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1. Spatial scales of COVID-19 transmission in Mexico

Author: Klein, Brennan, Hartle, Harrison, Shrestha, Munik, Zenteno, Ana Cecilia, Cordera, David Barros Sierra, Nicolas-Carlock, José R., Bento, Ana I., Althouse, Benjamin M., Gutierrez, Bernardo, Escalera-Zamudio, Marina, Reyes-Sandoval, Arturo, Pybus, Oliver G., Vespignani, Alessandro, Diaz-Quiñonez, Jose Alberto, Scarpino, Samuel V., and Kraemer, Moritz U. G.
Subjects: Physics - Physics and Society, Statistics - Applications
Abstract: During outbreaks of emerging infectious diseases, internationally connected cities often experience large and early outbreaks, while rural regions follow after some delay. This hierarchical structure of disease spread is influenced primarily by the multiscale structure of human mobility. However, during the COVID-19 epidemic, public health responses typically did not take into consideration the explicit spatial structure of human mobility when designing non-pharmaceutical interventions (NPIs). NPIs were applied primarily at national or regional scales. Here we use weekly anonymized and aggregated human mobility data and spatially highly resolved data on COVID-19 cases, deaths and hospitalizations at the municipality level in Mexico to investigate how behavioural changes in response to the pandemic have altered the spatial scales of transmission and interventions during its first wave (March - June 2020). We find that the epidemic dynamics in Mexico were initially driven by SARS-CoV-2 exports from Mexico State and Mexico City, where early outbreaks occurred. The mobility network shifted after the implementation of interventions in late March 2020, and the mobility network communities became more disjointed while epidemics in these communities became increasingly synchronised. Our results provide actionable and dynamic insights into how to use network science and epidemiological modelling to inform the spatial scale at which interventions are most impactful in mitigating the spread of COVID-19 and infectious diseases in general.
Published: 2023

2. Emergence and widespread circulation of a recombinant SARS-CoV-2 lineage in North America

Author: Gutierrez, Bernardo, Castelán Sánchez, Hugo G., Candido, Darlan da Silva, Jackson, Ben, Fleishon, Shay, Houzet, Renaud, Ruis, Christopher, Delaye, Luis, Faria, Nuno R., Rambaut, Andrew, Pybus, Oliver G., and Escalera-Zamudio, Marina
Published: 2022
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3. Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study

Author: Koshy, Cherian, Ash, Amy, Wise, Emma, Moore, Nathan, Mori, Matilde, Cortes, Nick, Lynch, Jessica, Kidd, Stephen, Fairley, Derek, Curran, Tanya, McKenna, James, Adams, Helen, Fraser, Christophe, Golubchik, Tanya, Bonsall, David, Hassan-Ibrahim, Mohammed, Malone, Cassandra, Cogger, Benjamin, Wantoch, Michelle, Reynolds, Nicola, Warne, Ben, Maksimovic, Joshua, Spellman, Karla, McCluggage, Kathryn, John, Michaela, Beer, Robert, Afifi, Safiah, Morgan, Sian, Marchbank, Angela, Price, Anna, Kitchen, Christine, Gulliver, Huw, Merrick, Ian, Southgate, Joel, Guest, Martyn, Munn, Robert, Workman, Trudy, Connor, Thomas, Fuller, William, Bresner, Catherine, Snell, Luke, Patel, Amita, Charalampous, Themoula, Nebbia, Gaia, Batra, Rahul, Edgeworth, Jonathan, Robson, Samuel, Beckett, Angela, Aanensen, David, Underwood, Anthony, Yeats, Corin, Abudahab, Khalil, Taylor, Ben, Menegazzo, Mirko, Clark, Gemma, Smith, Wendy, Khakh, Manjinder, Fleming, Vicki, Lister, Michelle, Howson-Wells, Hannah, Berry, Louise, Boswell, Tim, Joseph, Amelia, Willingham, Iona, Jones, Carl, Holmes, Christopher, Bird, Paul, Helmer, Thomas, Fallon, Karlie, Tang, Julian, Raviprakash, Veena, Campbell, Sharon, Sheriff, Nicola, Blakey, Victoria, Williams, Lesley-Anne, Loose, Matthew, Holmes, Nadine, Moore, Christopher, Carlile, Matthew, Wright, Victoria, Sang, Fei, Debebe, Johnny, Coll, Francesc, Signell, Adrian, Betancor, Gilberto, Wilson, Harry, Eldirdiri, Sahar, Kenyon, Anita, Davis, Thomas, Pybus, Oliver, du Plessis, Louis, Zarebski, Alex, Raghwani, Jayna, Kraemer, Moritz, Francois, Sarah, Attwood, Stephen, Vasylyeva, Tetyana, Escalera Zamudio, Marina, Gutierrez, Bernardo, Torok, M. Estee, Hamilton, William, Goodfellow, Ian, Hall, Grant, Jahun, Aminu, Chaudhry, Yasmin, Hosmillo, Myra, Pinckert, Malte, Georgana, Iliana, Moses, Samuel, Lowe, Hannah, Bedford, Luke, Moore, Jonathan, Stonehouse, Susanne, Fisher, Chloe, Awan, Ali, BoYes, John, Breuer, Judith, Harris, Kathryn, Brown, Julianne, Shah, Divya, Atkinson, Laura, Lee, Jack, Storey, Nathaniel, Flaviani, Flavia, Alcolea-Medina, Adela, Williams, Rebecca, Vernet, Gabrielle, Chapman, Michael, Levett, Lisa, Heaney, Judith, Chatterton, Wendy, Pusok, Monika, Xu-McCrae, Li, Smith, Darren, Bashton, Matthew, Young, Gregory, Holmes, Alison, Randell, Paul, Cox, Alison, Madona, Pinglawathee, Bolt, Frances, Price, James, Mookerjee, Siddharth, Ragonnet-Cronin, Manon, F. Nascimento, Fabricia, Jorgensen, David, Siveroni, Igor, Johnson, Rob, Boyd, Olivia, Geidelberg, Lily, Volz, Erik, Rowan, Aileen, Taylor, Graham, Smollett, Katherine, Loman, Nicholas, Quick, Joshua, McMurray, Claire, Stockton, Joanne, Nicholls, Sam, Rowe, Will, Poplawski, Radoslaw, McNally, Alan, Martinez Nunez, Rocio, Mason, Jenifer, Robinson, Trevor, O'Toole, Elaine, Watts, Joanne, Breen, Cassie, Cowell, Angela, Sluga, Graciela, Machin, Nicholas, Ahmad, Shazaad, George, Ryan, Halstead, Fenella, Sivaprakasam, Venkat, Hogsden, Wendy, Illingworth, Chris, Jackson, Chris, Thomson, Emma, Shepherd, James, Asamaphan, Patawee, Niebel, Marc, Li, Kathy, Shah, Rajiv, Jesudason, Natasha, Tong, Lily, Broos, Alice, Mair, Daniel, Nichols, Jenna, Carmichael, Stephen, Nomikou, Kyriaki, Aranday-Cortes, Elihu, Johnson, Natasha, Starinskij, Igor, da Silva Filipe, Ana, Robertson, David, Orton, Richard, Hughes, Joseph, Vattipally, Sreenu, Singer, Joshua, Nickbakhsh, Seema, Hale, Antony, Macfarlane-Smith, Louissa, Harper, Katherine, Carden, Holli, Taha, Yusri, Payne, Brendan, Burton-Fanning, Shirelle, Waugh, Sheila, Collins, Jennifer, Eltringham, Gary, Rushton, Steven, O'Brien, Sarah, Bradley, Amanda, Maclean, Alasdair, Mollett, Guy, Blacow, Rachel, Templeton, Kate, McHugh, Martin, Dewar, Rebecca, Wastenge, Elizabeth, Dervisevic, Samir, Stanley, Rachael, Meader, Emma, Coupland, Lindsay, Smith, Louise, Graham, Clive, Barton, Edward, Padgett, Debra, Scott, Garren, Swindells, Emma, Greenaway, Jane, Nelson, Andrew, McCann, Clare, Yew, Wen, Andersson, Monique, Peto, Timothy, Justice, Anita, Eyre, David, Crook, Derrick, Sloan, Tim, Duckworth, Nichola, Walsh, Sarah, Chauhan, Anoop, Glaysher, Sharon, Bicknell, Kelly, Wyllie, Sarah, Elliott, Scott, Lloyd, Allyson, Impey, Robert, Levene, Nick, Monaghan, Lynn, Bradley, Declan, Wyatt, Tim, Allara, Elias, Pearson, Clare, Osman, Husam, Bosworth, Andrew, Robinson, Esther, Muir, Peter, Vipond, Ian, Hopes, Richard, Pymont, Hannah, Hutchings, Stephanie, Curran, Martin, Parmar, Surendra, Lackenby, Angie, Mbisa, Tamyo, Platt, Steven, Miah, Shahjahan, Bibby, David, Manso, Carmen, Hubb, Jonathan, Chand, Meera, Dabrera, Gavin, Ramsay, Mary, Bradshaw, Daniel, Thornton, Alicia, Myers, Richard, Schaefer, Ulf, Groves, Natalie, Gallagher, Eileen, Lee, David, Williams, David, Ellaby, Nicholas, Harrison, Ian, Hartman, Hassan, Manesis, Nikos, Patel, Vineet, Bishop, Chloe, Chalker, Vicki, Ledesma, Juan, Twohig, Katherine, Holden, Matthew, Shaaban, Sharif, Birchley, Alec, Adams, Alexander, Davies, Alisha, Gaskin, Amy, Plimmer, Amy, Gatica-Wilcox, Bree, McKerr, Caoimhe, Moore, Catherine, Williams, Chris, Heyburn, David, De Lacy, Elen, Hilvers, Ember, Downing, Fatima, Shankar, Giri, Jones, Hannah, Asad, Hibo, Coombes, Jason, Watkins, Joanne, Evans, Johnathan, Fina, Laia, Gifford, Laura, Gilbert, Lauren, Graham, Lee, Perry, Malorie, Morgan, Mari, Bull, Matthew, Cronin, Michelle, Pacchiarini, Nicole, Craine, Noel, Jones, Rachel, Howe, Robin, Corden, Sally, Rey, Sara, Kumziene-SummerhaYes, Sara, Taylor, Sarah, Cottrell, Simon, Jones, Sophie, Edwards, Sue, O'Grady, Justin, Page, Andrew, Mather, Alison, Baker, David, Rudder, Steven, Aydin, Alp, Kay, Gemma, Trotter, Alexander, Alikhan, Nabil-Fareed, de Oliveira Martins, Leonardo, Le-Viet, Thanh, Meadows, Lizzie, Casey, Anna, Ratcliffe, Liz, Simpson, David, Molnar, Zoltan, Thompson, Thomas, Acheson, Erwan, Masoli, Jane, Knight, Bridget, Ellard, Sian, Auckland, Cressida, Jones, Christopher, Mahungu, Tabitha, Irish-Tavares, Dianne, Haque, Tanzina, Hart, Jennifer, Witele, Eric, Fenton, Melisa, Dadrah, Ashok, Symmonds, Amanda, Saluja, Tranprit, Bourgeois, Yann, Scarlett, Garry, Loveson, Katie, Goudarzi, Salman, Fearn, Christopher, Cook, Kate, Dent, Hannah, Paul, Hannah, Partridge, David, Raza, Mohammad, Evans, Cariad, Johnson, Kate, Liggett, Steven, Baker, Paul, Bonner, Stephen, Essex, Sarah, Lyons, Ronan, Saeed, Kordo, Mahanama, Adhyana, Samaraweera, Buddhini, Silveira, Siona, Pelosi, Emanuela, Wilson-Davies, Eleri, Williams, Rachel, Kristiansen, Mark, Roy, Sunando, Williams, Charlotte, Cotic, Marius, Bayzid, Nadua, Westhorpe, Adam, Hartley, John, Jannoo, Riaz, Lowe, Helen, Karamani, Angeliki, Ensell, Leah, Prieto, Jacqui, Jeremiah, Sarah, Grammatopoulos, Dimitris, Pandey, Sarojini, Berry, Lisa, Jones, Katie, Richter, Alex, Beggs, Andrew, Best, Angus, Percival, Benita, Mirza, Jeremy, Megram, Oliver, Mayhew, Megan, Crawford, Liam, Ashcroft, Fiona, Moles-Garcia, Emma, Cumley, Nicola, Smith, Colin, Bucca, Giselda, Hesketh, Andrew, Blane, Beth, Girgis, Sophia, Leek, Danielle, Sridhar, Sushmita, Forrest, Sally, Cormie, Claire, Gill, Harmeet, Dias, Joana, Higginson, Ellen, Maes, Mailis, Young, Jamie, Kermack, Leanne, Gupta, Ravi, Ludden, Catherine, Peacock, Sharon, Palmer, Sophie, Churcher, Carol, Hadjirin, Nazreen, Carabelli, Alessandro, Brooks, Ellena, Smith, Kim, Galai, Katerina, McManus, Georgina, Ruis, Chris, Davidson, Rose, Rambaut, Andrew, Williams, Thomas, Balcazar, Carlos, Gallagher, Michael, O'Toole, Áine, Rooke, Stefan, Hill, Verity, Williamson, Kathleen, Stanton, Thomas, Michell, Stephen, Bewshea, Claire, Temperton, Ben, Michelsen, Michelle, Warwick-Dugdale, Joanna, Manley, Robin, Farbos, Audrey, Harrison, James, Sambles, Christine, Studholme, David, Jeffries, Aaron, Jackson, Leigh, Darby, Alistair, Hiscox, Julian, Paterson, Steve, Iturriza-Gomara, Miren, Jackson, Kathryn, Lucaci, Anita, Vamos, Edith, Hughes, Margaret, Rainbow, Lucille, Eccles, Richard, Nelson, Charlotte, Whitehead, Mark, Turtle, Lance, Haldenby, Sam, Gregory, Richard, Gemmell, Matthew, Wierzbicki, Claudia, Webster, Hermione, de Silva, Thushan, Smith, Nikki, Angyal, Adrienn, Lindsey, Benjamin, Groves, Danielle, Green, Luke, Wang, Dennis, Freeman, Timothy, Parker, Matthew, Keeley, Alexander, Parsons, Paul, Tucker, Rachel, Brown, Rebecca, Wyles, Matthew, Whiteley, Max, Zhang, Peijun, Gallis, Marta, Louka, Stavroula, Constantinidou, Chrystala, Unnikrishnan, Meera, Ott, Sascha, Cheng, Jeffrey, Bridgewater, Hannah, Frost, Lucy, Taylor-Joyce, Grace, Stark, Richard, Baxter, Laura, Alam, Mohammad, Brown, Paul, Aggarwal, Dinesh, Cerda, Alberto, Merrill, Tammy, Wilson, Rebekah, McClure, Patrick, Chappell, Joseph, Tsoleridis, Theocharis, Ball, Jonathan, Buck, David, Todd, John, Green, Angie, Trebes, Amy, MacIntyre-Cockett, George, de Cesare, Mariateresa, Alderton, Alex, Amato, Roberto, Ariani, Cristina, Beale, Mathew, Beaver, Charlotte, Bellis, Katherine, Betteridge, Emma, Bonfield, James, Danesh, John, Dorman, Matthew, Drury, Eleanor, Farr, Ben, Foulser, Luke, Goncalves, Sonia, Goodwin, Scott, Gourtovaia, Marina, Harrison, Ewan, Jackson, David, Jamrozy, Dorota, Johnston, Ian, Kane, Leanne, Kay, Sally, Keatley, Jon-Paul, Kwiatkowski, Dominic, Langford, Cordelia, Lawniczak, Mara, Letchford, Laura, Livett, Rich, Lo, Stephanie, Martincorena, Inigo, McGuigan, Samantha, Nelson, Rachel, Palmer, Steve, Park, Naomi, Patel, Minal, Prestwood, Liam, Puethe, Christoph, Quail, Michael, Rajatileka, Shavanthi, Scott, Carol, Shirley, Lesley, Sillitoe, John, Spencer Chapman, Michael, Thurston, Scott, Tonkin-Hill, Gerry, Weldon, Danni, Rajan, Diana, Bronner, Iraad, Aigrain, Louise, Redshaw, Nicholas, Lensing, Stefanie, Davies, Robert, Whitwham, Andrew, Liddle, Jennifier, Lewis, Kevin, Tovar-Corona, Jaime, Leonard, Steven, Durham, Jillian, Bassett, Andrew, McCarthy, Shane, Moll, Robin, James, Keith, Oliver, Karen, Makunin, Alex, Barrett, Jeff, Gunson, Rory, Twohig, Katherine A, Nyberg, Tommy, Zaidi, Asad, Thelwall, Simon, Sinnathamby, Mary A, Aliabadi, Shirin, Seaman, Shaun R, Harris, Ross J, Hope, Russell, Lopez-Bernal, Jamie, Charlett, Andre, De Angelis, Daniela, and Presanis, Anne M
Published: 2022
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4. A structural basis for antibody-mediated neutralization of Nipah virus reveals a site of vulnerability at the fusion glycoprotein apex

