, Simon J., and Klenerman, David

Published
2016

44. Evaluation of T Cell Responses to Naturally Processed Variant SARS-CoV-2 Spike Antigens in Individuals Following Infection or Vaccination

Author

Yin, Zixi, primary, Chen, Ji-Li, additional, Lu, Yongxu, additional, Wang, Beibei, additional, Godfrey, Leila, additional, Mentzer, Alexander J., additional, Yao, Xuan, additional, Liu, Guihai, additional, Wellington, Dannielle, additional, Zhong, Qi, additional, Wing, Peter AC, additional, Dejnirattisai, Wanwisa, additional, Supasa, Piyada, additional, Liu, Chang, additional, Hublitz, Philip, additional, Beveridge, Ryan, additional, Waugh, Craig, additional, Clark, Sally-Ann, additional, Clark, Kevin, additional, Sopp, Paul, additional, Rostron, Timothy, additional, Mongkolspaya, Juthathip, additional, Screaton, Gavin R., additional, Ogg, Graham S., additional, Pollard, Andrew J., additional, Gilbert, Sarah C., additional, Knight, Julian, additional, Lambe, Teresa, additional, Smith, Geoffrey, additional, Dong, Tao, additional, and Peng, Yanchun, additional

Published
2023
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46. Germline bias dictates cross-serotype reactivity in a common dengue-virus-specific CD8+ T cell response

Author

Culshaw, Abigail, Ladell, Kristin, Gras, Stephanie, McLaren, James E, Miners, Kelly L, Farenc, Carine, van den Heuvel, Heleen, Gostick, Emma, Dejnirattisai, Wanwisa, Wangteeraprasert, Apirath, Duangchinda, Thaneeya, Chotiyarnwong, Pojchong, Limpitikul, Wannee, Vasanawathana, Sirijitt, Malasit, Prida, Dong, Tao, Rossjohn, Jamie, Mongkolsapaya, Juthathip, Price, David A, and Screaton, Gavin R

Published
2017
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49. Guillain-Barré Syndrome Following Zika Virus Infection Is Associated With a Diverse Spectrum of Peripheral Nerve Reactive Antibodies

Author

Davies, Alexander J., primary, Lleixà, Cinta, additional, Siles, Ana M., additional, Gourlay, Dawn S., additional, Berridge, Georgina, additional, Dejnirattisai, Wanwisa, additional, Ramírez-Santana, Carolina, additional, Anaya, Juan-Manuel, additional, Falconar, Andrew K., additional, Romero-Vivas, Claudia M., additional, Osorio, Lyda, additional, Parra, Beatriz, additional, Screaton, Gavin R., additional, Mongkolsapaya, Juthathip, additional, Fischer, Roman, additional, Pardo, Carlos A., additional, Halstead, Susan K., additional, Willison, Hugh J., additional, Querol, Luis, additional, and Rinaldi, Simon, additional

Published
2022
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50. Effect of priming interval on reactogenicity, peak immunological response, and waning after homologous and heterologous COVID-19 vaccine schedules: exploratory analyses of Com-COV, a randomised control trial

Author

Shaw, Robert H, primary, Liu, Xinxue, additional, Stuart, Arabella S V, additional, Greenland, Melanie, additional, Aley, Parvinder K, additional, Andrews, Nick J, additional, Cameron, J Claire, additional, Charlton, Sue, additional, Clutterbuck, Elizabeth A, additional, Collins, Andrea M, additional, Dejnirattisai, Wanwisa, additional, Dinesh, Tanya, additional, Faust, Saul N, additional, Ferreira, Daniela M, additional, Finn, Adam, additional, Green, Christopher A, additional, Hallis, Bassam, additional, Heath, Paul T, additional, Hill, Helen, additional, Lambe, Teresa, additional, Lazarus, Rajeka, additional, Libri, Vincenzo, additional, Long, Fei, additional, Mujadidi, Yama F, additional, Plested, Emma L, additional, Morey, Ella R, additional, Provstgaard-Morys, Samuel, additional, Ramasamy, Maheshi N, additional, Ramsay, Mary, additional, Read, Robert C, additional, Robinson, Hannah, additional, Screaton, Gavin R, additional, Singh, Nisha, additional, Turner, David P J, additional, Turner, Paul J, additional, Vichos, Iason, additional, Walker, Laura L, additional, White, Rachel, additional, Nguyen-Van-Tam, Jonathan S, additional, Snape, Matthew D, additional, Munro, Alasdair P.S., additional, Bartholomew, Jazz, additional, Presland, Laura, additional, Horswill, Sarah, additional, Warren, Sarah, additional, Varkonyi-Clifford, Sophie, additional, Saich, Stephen, additional, Adams, Kirsty, additional, Ricamara, Marivic, additional, Turner, Nicola, additional, Yee Ting, Nicole Y., additional, Whittley, Sarah, additional, Rampling, Tommy, additional, Desai, Amisha, additional, Brown, Claire H., additional, Qureshi, Ehsaan, additional, Gokani, Karishma, additional, Naker, Kush, additional, Kellett Wright, Johanna K., additional, Williams, Rachel L., additional, Riaz, Tawassal, additional, Penciu, Florentina D., additional, Carson, Amy, additional, Di Maso, Claudio, additional, Mead, Gracie, additional, Howe, Elizabeth G., additional, Ghulam Farooq, Mujtaba, additional, Noristani, Rabiullah, additional, Yao, Xin L., additional, Oldfield, Neil J., additional, Hammersley, Daniel, additional, Belton, Sue, additional, Royal, Simon, additional, San Francisco Ramos, Alberto, additional, Hultin, Cecilia, additional, Galiza, Eva P., additional, Crook, Rebecca, additional, Bula, Marcin, additional, Fyles, Fred, additional, Burhan, Hassan, additional, Maelin, Flora, additional, Hughes, Elen, additional, and Okenyi, Emmanuel, additional

Published
2022
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