Author: Avanzato, Victoria A., Oguntuyo, Kasopefoluwa Y., Escalera-Zamudio, Marina, Gutierrez, Bernardo, Golden, Michael, Pond, Sergei L. Kosakovsky, Pryce, Rhys, Walter, Thomas S., Seow, Jeffrey, Doores, Katie J., Pybus, Oliver G., Munster, Vincent J., Lee, Benhur, and Bowden, Thomas A.
Published: 2019

5. Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study

Author: Koshy, Cherian, Ash, Amy, Wise, Emma, Moore, Nathan, Mori, Matilde, Cortes, Nick, Lynch, Jessica, Kidd, Stephen, Fairley, Derek J, Curran, Tanya, McKenna, James P, Adams, Helen, Fraser, Christophe, Golubchik, Tanya, Bonsall, David, Hassan-Ibrahim, Mohammed O, Malone, Cassandra S, Cogger, Benjamin J, Wantoch, Michelle, Reynolds, Nicola, Warne, Ben, Maksimovic, Joshua, Spellman, Karla, McCluggage, Kathryn, John, Michaela, Beer, Robert, Afifi, Safiah, Morgan, Sian, Marchbank, Angela, Price, Anna, Kitchen, Christine, Gulliver, Huw, Merrick, Ian, Southgate, Joel, Guest, Martyn, Munn, Robert, Workman, Trudy, Connor, Thomas R, Fuller, William, Bresner, Catherine, Snell, Luke B, Patel, Amita, Charalampous, Themoula, Nebbia, Gaia, Batra, Rahul, Edgeworth, Jonathan, Robson, Samuel C, Beckett, Angela H, Aanensen, David M, Underwood, Anthony P, Yeats, Corin A, Abudahab, Khalil, Taylor, Ben EW, Menegazzo, Mirko, Clark, Gemma, Smith, Wendy, Khakh, Manjinder, Fleming, Vicki M, Lister, Michelle M, Howson-Wells, Hannah C, Berry, Louise, Boswell, Tim, Joseph, Amelia, Willingham, Iona, Jones, Carl, Holmes, Christopher, Bird, Paul, Helmer, Thomas, Fallon, Karlie, Tang, Julian, Raviprakash, Veena, Campbell, Sharon, Sheriff, Nicola, Blakey, Victoria, Williams, Lesley-Anne, Loose, Matthew W, Holmes, Nadine, Moore, Christopher, Carlile, Matthew, Wright, Victoria, Sang, Fei, Debebe, Johnny, Coll, Francesc, Signell, Adrian W, Betancor, Gilberto, Wilson, Harry D, Eldirdiri, Sahar, Kenyon, Anita, Davis, Thomas, Pybus, Oliver G, du Plessis, Louis, Zarebski, Alex E, Raghwani, Jayna, Kraemer, Moritz UG, Francois, Sarah, Attwood, Stephen W, Vasylyeva, Tetyana I, Escalera Zamudio, Marina, Gutierrez, Bernardo, Torok, M. Estee, Hamilton, William L, Goodfellow, Ian G, Hall, Grant, Jahun, Aminu S, Chaudhry, Yasmin, Hosmillo, Myra, Pinckert, Malte L, Georgana, Iliana, Moses, Samuel, Lowe, Hannah, Bedford, Luke, Moore, Jonathan, Stonehouse, Susanne, Fisher, Chloe L, Awan, Ali R, BoYes, John, Breuer, Judith, Harris, Kathryn Ann, Brown, Julianne Rose, Shah, Divya, Atkinson, Laura, Lee, Jack CD, Storey, Nathaniel, Flaviani, Flavia, Alcolea-Medina, Adela, Williams, Rebecca, Vernet, Gabrielle, Chapman, Michael R, Levett, Lisa J, Heaney, Judith, Chatterton, Wendy, Pusok, Monika, Xu-McCrae, Li, Smith, Darren L, Bashton, Matthew, Young, Gregory R, Holmes, Alison, Randell, Paul Anthony, Cox, Alison, Madona, Pinglawathee, Bolt, Frances, Price, James, Mookerjee, Siddharth, Ragonnet-Cronin, Manon, Nascimento, Fabricia F., Jorgensen, David, Siveroni, Igor, Johnson, Rob, Boyd, Olivia, Geidelberg, Lily, Volz, Erik M, Rowan, Aileen, Taylor, Graham P, Smollett, Katherine L, Loman, Nicholas J, Quick, Joshua, McMurray, Claire, Stockton, Joanne, Nicholls, Sam, Rowe, Will, Poplawski, Radoslaw, McNally, Alan, Martinez Nunez, Rocio T, Mason, Jenifer, Robinson, Trevor I, O'Toole, Elaine, Watts, Joanne, Breen, Cassie, Cowell, Angela, Sluga, Graciela, Machin, Nicholas W, Ahmad, Shazaad S Y, George, Ryan P, Halstead, Fenella, Sivaprakasam, Venkat, Hogsden, Wendy, Illingworth, Chris J, Jackson, Chris, Thomson, Emma C, Shepherd, James G, Asamaphan, Patawee, Niebel, Marc O, Li, Kathy K, Shah, Rajiv N, Jesudason, Natasha G, Tong, Lily, Broos, Alice, Mair, Daniel, Nichols, Jenna, Carmichael, Stephen N, Nomikou, Kyriaki, Aranday-Cortes, Elihu, Johnson, Natasha, Starinskij, Igor, da Silva Filipe, Ana, Robertson, David L, Orton, Richard J, Hughes, Joseph, Vattipally, Sreenu, Singer, Joshua B, Nickbakhsh, Seema, Hale, Antony D, Macfarlane-Smith, Louissa R, Harper, Katherine L, Carden, Holli, Taha, Yusri, Payne, Brendan AI, Burton-Fanning, Shirelle, Waugh, Sheila, Collins, Jennifer, Eltringham, Gary, Rushton, Steven, O'Brien, Sarah, Bradley, Amanda, Maclean, Alasdair, Mollett, Guy, Blacow, Rachel, Templeton, Kate E, McHugh, Martin P, Dewar, Rebecca, Wastenge, Elizabeth, Dervisevic, Samir, Stanley, Rachael, Meader, Emma J, Coupland, Lindsay, Smith, Louise, Graham, Clive, Barton, Edward, Padgett, Debra, Scott, Garren, Swindells, Emma, Greenaway, Jane, Nelson, Andrew, McCann, Clare M, Yew, Wen C, Andersson, Monique, Peto, Timothy, Justice, Anita, Eyre, David, Crook, Derrick, Sloan, Tim J, Duckworth, Nichola, Walsh, Sarah, Chauhan, Anoop J, Glaysher, Sharon, Bicknell, Kelly, Wyllie, Sarah, Elliott, Scott, Lloyd, Allyson, Impey, Robert, Levene, Nick, Monaghan, Lynn, Bradley, Declan T, Wyatt, Tim, Allara, Elias, Pearson, Clare, Osman, Husam, Bosworth, Andrew, Robinson, Esther, Muir, Peter, Vipond, Ian B, Hopes, Richard, Pymont, Hannah M, Hutchings, Stephanie, Curran, Martin D, Parmar, Surendra, Lackenby, Angie, Mbisa, Tamyo, Platt, Steven, Miah, Shahjahan, Bibby, David, Manso, Carmen, Hubb, Jonathan, Chand, Meera, Dabrera, Gavin, Ramsay, Mary, Bradshaw, Daniel, Thornton, Alicia, Myers, Richard, Schaefer, Ulf, Groves, Natalie, Gallagher, Eileen, Lee, David, Williams, David, Ellaby, Nicholas, Harrison, Ian, Hartman, Hassan, Manesis, Nikos, Patel, Vineet, Bishop, Chloe, Chalker, Vicki, Ledesma, Juan, Twohig, Katherine A, Holden, Matthew T.G., Shaaban, Sharif, Birchley, Alec, Adams, Alexander, Davies, Alisha, Gaskin, Amy, Plimmer, Amy, Gatica-Wilcox, Bree, McKerr, Caoimhe, Moore, Catherine, Williams, Chris, Heyburn, David, De Lacy, Elen, Hilvers, Ember, Downing, Fatima, Shankar, Giri, Jones, Hannah, Asad, Hibo, Coombes, Jason, Watkins, Joanne, Evans, Johnathan M, Fina, Laia, Gifford, Laura, Gilbert, Lauren, Graham, Lee, Perry, Malorie, Morgan, Mari, Bull, Matthew, Cronin, Michelle, Pacchiarini, Nicole, Craine, Noel, Jones, Rachel, Howe, Robin, Corden, Sally, Rey, Sara, Kumziene-SummerhaYes, Sara, Taylor, Sarah, Cottrell, Simon, Jones, Sophie, Edwards, Sue, O'Grady, Justin, Page, Andrew J, Mather, Alison E, Baker, David J, Rudder, Steven, Aydin, Alp, Kay, Gemma L, Trotter, Alexander J, Alikhan, Nabil-Fareed, de Oliveira Martins, Leonardo, Le-Viet, Thanh, Meadows, Lizzie, Casey, Anna, Ratcliffe, Liz, Simpson, David A, Molnar, Zoltan, Thompson, Thomas, Acheson, Erwan, Masoli, Jane AH, Knight, Bridget A, Ellard, Sian, Auckland, Cressida, Jones, Christopher R, Mahungu, Tabitha W, Irish-Tavares, Dianne, Haque, Tanzina, Hart, Jennifer, Witele, Eric, Fenton, Melisa Louise, Dadrah, Ashok, Symmonds, Amanda, Saluja, Tranprit, Bourgeois, Yann, Scarlett, Garry P, Loveson, Katie F, Goudarzi, Salman, Fearn, Christopher, Cook, Kate, Dent, Hannah, Paul, Hannah, Partridge, David G, Raza, Mohammad, Evans, Cariad, Johnson, Kate, Liggett, Steven, Baker, Paul, Bonner, Stephen, Essex, Sarah, Lyons, Ronan A, Saeed, Kordo, Mahanama, Adhyana I.K, Samaraweera, Buddhini, Silveira, Siona, Pelosi, Emanuela, Wilson-Davies, Eleri, Williams, Rachel J, Kristiansen, Mark, Roy, Sunando, Williams, Charlotte A, Cotic, Marius, Bayzid, Nadua, Westhorpe, Adam P, Hartley, John A, Jannoo, Riaz, Lowe, Helen L, Karamani, Angeliki, Ensell, Leah, Prieto, Jacqui A, Jeremiah, Sarah, Grammatopoulos, Dimitris, Pandey, Sarojini, Berry, Lisa, Jones, Katie, Richter, Alex, Beggs, Andrew, Best, Angus, Percival, Benita, Mirza, Jeremy, Megram, Oliver, Mayhew, Megan, Crawford, Liam, Ashcroft, Fiona, Moles-Garcia, Emma, Cumley, Nicola, Smith, Colin P, Bucca, Giselda, Hesketh, Andrew R, Blane, Beth, Girgis, Sophia T, Leek, Danielle, Sridhar, Sushmita, Forrest, Sally, Cormie, Claire, Gill, Harmeet K, Dias, Joana, Higginson, Ellen E, Maes, Mailis, Young, Jamie, Kermack, Leanne M, Gupta, Ravi Kumar, Ludden, Catherine, Peacock, Sharon J, Palmer, Sophie, Churcher, Carol M, Hadjirin, Nazreen F, Carabelli, Alessandro M, Brooks, Ellena, Smith, Kim S, Galai, Katerina, McManus, Georgina M, Ruis, Chris, Davidson, Rose K, Rambaut, Andrew, Williams, Thomas, Balcazar, Carlos E, Gallagher, Michael D, O'Toole, Áine, Rooke, Stefan, Hill, Verity, Williamson, Kathleen A, Stanton, Thomas D, Michell, Stephen L, Bewshea, Claire M, Temperton, Ben, Michelsen, Michelle L, Warwick-Dugdale, Joanna, Manley, Robin, Farbos, Audrey, Harrison, James W, Sambles, Christine M, Studholme, David J, Jeffries, Aaron R, Darby, Alistair C, Hiscox, Julian A, Paterson, Steve, Iturriza-Gomara, Miren, Jackson, Kathryn A, Lucaci, Anita O, Vamos, Edith E, Hughes, Margaret, Rainbow, Lucille, Eccles, Richard, Nelson, Charlotte, Whitehead, Mark, Turtle, Lance, Haldenby, Sam T, Gregory, Richard, Gemmell, Matthew, Wierzbicki, Claudia, Webster, Hermione J, de Silva, Thushan I, Smith, Nikki, Angyal, Adrienn, Lindsey, Benjamin B, Groves, Danielle C, Green, Luke R, Wang, Dennis, Freeman, Timothy M, Parker, Matthew D, Keeley, Alexander J, Parsons, Paul J, Tucker, Rachel M, Brown, Rebecca, Wyles, Matthew, Whiteley, Max, Zhang, Peijun, Gallis, Marta, Louka, Stavroula F, Constantinidou, Chrystala, Unnikrishnan, Meera, Ott, Sascha, Cheng, Jeffrey K.J., Bridgewater, Hannah E., Frost, Lucy R., Taylor-Joyce, Grace, Stark, Richard, Baxter, Laura, Alam, Mohammad T., Brown, Paul E, Aggarwal, Dinesh, Cerda, Alberto C, Merrill, Tammy V, Wilson, Rebekah E, McClure, Patrick C, Chappell, Joseph G, Tsoleridis, Theocharis, Ball, Jonathan, Buck, David, Todd, John A, Green, Angie, Trebes, Amy, MacIntyre-Cockett, George, de Cesare, Mariateresa, Alderton, Alex, Amato, Roberto, Ariani, Cristina V, Beale, Mathew A, Beaver, Charlotte, Bellis, Katherine L, Betteridge, Emma, Bonfield, James, Danesh, John, Dorman, Matthew J, Drury, Eleanor, Farr, Ben W, Foulser, Luke, Goncalves, Sonia, Goodwin, Scott, Gourtovaia, Marina, Harrison, Ewan M, Jackson, David K, Jamrozy, Dorota, Johnston, Ian, Kane, Leanne, Kay, Sally, Keatley, Jon-Paul, Kwiatkowski, Dominic, Langford, Cordelia F, Lawniczak, Mara, Letchford, Laura, Livett, Rich, Lo, Stephanie, Martincorena, Inigo, McGuigan, Samantha, Nelson, Rachel, Palmer, Steve, Park, Naomi R, Patel, Minal, Prestwood, Liam, Puethe, Christoph, Quail, Michael A, Rajatileka, Shavanthi, Scott, Carol, Shirley, Lesley, Sillitoe, John, Spencer Chapman, Michael H, Thurston, Scott AJ, Tonkin-Hill, Gerry, Weldon, Danni, Rajan, Diana, Bronner, Iraad F, Aigrain, Louise, Redshaw, Nicholas M, Lensing, Stefanie V, Davies, Robert, Whitwham, Andrew, Liddle, Jennifier, Lewis, Kevin, Tovar-Corona, Jaime M, Leonard, Steven, Durham, Jillian, Bassett, Andrew R, McCarthy, Shane, Moll, Robin J, James, Keith, Oliver, Karen, Makunin, Alex, Barrett, Jeff, Gunson, Rory N, Graham, Mark S, Sudre, Carole H, May, Anna, Antonelli, Michela, Murray, Benjamin, Varsavsky, Thomas, Kläser, Kerstin, Canas, Liane S, Molteni, Erika, Modat, Marc, Drew, David A, Nguyen, Long H, Polidori, Lorenzo, Selvachandran, Somesh, Hu, Christina, Capdevila, Joan, Hammers, Alexander, Chan, Andrew T, Wolf, Jonathan, Spector, Tim D, Steves, Claire J, and Ourselin, Sebastien
Published: 2021
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6. Parallel molecular evolution and adaptation in viruses

Author: Gutierrez, Bernardo, Escalera-Zamudio, Marina, and Pybus, Oliver G
Published: 2019
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7. Convergent trends and spatiotemporal patterns of Aedes-borne arboviruses in Mexico and Central America

Author: Gutierrez, Bernardo, primary, da Silva Candido, Darlan, additional, Bajaj, Sumali, additional, Rodriguez Maldonado, Abril Paulina, additional, Ayala, Fabiola Garces, additional, Rodriguez, María de la Luz Torre, additional, Rodriguez, Adnan Araiza, additional, Arámbula, Claudia Wong, additional, González, Ernesto Ramírez, additional, Martínez, Irma López, additional, Díaz-Quiñónez, José Alberto, additional, Pichardo, Mauricio Vázquez, additional, Hill, Sarah C., additional, Thézé, Julien, additional, Faria, Nuno R., additional, Pybus, Oliver G., additional, Preciado-Llanes, Lorena, additional, Reyes-Sandoval, Arturo, additional, Kraemer, Moritz U. G., additional, and Escalera-Zamudio, Marina, additional
Published: 2023
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8. Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico

Author: Castelán-Sánchez, Hugo G, primary, Delaye, Luis, primary, Inward, Rhys PD, primary, Dellicour, Simon, primary, Gutierrez, Bernardo, primary, Martinez de la Vina, Natalia, additional, Boukadida, Celia, additional, Pybus, Oliver G, additional, de Anda Jáuregui, Guillermo, additional, Guzmán, Plinio, additional, Flores-Garrido, Marisol, additional, Fontanelli, Óscar, additional, Hernández Rosales, Maribel, additional, Meneses, Amilcar, additional, Olmedo-Alvarez, Gabriela, additional, Herrera-Estrella, Alfredo Heriberto, additional, Sánchez-Flores, Alejandro, additional, Muñoz-Medina, José Esteban, additional, Comas-García, Andreu, additional, Gómez-Gil, Bruno, additional, Zárate, Selene, additional, Taboada, Blanca, additional, López, Susana, additional, Arias, Carlos F, additional, Kraemer, Moritz UG, additional, Lazcano, Antonio, additional, and Escalera Zamudio, Marina, additional
Published: 2023
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9. Parallel evolution in the emergence of highly pathogenic avian influenza A viruses

Author: Escalera-Zamudio, Marina, Golden, Michael, Gutiérrez, Bernardo, Thézé, Julien, Keown, Jeremy Russell, Carrique, Loic, Bowden, Thomas A., and Pybus, Oliver G.
Published: 2020
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10. Publisher Correction: Parallel evolution in the emergence of highly pathogenic avian influenza A viruses

Author: Escalera-Zamudio, Marina, Golden, Michael, Gutiérrez, Bernardo, Thézé, Julien, Keown, Jeremy Russell, Carrique, Loic, Bowden, Thomas A., and Pybus, Oliver G.
Published: 2020
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11. Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses

Author: Escalera-Zamudio, Marina, primary, Kosakovsky Pond, Sergei L, additional, Martínez de la Viña, Natalia, additional, Gutiérrez, Bernardo, additional, Inward, Rhys P D, additional, Thézé, Julien, additional, van Dorp, Lucy, additional, Castelán-Sánchez, Hugo G, additional, Bowden, Thomas A, additional, Pybus, Oliver G, additional, and Hulswit, Ruben J G, additional
Published: 2023
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12. Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat

Author: Zepeda Mendoza, M. Lisandra, Xiong, Zijun, Escalera-Zamudio, Marina, Runge, Anne Kathrine, Thézé, Julien, Streicker, Daniel, Frank, Hannah K., Loza-Rubio, Elizabeth, Liu, Shengmao, Ryder, Oliver A., Samaniego Castruita, Jose Alfredo, Katzourakis, Aris, Pacheco, George, Taboada, Blanca, Löber, Ulrike, Pybus, Oliver G., Li, Yang, Rojas-Anaya, Edith, Bohmann, Kristine, Carmona Baez, Aldo, Arias, Carlos F., Liu, Shiping, Greenwood, Alex D., Bertelsen, Mads F., White, Nicole E., Bunce, Michael, Zhang, Guojie, Sicheritz-Pontén, Thomas, and Gilbert, M. P. Thomas
Published: 2018
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13. Viral Communities Among Sympatric Vampire Bats and Cattle

Author: Escalera-Zamudio, Marina, Taboada, Blanca, Rojas-Anaya, Edith, Löber, Ulrike, Loza-Rubio, Elizabeth, Arias, Carlos F., and Greenwood, Alex D.
Published: 2018
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14. Convergent trends and spatiotemporal patterns of arboviruses in Mexico and Central America

Author: Gutierrez, Bernardo, primary, Candido, Darlan da Silva, additional, Bajaj, Sumali, additional, Rodriguez Maldonado, Abril Paulina, additional, Ayala, Fabiola Garces, additional, Torre Rodriguez, María de la Luz, additional, Araiza Rodriguez, Adnan, additional, Wong Arámbula, Claudia, additional, Ramírez González, Ernesto, additional, Martínez, Irma López, additional, Díaz-Quiñónez, José Alberto, additional, Pichardo, Mauricio Vázquez, additional, Hill, Sarah C., additional, Thézé, Julien, additional, Faria, Nuno R., additional, Pybus, Oliver G., additional, Preciado-Llanes, Lorena, additional, Reyes-Sandoval, Arturo, additional, Kraemer, Moritz U.G., additional, and Escalera-Zamudio, Marina, additional
Published: 2023
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15. Author response: Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico

Author: Castelán-Sánchez, Hugo G, primary, Delaye, Luis, primary, Inward, Rhys PD, primary, Dellicour, Simon, primary, Gutierrez, Bernardo, primary, Martinez de la Vina, Natalia, additional, Boukadida, Celia, additional, Pybus, Oliver G, additional, de Anda Jáuregui, Guillermo, additional, Guzmán, Plinio, additional, Flores-Garrido, Marisol, additional, Fontanelli, Óscar, additional, Hernández Rosales, Maribel, additional, Meneses, Amilcar, additional, Olmedo-Alvarez, Gabriela, additional, Herrera-Estrella, Alfredo Heriberto, additional, Sánchez-Flores, Alejandro, additional, Muñoz-Medina, José Esteban, additional, Comas-García, Andreu, additional, Gómez-Gil, Bruno, additional, Zárate, Selene, additional, Taboada, Blanca, additional, López, Susana, additional, Arias, Carlos F, additional, Kraemer, Moritz UG, additional, Lazcano, Antonio, additional, and Escalera Zamudio, Marina, additional
Published: 2023
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16. Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico

Author: Castelán-Sánchez, Hugo, primary, Delaye, Luis, additional, Inward, Rhys, additional, Dellicour, Simon, additional, Gutierrez, Bernardo, additional, Vina, Natalia Martinez de la, additional, Pybus, Oliver, additional, de Anda-Jáuregui, Guillermo, additional, Guzmán, Plinio, additional, Flores-Garrido, Marisol, additional, Fontanelli, Óscar, additional, Hernández-Rosales, Maribel, additional, Meneses, Amilcar, additional, Herrera-Estrella, Alfredo, additional, Olmedo-Alvarez, Gabriela, additional, Boukadida, Celia, additional, Sanchez-Flores, Alejandro, additional, Muñoz-Medina, José Esteban, additional, Comas-García, Andreu, additional, Gómez-Gil, Bruno, additional, Zárate, Selene, additional, Taboada, Blanca, additional, López, Susana, additional, Arias, Carlos, additional, Kraemer, Moritz, additional, Lazcano, Antonio, additional, and Escalera-Zamudio, Marina, additional
Published: 2022
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17. Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico

Author: Castelán-Sánchez, Hugo G., primary, Delaye, Luis, additional, Inward, Rhys P. D., additional, Dellicour, Simon, additional, Gutierrez, Bernardo, additional, Martinez de la Vina, Natalia, additional, Boukadida, Celia, additional, Pybus, Oliver G, additional, de Anda Jáuregui, Guillermo, additional, Guzmán, Plinio, additional, Garrido Flores, Marisol, additional, Fontanelli, Óscar, additional, Rosales, Maribel Hernández, additional, Meneses, Amilcar, additional, Olmedo-Alvarez, Gabriela, additional, Herrera-Estrella, Alfredo, additional, Sanchez-Flores, Alejandro, additional, Muñoz-Medina, José Esteban, additional, Comas-García, Andreu, additional, Gómez-Gil, Bruno, additional, Zárate, Selene, additional, Taboada, Blanca, additional, López, Susana, additional, Arias, Carlos F., additional, Kraemer, Moritz U.G., additional, Lazcano, Antonio, additional, and Escalera-Zamudio, Marina, additional
Published: 2022
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18. The Alpha Variant (B.1.1.7) of SARS-CoV-2 Failed to Become Dominant in Mexico

Author: Zárate, Selene, primary, Taboada, Blanca, additional, Muñoz-Medina, José Esteban, additional, Iša, Pavel, additional, Sanchez-Flores, Alejandro, additional, Boukadida, Celia, additional, Herrera-Estrella, Alfredo, additional, Selem Mojica, Nelly, additional, Rosales-Rivera, Mauricio, additional, Gómez-Gil, Bruno, additional, Salas-Lais, Angel Gustavo, additional, Santacruz-Tinoco, Clara Esperanza, additional, Montoya-Fuentes, Héctor, additional, Alvarado-Yaah, Julio Elias, additional, Molina-Salinas, Gloria María, additional, Espinoza-Ayala, Gloria Elena, additional, Enciso-Moreno, José Antonio, additional, Gutiérrez-Ríos, Rosa María, additional, Loza, Antonio, additional, Moreno-Contreras, Joaquín, additional, García-López, Rodrigo, additional, Rivera-Gutierrez, Xaira, additional, Comas-García, Andreu, additional, Wong-Chew, Rosa María, additional, Jiménez-Corona, Maria-Eugenia, additional, del Angel, Rosa María, additional, Vazquez-Perez, Joel Armando, additional, Matías-Florentino, Margarita, additional, Pérez-García, Marissa, additional, Ávila-Ríos, Santiago, additional, Castelán-Sánchez, Hugo G., additional, Delaye, Luis, additional, Martínez-Castilla, León P., additional, Escalera-Zamudio, Marina, additional, López, Susana, additional, and Arias, Carlos F., additional
Published: 2022
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19. Genomic Characterization of SARS-CoV-2 Isolated from Patients with Distinct Disease Outcomes in Mexico

Author: Boukadida, Celia, primary, Taboada, Blanca, additional, Escalera-Zamudio, Marina, additional, Isa, Pavel, additional, Ramírez-González, José Ernesto, additional, Vazquez-Perez, Joel Armando, additional, Muñoz-Medina, José Esteban, additional, Grajales-Muñiz, Concepción, additional, González-Torres, Carolina, additional, Gaytán-Cervantes, Francisco Javier, additional, Rincón-Rubio, Alma, additional, Matías-Florentino, Margarita, additional, Esteban Paz-Juárez, Héctor, additional, Sanchez-Flores, Alejandro, additional, Mendieta-Condado, Edgar, additional, Barrera-Badillo, Gisela, additional, Hernández-Rivas, Lucía, additional, López, Susana, additional, López-Martínez, Irma, additional, Ávila-Ríos, Santiago, additional, and Arias, Carlos F., additional
Published: 2022
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20. Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study

Author: Twohig, Katherine A, primary, Nyberg, Tommy, additional, Zaidi, Asad, additional, Thelwall, Simon, additional, Sinnathamby, Mary A, additional, Aliabadi, Shirin, additional, Seaman, Shaun R, additional, Harris, Ross J, additional, Hope, Russell, additional, Lopez-Bernal, Jamie, additional, Gallagher, Eileen, additional, Charlett, Andre, additional, De Angelis, Daniela, additional, Presanis, Anne M, additional, Dabrera, Gavin, additional, Koshy, Cherian, additional, Ash, Amy, additional, Wise, Emma, additional, Moore, Nathan, additional, Mori, Matilde, additional, Cortes, Nick, additional, Lynch, Jessica, additional, Kidd, Stephen, additional, Fairley, Derek, additional, Curran, Tanya, additional, McKenna, James, additional, Adams, Helen, additional, Fraser, Christophe, additional, Golubchik, Tanya, additional, Bonsall, David, additional, Hassan-Ibrahim, Mohammed, additional, Malone, Cassandra, additional, Cogger, Benjamin, additional, Wantoch, Michelle, additional, Reynolds, Nicola, additional, Warne, Ben, additional, Maksimovic, Joshua, additional, Spellman, Karla, additional, McCluggage, Kathryn, additional, John, Michaela, additional, Beer, Robert, additional, Afifi, Safiah, additional, Morgan, Sian, additional, Marchbank, Angela, additional, Price, Anna, additional, Kitchen, Christine, additional, Gulliver, Huw, additional, Merrick, Ian, additional, Southgate, Joel, additional, Guest, Martyn, additional, Munn, Robert, additional, Workman, Trudy, additional, Connor, Thomas, additional, Fuller, William, additional, Bresner, Catherine, additional, Snell, Luke, additional, Patel, Amita, additional, Charalampous, Themoula, additional, Nebbia, Gaia, additional, Batra, Rahul, additional, Edgeworth, Jonathan, additional, Robson, Samuel, additional, Beckett, Angela, additional, Aanensen, David, additional, Underwood, Anthony, additional, Yeats, Corin, additional, Abudahab, Khalil, additional, Taylor, Ben, additional, Menegazzo, Mirko, additional, Clark, Gemma, additional, Smith, Wendy, additional, Khakh, Manjinder, additional, Fleming, Vicki, additional, Lister, Michelle, additional, Howson-Wells, Hannah, additional, Berry, Louise, additional, Boswell, Tim, additional, Joseph, Amelia, additional, Willingham, Iona, additional, Jones, Carl, additional, Holmes, Christopher, additional, Bird, Paul, additional, Helmer, Thomas, additional, Fallon, Karlie, additional, Tang, Julian, additional, Raviprakash, Veena, additional, Campbell, Sharon, additional, Sheriff, Nicola, additional, Blakey, Victoria, additional, Williams, Lesley-Anne, additional, Loose, Matthew, additional, Holmes, Nadine, additional, Moore, Christopher, additional, Carlile, Matthew, additional, Wright, Victoria, additional, Sang, Fei, additional, Debebe, Johnny, additional, Coll, Francesc, additional, Signell, Adrian, additional, Betancor, Gilberto, additional, Wilson, Harry, additional, Eldirdiri, Sahar, additional, Kenyon, Anita, additional, Davis, Thomas, additional, Pybus, Oliver, additional, du Plessis, Louis, additional, Zarebski, Alex, additional, Raghwani, Jayna, additional, Kraemer, Moritz, additional, Francois, Sarah, additional, Attwood, Stephen, additional, Vasylyeva, Tetyana, additional, Escalera Zamudio, Marina, additional, Gutierrez, Bernardo, additional, Torok, M. Estee, additional, Hamilton, William, additional, Goodfellow, Ian, additional, Hall, Grant, additional, Jahun, Aminu, additional, Chaudhry, Yasmin, additional, Hosmillo, Myra, additional, Pinckert, Malte, additional, Georgana, Iliana, additional, Moses, Samuel, additional, Lowe, Hannah, additional, Bedford, Luke, additional, Moore, Jonathan, additional, Stonehouse, Susanne, additional, Fisher, Chloe, additional, Awan, Ali, additional, BoYes, John, additional, Breuer, Judith, additional, Harris, Kathryn, additional, Brown, Julianne, additional, Shah, Divya, additional, Atkinson, Laura, additional, Lee, Jack, additional, Storey, Nathaniel, additional, Flaviani, Flavia, additional, Alcolea-Medina, Adela, additional, Williams, Rebecca, additional, Vernet, Gabrielle, additional, Chapman, Michael, additional, Levett, Lisa, additional, Heaney, Judith, additional, Chatterton, Wendy, additional, Pusok, Monika, additional, Xu-McCrae, Li, additional, Smith, Darren, additional, Bashton, Matthew, additional, Young, Gregory, additional, Holmes, Alison, additional, Randell, Paul, additional, Cox, Alison, additional, Madona, Pinglawathee, additional, Bolt, Frances, additional, Price, James, additional, Mookerjee, Siddharth, additional, Ragonnet-Cronin, Manon, additional, F. Nascimento, Fabricia, additional, Jorgensen, David, additional, Siveroni, Igor, additional, Johnson, Rob, additional, Boyd, Olivia, additional, Geidelberg, Lily, additional, Volz, Erik, additional, Rowan, Aileen, additional, Taylor, Graham, additional, Smollett, Katherine, additional, Loman, Nicholas, additional, Quick, Joshua, additional, McMurray, Claire, additional, Stockton, Joanne, additional, Nicholls, Sam, additional, Rowe, Will, additional, Poplawski, Radoslaw, additional, McNally, Alan, additional, Martinez Nunez, Rocio, additional, Mason, Jenifer, additional, Robinson, Trevor, additional, O'Toole, Elaine, additional, Watts, Joanne, additional, Breen, Cassie, additional, Cowell, Angela, additional, Sluga, Graciela, additional, Machin, Nicholas, additional, Ahmad, Shazaad, additional, George, Ryan, additional, Halstead, Fenella, additional, Sivaprakasam, Venkat, additional, Hogsden, Wendy, additional, Illingworth, Chris, additional, Jackson, Chris, additional, Thomson, Emma, additional, Shepherd, James, additional, Asamaphan, Patawee, additional, Niebel, Marc, additional, Li, Kathy, additional, Shah, Rajiv, additional, Jesudason, Natasha, additional, Tong, Lily, additional, Broos, Alice, additional, Mair, Daniel, additional, Nichols, Jenna, additional, Carmichael, Stephen, additional, Nomikou, Kyriaki, additional, Aranday-Cortes, Elihu, additional, Johnson, Natasha, additional, Starinskij, Igor, additional, da Silva Filipe, Ana, additional, Robertson, David, additional, Orton, Richard, additional, Hughes, Joseph, additional, Vattipally, Sreenu, additional, Singer, Joshua, additional, Nickbakhsh, Seema, additional, Hale, Antony, additional, Macfarlane-Smith, Louissa, additional, Harper, Katherine, additional, Carden, Holli, additional, Taha, Yusri, additional, Payne, Brendan, additional, Burton-Fanning, Shirelle, additional, Waugh, Sheila, additional, Collins, Jennifer, additional, Eltringham, Gary, additional, Rushton, Steven, additional, O'Brien, Sarah, additional, Bradley, Amanda, additional, Maclean, Alasdair, additional, Mollett, Guy, additional, Blacow, Rachel, additional, Templeton, Kate, additional, McHugh, Martin, additional, Dewar, Rebecca, additional, Wastenge, Elizabeth, additional, Dervisevic, Samir, additional, Stanley, Rachael, additional, Meader, Emma, additional, Coupland, Lindsay, additional, Smith, Louise, additional, Graham, Clive, additional, Barton, Edward, additional, Padgett, Debra, additional, Scott, Garren, additional, Swindells, Emma, additional, Greenaway, Jane, additional, Nelson, Andrew, additional, McCann, Clare, additional, Yew, Wen, additional, Andersson, Monique, additional, Peto, Timothy, additional, Justice, Anita, additional, Eyre, David, additional, Crook, Derrick, additional, Sloan, Tim, additional, Duckworth, Nichola, additional, Walsh, Sarah, additional, Chauhan, Anoop, additional, Glaysher, Sharon, additional, Bicknell, Kelly, additional, Wyllie, Sarah, additional, Elliott, Scott, additional, Lloyd, Allyson, additional, Impey, Robert, additional, Levene, Nick, additional, Monaghan, Lynn, additional, Bradley, Declan, additional, Wyatt, Tim, additional, Allara, Elias, additional, Pearson, Clare, additional, Osman, Husam, additional, Bosworth, Andrew, additional, Robinson, Esther, additional, Muir, Peter, additional, Vipond, Ian, additional, Hopes, Richard, additional, Pymont, Hannah, additional, Hutchings, Stephanie, additional, Curran, Martin, additional, Parmar, Surendra, additional, Lackenby, Angie, additional, Mbisa, Tamyo, additional, Platt, Steven, additional, Miah, Shahjahan, additional, Bibby, David, additional, Manso, Carmen, additional, Hubb, Jonathan, additional, Chand, Meera, additional, Ramsay, Mary, additional, Bradshaw, Daniel, additional, Thornton, Alicia, additional, Myers, Richard, additional, Schaefer, Ulf, additional, Groves, Natalie, additional, Lee, David, additional, Williams, David, additional, Ellaby, Nicholas, additional, Harrison, Ian, additional, Hartman, Hassan, additional, Manesis, Nikos, additional, Patel, Vineet, additional, Bishop, Chloe, additional, Chalker, Vicki, additional, Ledesma, Juan, additional, Twohig, Katherine, additional, Holden, Matthew, additional, Shaaban, Sharif, additional, Birchley, Alec, additional, Adams, Alexander, additional, Davies, Alisha, additional, Gaskin, Amy, additional, Plimmer, Amy, additional, Gatica-Wilcox, Bree, additional, McKerr, Caoimhe, additional, Moore, Catherine, additional, Williams, Chris, additional, Heyburn, David, additional, De Lacy, Elen, additional, Hilvers, Ember, additional, Downing, Fatima, additional, Shankar, Giri, additional, Jones, Hannah, additional, Asad, Hibo, additional, Coombes, Jason, additional, Watkins, Joanne, additional, Evans, Johnathan, additional, Fina, Laia, additional, Gifford, Laura, additional, Gilbert, Lauren, additional, Graham, Lee, additional, Perry, Malorie, additional, Morgan, Mari, additional, Bull, Matthew, additional, Cronin, Michelle, additional, Pacchiarini, Nicole, additional, Craine, Noel, additional, Jones, Rachel, additional, Howe, Robin, additional, Corden, Sally, additional, Rey, Sara, additional, Kumziene-SummerhaYes, Sara, additional, Taylor, Sarah, additional, Cottrell, Simon, additional, Jones, Sophie, additional, Edwards, Sue, additional, O'Grady, Justin, additional, Page, Andrew, additional, Mather, Alison, additional, Baker, David, additional, Rudder, Steven, additional, Aydin, Alp, additional, Kay, Gemma, additional, Trotter, Alexander, additional, Alikhan, Nabil-Fareed, additional, de Oliveira Martins, Leonardo, additional, Le-Viet, Thanh, additional, Meadows, Lizzie, additional, Casey, Anna, additional, Ratcliffe, Liz, additional, Simpson, David, additional, Molnar, Zoltan, additional, Thompson, Thomas, additional, Acheson, Erwan, additional, Masoli, Jane, additional, Knight, Bridget, additional, Ellard, Sian, additional, Auckland, Cressida, additional, Jones, Christopher, additional, Mahungu, Tabitha, additional, Irish-Tavares, Dianne, additional, Haque, Tanzina, additional, Hart, Jennifer, additional, Witele, Eric, additional, Fenton, Melisa, additional, Dadrah, Ashok, additional, Symmonds, Amanda, additional, Saluja, Tranprit, additional, Bourgeois, Yann, additional, Scarlett, Garry, additional, Loveson, Katie, additional, Goudarzi, Salman, additional, Fearn, Christopher, additional, Cook, Kate, additional, Dent, Hannah, additional, Paul, Hannah, additional, Partridge, David, additional, Raza, Mohammad, additional, Evans, Cariad, additional, Johnson, Kate, additional, Liggett, Steven, additional, Baker, Paul, additional, Bonner, Stephen, additional, Essex, Sarah, additional, Lyons, Ronan, additional, Saeed, Kordo, additional, Mahanama, Adhyana, additional, Samaraweera, Buddhini, additional, Silveira, Siona, additional, Pelosi, Emanuela, additional, Wilson-Davies, Eleri, additional, Williams, Rachel, additional, Kristiansen, Mark, additional, Roy, Sunando, additional, Williams, Charlotte, additional, Cotic, Marius, additional, Bayzid, Nadua, additional, Westhorpe, Adam, additional, Hartley, John, additional, Jannoo, Riaz, additional, Lowe, Helen, additional, Karamani, Angeliki, additional, Ensell, Leah, additional, Prieto, Jacqui, additional, Jeremiah, Sarah, additional, Grammatopoulos, Dimitris, additional, Pandey, Sarojini, additional, Berry, Lisa, additional, Jones, Katie, additional, Richter, Alex, additional, Beggs, Andrew, additional, Best, Angus, additional, Percival, Benita, additional, Mirza, Jeremy, additional, Megram, Oliver, additional, Mayhew, Megan, additional, Crawford, Liam, additional, Ashcroft, Fiona, additional, Moles-Garcia, Emma, additional, Cumley, Nicola, additional, Smith, Colin, additional, Bucca, Giselda, additional, Hesketh, Andrew, additional, Blane, Beth, additional, Girgis, Sophia, additional, Leek, Danielle, additional, Sridhar, Sushmita, additional, Forrest, Sally, additional, Cormie, Claire, additional, Gill, Harmeet, additional, Dias, Joana, additional, Higginson, Ellen, additional, Maes, Mailis, additional, Young, Jamie, additional, Kermack, Leanne, additional, Gupta, Ravi, additional, Ludden, Catherine, additional, Peacock, Sharon, additional, Palmer, Sophie, additional, Churcher, Carol, additional, Hadjirin, Nazreen, additional, Carabelli, Alessandro, additional, Brooks, Ellena, additional, Smith, Kim, additional, Galai, Katerina, additional, McManus, Georgina, additional, Ruis, Chris, additional, Davidson, Rose, additional, Rambaut, Andrew, additional, Williams, Thomas, additional, Balcazar, Carlos, additional, Gallagher, Michael, additional, O'Toole, Áine, additional, Rooke, Stefan, additional, Hill, Verity, additional, Williamson, Kathleen, additional, Stanton, Thomas, additional, Michell, Stephen, additional, Bewshea, Claire, additional, Temperton, Ben, additional, Michelsen, Michelle, additional, Warwick-Dugdale, Joanna, additional, Manley, Robin, additional, Farbos, Audrey, additional, Harrison, James, additional, Sambles, Christine, additional, Studholme, David, additional, Jeffries, Aaron, additional, Jackson, Leigh, additional, Darby, Alistair, additional, Hiscox, Julian, additional, Paterson, Steve, additional, Iturriza-Gomara, Miren, additional, Jackson, Kathryn, additional, Lucaci, Anita, additional, Vamos, Edith, additional, Hughes, Margaret, additional, Rainbow, Lucille, additional, Eccles, Richard, additional, Nelson, Charlotte, additional, Whitehead, Mark, additional, Turtle, Lance, additional, Haldenby, Sam, additional, Gregory, Richard, additional, Gemmell, Matthew, additional, Wierzbicki, Claudia, additional, Webster, Hermione, additional, de Silva, Thushan, additional, Smith, Nikki, additional, Angyal, Adrienn, additional, Lindsey, Benjamin, additional, Groves, Danielle, additional, Green, Luke, additional, Wang, Dennis, additional, Freeman, Timothy, additional, Parker, Matthew, additional, Keeley, Alexander, additional, Parsons, Paul, additional, Tucker, Rachel, additional, Brown, Rebecca, additional, Wyles, Matthew, additional, Whiteley, Max, additional, Zhang, Peijun, additional, Gallis, Marta, additional, Louka, Stavroula, additional, Constantinidou, Chrystala, additional, Unnikrishnan, Meera, additional, Ott, Sascha, additional, Cheng, Jeffrey, additional, Bridgewater, Hannah, additional, Frost, Lucy, additional, Taylor-Joyce, Grace, additional, Stark, Richard, additional, Baxter, Laura, additional, Alam, Mohammad, additional, Brown, Paul, additional, Aggarwal, Dinesh, additional, Cerda, Alberto, additional, Merrill, Tammy, additional, Wilson, Rebekah, additional, McClure, Patrick, additional, Chappell, Joseph, additional, Tsoleridis, Theocharis, additional, Ball, Jonathan, additional, Buck, David, additional, Todd, John, additional, Green, Angie, additional, Trebes, Amy, additional, MacIntyre-Cockett, George, additional, de Cesare, Mariateresa, additional, Alderton, Alex, additional, Amato, Roberto, additional, Ariani, Cristina, additional, Beale, Mathew, additional, Beaver, Charlotte, additional, Bellis, Katherine, additional, Betteridge, Emma, additional, Bonfield, James, additional, Danesh, John, additional, Dorman, Matthew, additional, Drury, Eleanor, additional, Farr, Ben, additional, Foulser, Luke, additional, Goncalves, Sonia, additional, Goodwin, Scott, additional, Gourtovaia, Marina, additional, Harrison, Ewan, additional, Jackson, David, additional, Jamrozy, Dorota, additional, Johnston, Ian, additional, Kane, Leanne, additional, Kay, Sally, additional, Keatley, Jon-Paul, additional, Kwiatkowski, Dominic, additional, Langford, Cordelia, additional, Lawniczak, Mara, additional, Letchford, Laura, additional, Livett, Rich, additional, Lo, Stephanie, additional, Martincorena, Inigo, additional, McGuigan, Samantha, additional, Nelson, Rachel, additional, Palmer, Steve, additional, Park, Naomi, additional, Patel, Minal, additional, Prestwood, Liam, additional, Puethe, Christoph, additional, Quail, Michael, additional, Rajatileka, Shavanthi, additional, Scott, Carol, additional, Shirley, Lesley, additional, Sillitoe, John, additional, Spencer Chapman, Michael, additional, Thurston, Scott, additional, Tonkin-Hill, Gerry, additional, Weldon, Danni, additional, Rajan, Diana, additional, Bronner, Iraad, additional, Aigrain, Louise, additional, Redshaw, Nicholas, additional, Lensing, Stefanie, additional, Davies, Robert, additional, Whitwham, Andrew, additional, Liddle, Jennifier, additional, Lewis, Kevin, additional, Tovar-Corona, Jaime, additional, Leonard, Steven, additional, Durham, Jillian, additional, Bassett, Andrew, additional, McCarthy, Shane, additional, Moll, Robin, additional, James, Keith, additional, Oliver, Karen, additional, Makunin, Alex, additional, Barrett, Jeff, additional, and Gunson, Rory, additional
Published: 2022
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21. Emergence and widespread circulation of a recombinant SARS-CoV-2 lineage in North America

Author: Gutierrez, Bernardo, primary, Castelán Sánchez, Hugo G., additional, da Silva Candido, Darlan, additional, Jackson, Ben, additional, Fleishon, Shay, additional, Ruis, Christopher, additional, Delaye, Luis, additional, Rambaut, Andrew, additional, Pybus, Oliver G., additional, and Escalera-Zamudio, Marina, additional
Published: 2021
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22. On the classification and evolution of endogenous retrovirus: human endogenous retroviruses may not be ‘human’ after all

Author: ESCALERA-ZAMUDIO, MARINA and GREENWOOD, ALEX D.
Published: 2016
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23. Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador

Author: Gutierrez, Bernardo, primary, Márquez, Sully, additional, Prado-Vivar, Belén, additional, Becerra-Wong, Mónica, additional, Guadalupe, Juan José, additional, Candido, Darlan Da Silva, additional, Fernandez-Cadena, Juan Carlos, additional, Morey-Leon, Gabriel, additional, Armas-Gonzalez, Rubén, additional, Andrade-Molina, Derly Madeleiny, additional, Bruno, Alfredo, additional, De Mora, Domenica, additional, Olmedo, Maritza, additional, Portugal, Denisse, additional, Gonzalez, Manuel, additional, Orlando, Alberto, additional, Drexler, Jan Felix, additional, Moreira-Soto, Andres, additional, Sander, Anna-Lena, additional, Brünink, Sebastian, additional, Kühne, Arne, additional, Patiño, Leandro, additional, Carrazco-Montalvo, Andrés, additional, Mestanza, Orson, additional, Zurita, Jeannete, additional, Sevillano, Gabriela, additional, Du Plessis, Louis, additional, McCrone, John T, additional, Coloma, Josefina, additional, Trueba, Gabriel, additional, Barragán, Verónica, additional, Rojas-Silva, Patricio, additional, Grunauer, Michelle, additional, Kraemer, Moritz U G, additional, Faria, Nuno R, additional, Escalera-Zamudio, Marina, additional, Pybus, Oliver G, additional, and Cárdenas, Paúl, additional
Published: 2021
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24. Identification of evolutionary trajectories shared across human betacoronaviruses

Author: Escalera-Zamudio, Marina, primary, Kosakovsky Pond, Sergei L., additional, de la Viña, Natalia Martínez, additional, Gutiérrez, Bernardo, additional, Inward, Rhys P. D., additional, Thézé, Julien, additional, van Dorp, Lucy, additional, Castelán-Sánchez, Hugo G., additional, Bowden, Thomas A., additional, Pybus, Oliver G., additional, and Hulswit, Ruben J.G., additional
Published: 2021
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25. Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study

Author: Graham, Mark S, primary, Sudre, Carole H, additional, May, Anna, additional, Antonelli, Michela, additional, Murray, Benjamin, additional, Varsavsky, Thomas, additional, Kläser, Kerstin, additional, Canas, Liane S, additional, Molteni, Erika, additional, Modat, Marc, additional, Drew, David A, additional, Nguyen, Long H, additional, Polidori, Lorenzo, additional, Selvachandran, Somesh, additional, Hu, Christina, additional, Capdevila, Joan, additional, Hammers, Alexander, additional, Chan, Andrew T, additional, Wolf, Jonathan, additional, Spector, Tim D, additional, Steves, Claire J, additional, Ourselin, Sebastien, additional, Koshy, Cherian, additional, Ash, Amy, additional, Wise, Emma, additional, Moore, Nathan, additional, Mori, Matilde, additional, Cortes, Nick, additional, Lynch, Jessica, additional, Kidd, Stephen, additional, Fairley, Derek J, additional, Curran, Tanya, additional, McKenna, James P, additional, Adams, Helen, additional, Fraser, Christophe, additional, Golubchik, Tanya, additional, Bonsall, David, additional, Hassan-Ibrahim, Mohammed O, additional, Malone, Cassandra S, additional, Cogger, Benjamin J, additional, Wantoch, Michelle, additional, Reynolds, Nicola, additional, Warne, Ben, additional, Maksimovic, Joshua, additional, Spellman, Karla, additional, McCluggage, Kathryn, additional, John, Michaela, additional, Beer, Robert, additional, Afifi, Safiah, additional, Morgan, Sian, additional, Marchbank, Angela, additional, Price, Anna, additional, Kitchen, Christine, additional, Gulliver, Huw, additional, Merrick, Ian, additional, Southgate, Joel, additional, Guest, Martyn, additional, Munn, Robert, additional, Workman, Trudy, additional, Connor, Thomas R, additional, Fuller, William, additional, Bresner, Catherine, additional, Snell, Luke B, additional, Patel, Amita, additional, Charalampous, Themoula, additional, Nebbia, Gaia, additional, Batra, Rahul, additional, Edgeworth, Jonathan, additional, Robson, Samuel C, additional, Beckett, Angela H, additional, Aanensen, David M, additional, Underwood, Anthony P, additional, Yeats, Corin A, additional, Abudahab, Khalil, additional, Taylor, Ben EW, additional, Menegazzo, Mirko, additional, Clark, Gemma, additional, Smith, Wendy, additional, Khakh, Manjinder, additional, Fleming, Vicki M, additional, Lister, Michelle M, additional, Howson-Wells, Hannah C, additional, Berry, Louise, additional, Boswell, Tim, additional, Joseph, Amelia, additional, Willingham, Iona, additional, Jones, Carl, additional, Holmes, Christopher, additional, Bird, Paul, additional, Helmer, Thomas, additional, Fallon, Karlie, additional, Tang, Julian, additional, Raviprakash, Veena, additional, Campbell, Sharon, additional, Sheriff, Nicola, additional, Blakey, Victoria, additional, Williams, Lesley-Anne, additional, Loose, Matthew W, additional, Holmes, Nadine, additional, Moore, Christopher, additional, Carlile, Matthew, additional, Wright, Victoria, additional, Sang, Fei, additional, Debebe, Johnny, additional, Coll, Francesc, additional, Signell, Adrian W, additional, Betancor, Gilberto, additional, Wilson, Harry D, additional, Eldirdiri, Sahar, additional, Kenyon, Anita, additional, Davis, Thomas, additional, Pybus, Oliver G, additional, du Plessis, Louis, additional, Zarebski, Alex E, additional, Raghwani, Jayna, additional, Kraemer, Moritz UG, additional, Francois, Sarah, additional, Attwood, Stephen W, additional, Vasylyeva, Tetyana I, additional, Escalera Zamudio, Marina, additional, Gutierrez, Bernardo, additional, Torok, M. Estee, additional, Hamilton, William L, additional, Goodfellow, Ian G, additional, Hall, Grant, additional, Jahun, Aminu S, additional, Chaudhry, Yasmin, additional, Hosmillo, Myra, additional, Pinckert, Malte L, additional, Georgana, Iliana, additional, Moses, Samuel, additional, Lowe, Hannah, additional, Bedford, Luke, additional, Moore, Jonathan, additional, Stonehouse, Susanne, additional, Fisher, Chloe L, additional, Awan, Ali R, additional, BoYes, John, additional, Breuer, Judith, additional, Harris, Kathryn Ann, additional, Brown, Julianne Rose, additional, Shah, Divya, additional, Atkinson, Laura, additional, Lee, Jack CD, additional, Storey, Nathaniel, additional, Flaviani, Flavia, additional, Alcolea-Medina, Adela, additional, Williams, Rebecca, additional, Vernet, Gabrielle, additional, Chapman, Michael R, additional, Levett, Lisa J, additional, Heaney, Judith, additional, Chatterton, Wendy, additional, Pusok, Monika, additional, Xu-McCrae, Li, additional, Smith, Darren L, additional, Bashton, Matthew, additional, Young, Gregory R, additional, Holmes, Alison, additional, Randell, Paul Anthony, additional, Cox, Alison, additional, Madona, Pinglawathee, additional, Bolt, Frances, additional, Price, James, additional, Mookerjee, Siddharth, additional, Ragonnet-Cronin, Manon, additional, Nascimento, Fabricia F., additional, Jorgensen, David, additional, Siveroni, Igor, additional, Johnson, Rob, additional, Boyd, Olivia, additional, Geidelberg, Lily, additional, Volz, Erik M, additional, Rowan, Aileen, additional, Taylor, Graham P, additional, Smollett, Katherine L, additional, Loman, Nicholas J, additional, Quick, Joshua, additional, McMurray, Claire, additional, Stockton, Joanne, additional, Nicholls, Sam, additional, Rowe, Will, additional, Poplawski, Radoslaw, additional, McNally, Alan, additional, Martinez Nunez, Rocio T, additional, Mason, Jenifer, additional, Robinson, Trevor I, additional, O'Toole, Elaine, additional, Watts, Joanne, additional, Breen, Cassie, additional, Cowell, Angela, additional, Sluga, Graciela, additional, Machin, Nicholas W, additional, Ahmad, Shazaad S Y, additional, George, Ryan P, additional, Halstead, Fenella, additional, Sivaprakasam, Venkat, additional, Hogsden, Wendy, additional, Illingworth, Chris J, additional, Jackson, Chris, additional, Thomson, Emma C, additional, Shepherd, James G, additional, Asamaphan, Patawee, additional, Niebel, Marc O, additional, Li, Kathy K, additional, Shah, Rajiv N, additional, Jesudason, Natasha G, additional, Tong, Lily, additional, Broos, Alice, additional, Mair, Daniel, additional, Nichols, Jenna, additional, Carmichael, Stephen N, additional, Nomikou, Kyriaki, additional, Aranday-Cortes, Elihu, additional, Johnson, Natasha, additional, Starinskij, Igor, additional, da Silva Filipe, Ana, additional, Robertson, David L, additional, Orton, Richard J, additional, Hughes, Joseph, additional, Vattipally, Sreenu, additional, Singer, Joshua B, additional, Nickbakhsh, Seema, additional, Hale, Antony D, additional, Macfarlane-Smith, Louissa R, additional, Harper, Katherine L, additional, Carden, Holli, additional, Taha, Yusri, additional, Payne, Brendan AI, additional, Burton-Fanning, Shirelle, additional, Waugh, Sheila, additional, Collins, Jennifer, additional, Eltringham, Gary, additional, Rushton, Steven, additional, O'Brien, Sarah, additional, Bradley, Amanda, additional, Maclean, Alasdair, additional, Mollett, Guy, additional, Blacow, Rachel, additional, Templeton, Kate E, additional, McHugh, Martin P, additional, Dewar, Rebecca, additional, Wastenge, Elizabeth, additional, Dervisevic, Samir, additional, Stanley, Rachael, additional, Meader, Emma J, additional, Coupland, Lindsay, additional, Smith, Louise, additional, Graham, Clive, additional, Barton, Edward, additional, Padgett, Debra, additional, Scott, Garren, additional, Swindells, Emma, additional, Greenaway, Jane, additional, Nelson, Andrew, additional, McCann, Clare M, additional, Yew, Wen C, additional, Andersson, Monique, additional, Peto, Timothy, additional, Justice, Anita, additional, Eyre, David, additional, Crook, Derrick, additional, Sloan, Tim J, additional, Duckworth, Nichola, additional, Walsh, Sarah, additional, Chauhan, Anoop J, additional, Glaysher, Sharon, additional, Bicknell, Kelly, additional, Wyllie, Sarah, additional, Elliott, Scott, additional, Lloyd, Allyson, additional, Impey, Robert, additional, Levene, Nick, additional, Monaghan, Lynn, additional, Bradley, Declan T, additional, Wyatt, Tim, additional, Allara, Elias, additional, Pearson, Clare, additional, Osman, Husam, additional, Bosworth, Andrew, additional, Robinson, Esther, additional, Muir, Peter, additional, Vipond, Ian B, additional, Hopes, Richard, additional, Pymont, Hannah M, additional, Hutchings, Stephanie, additional, Curran, Martin D, additional, Parmar, Surendra, additional, Lackenby, Angie, additional, Mbisa, Tamyo, additional, Platt, Steven, additional, Miah, Shahjahan, additional, Bibby, David, additional, Manso, Carmen, additional, Hubb, Jonathan, additional, Chand, Meera, additional, Dabrera, Gavin, additional, Ramsay, Mary, additional, Bradshaw, Daniel, additional, Thornton, Alicia, additional, Myers, Richard, additional, Schaefer, Ulf, additional, Groves, Natalie, additional, Gallagher, Eileen, additional, Lee, David, additional, Williams, David, additional, Ellaby, Nicholas, additional, Harrison, Ian, additional, Hartman, Hassan, additional, Manesis, Nikos, additional, Patel, Vineet, additional, Bishop, Chloe, additional, Chalker, Vicki, additional, Ledesma, Juan, additional, Twohig, Katherine A, additional, Holden, Matthew T.G., additional, Shaaban, Sharif, additional, Birchley, Alec, additional, Adams, Alexander, additional, Davies, Alisha, additional, Gaskin, Amy, additional, Plimmer, Amy, additional, Gatica-Wilcox, Bree, additional, McKerr, Caoimhe, additional, Moore, Catherine, additional, Williams, Chris, additional, Heyburn, David, additional, De Lacy, Elen, additional, Hilvers, Ember, additional, Downing, Fatima, additional, Shankar, Giri, additional, Jones, Hannah, additional, Asad, Hibo, additional, Coombes, Jason, additional, Watkins, Joanne, additional, Evans, Johnathan M, additional, Fina, Laia, additional, Gifford, Laura, additional, Gilbert, Lauren, additional, Graham, Lee, additional, Perry, Malorie, additional, Morgan, Mari, additional, Bull, Matthew, additional, Cronin, Michelle, additional, Pacchiarini, Nicole, additional, Craine, Noel, additional, Jones, Rachel, additional, Howe, Robin, additional, Corden, Sally, additional, Rey, Sara, additional, Kumziene-SummerhaYes, Sara, additional, Taylor, Sarah, additional, Cottrell, Simon, additional, Jones, Sophie, additional, Edwards, Sue, additional, O'Grady, Justin, additional, Page, Andrew J, additional, Mather, Alison E, additional, Baker, David J, additional, Rudder, Steven, additional, Aydin, Alp, additional, Kay, Gemma L, additional, Trotter, Alexander J, additional, Alikhan, Nabil-Fareed, additional, de Oliveira Martins, Leonardo, additional, Le-Viet, Thanh, additional, Meadows, Lizzie, additional, Casey, Anna, additional, Ratcliffe, Liz, additional, Simpson, David A, additional, Molnar, Zoltan, additional, Thompson, Thomas, additional, Acheson, Erwan, additional, Masoli, Jane AH, additional, Knight, Bridget A, additional, Ellard, Sian, additional, Auckland, Cressida, additional, Jones, Christopher R, additional, Mahungu, Tabitha W, additional, Irish-Tavares, Dianne, additional, Haque, Tanzina, additional, Hart, Jennifer, additional, Witele, Eric, additional, Fenton, Melisa Louise, additional, Dadrah, Ashok, additional, Symmonds, Amanda, additional, Saluja, Tranprit, additional, Bourgeois, Yann, additional, Scarlett, Garry P, additional, Loveson, Katie F, additional, Goudarzi, Salman, additional, Fearn, Christopher, additional, Cook, Kate, additional, Dent, Hannah, additional, Paul, Hannah, additional, Partridge, David G, additional, Raza, Mohammad, additional, Evans, Cariad, additional, Johnson, Kate, additional, Liggett, Steven, additional, Baker, Paul, additional, Bonner, Stephen, additional, Essex, Sarah, additional, Lyons, Ronan A, additional, Saeed, Kordo, additional, Mahanama, Adhyana I.K, additional, Samaraweera, Buddhini, additional, Silveira, Siona, additional, Pelosi, Emanuela, additional, Wilson-Davies, Eleri, additional, Williams, Rachel J, additional, Kristiansen, Mark, additional, Roy, Sunando, additional, Williams, Charlotte A, additional, Cotic, Marius, additional, Bayzid, Nadua, additional, Westhorpe, Adam P, additional, Hartley, John A, additional, Jannoo, Riaz, additional, Lowe, Helen L, additional, Karamani, Angeliki, additional, Ensell, Leah, additional, Prieto, Jacqui A, additional, Jeremiah, Sarah, additional, Grammatopoulos, Dimitris, additional, Pandey, Sarojini, additional, Berry, Lisa, additional, Jones, Katie, additional, Richter, Alex, additional, Beggs, Andrew, additional, Best, Angus, additional, Percival, Benita, additional, Mirza, Jeremy, additional, Megram, Oliver, additional, Mayhew, Megan, additional, Crawford, Liam, additional, Ashcroft, Fiona, additional, Moles-Garcia, Emma, additional, Cumley, Nicola, additional, Smith, Colin P, additional, Bucca, Giselda, additional, Hesketh, Andrew R, additional, Blane, Beth, additional, Girgis, Sophia T, additional, Leek, Danielle, additional, Sridhar, Sushmita, additional, Forrest, Sally, additional, Cormie, Claire, additional, Gill, Harmeet K, additional, Dias, Joana, additional, Higginson, Ellen E, additional, Maes, Mailis, additional, Young, Jamie, additional, Kermack, Leanne M, additional, Gupta, Ravi Kumar, additional, Ludden, Catherine, additional, Peacock, Sharon J, additional, Palmer, Sophie, additional, Churcher, Carol M, additional, Hadjirin, Nazreen F, additional, Carabelli, Alessandro M, additional, Brooks, Ellena, additional, Smith, Kim S, additional, Galai, Katerina, additional, McManus, Georgina M, additional, Ruis, Chris, additional, Davidson, Rose K, additional, Rambaut, Andrew, additional, Williams, Thomas, additional, Balcazar, Carlos E, additional, Gallagher, Michael D, additional, O'Toole, Áine, additional, Rooke, Stefan, additional, Hill, Verity, additional, Williamson, Kathleen A, additional, Stanton, Thomas D, additional, Michell, Stephen L, additional, Bewshea, Claire M, additional, Temperton, Ben, additional, Michelsen, Michelle L, additional, Warwick-Dugdale, Joanna, additional, Manley, Robin, additional, Farbos, Audrey, additional, Harrison, James W, additional, Sambles, Christine M, additional, Studholme, David J, additional, Jeffries, Aaron R, additional, Darby, Alistair C, additional, Hiscox, Julian A, additional, Paterson, Steve, additional, Iturriza-Gomara, Miren, additional, Jackson, Kathryn A, additional, Lucaci, Anita O, additional, Vamos, Edith E, additional, Hughes, Margaret, additional, Rainbow, Lucille, additional, Eccles, Richard, additional, Nelson, Charlotte, additional, Whitehead, Mark, additional, Turtle, Lance, additional, Haldenby, Sam T, additional, Gregory, Richard, additional, Gemmell, Matthew, additional, Wierzbicki, Claudia, additional, Webster, Hermione J, additional, de Silva, Thushan I, additional, Smith, Nikki, additional, Angyal, Adrienn, additional, Lindsey, Benjamin B, additional, Groves, Danielle C, additional, Green, Luke R, additional, Wang, Dennis, additional, Freeman, Timothy M, additional, Parker, Matthew D, additional, Keeley, Alexander J, additional, Parsons, Paul J, additional, Tucker, Rachel M, additional, Brown, Rebecca, additional, Wyles, Matthew, additional, Whiteley, Max, additional, Zhang, Peijun, additional, Gallis, Marta, additional, Louka, Stavroula F, additional, Constantinidou, Chrystala, additional, Unnikrishnan, Meera, additional, Ott, Sascha, additional, Cheng, Jeffrey K.J., additional, Bridgewater, Hannah E., additional, Frost, Lucy R., additional, Taylor-Joyce, Grace, additional, Stark, Richard, additional, Baxter, Laura, additional, Alam, Mohammad T., additional, Brown, Paul E, additional, Aggarwal, Dinesh, additional, Cerda, Alberto C, additional, Merrill, Tammy V, additional, Wilson, Rebekah E, additional, McClure, Patrick C, additional, Chappell, Joseph G, additional, Tsoleridis, Theocharis, additional, Ball, Jonathan, additional, Buck, David, additional, Todd, John A, additional, Green, Angie, additional, Trebes, Amy, additional, MacIntyre-Cockett, George, additional, de Cesare, Mariateresa, additional, Alderton, Alex, additional, Amato, Roberto, additional, Ariani, Cristina V, additional, Beale, Mathew A, additional, Beaver, Charlotte, additional, Bellis, Katherine L, additional, Betteridge, Emma, additional, Bonfield, James, additional, Danesh, John, additional, Dorman, Matthew J, additional, Drury, Eleanor, additional, Farr, Ben W, additional, Foulser, Luke, additional, Goncalves, Sonia, additional, Goodwin, Scott, additional, Gourtovaia, Marina, additional, Harrison, Ewan M, additional, Jackson, David K, additional, Jamrozy, Dorota, additional, Johnston, Ian, additional, Kane, Leanne, additional, Kay, Sally, additional, Keatley, Jon-Paul, additional, Kwiatkowski, Dominic, additional, Langford, Cordelia F, additional, Lawniczak, Mara, additional, Letchford, Laura, additional, Livett, Rich, additional, Lo, Stephanie, additional, Martincorena, Inigo, additional, McGuigan, Samantha, additional, Nelson, Rachel, additional, Palmer, Steve, additional, Park, Naomi R, additional, Patel, Minal, additional, Prestwood, Liam, additional, Puethe, Christoph, additional, Quail, Michael A, additional, Rajatileka, Shavanthi, additional, Scott, Carol, additional, Shirley, Lesley, additional, Sillitoe, John, additional, Spencer Chapman, Michael H, additional, Thurston, Scott AJ, additional, Tonkin-Hill, Gerry, additional, Weldon, Danni, additional, Rajan, Diana, additional, Bronner, Iraad F, additional, Aigrain, Louise, additional, Redshaw, Nicholas M, additional, Lensing, Stefanie V, additional, Davies, Robert, additional, Whitwham, Andrew, additional, Liddle, Jennifier, additional, Lewis, Kevin, additional, Tovar-Corona, Jaime M, additional, Leonard, Steven, additional, Durham, Jillian, additional, Bassett, Andrew R, additional, McCarthy, Shane, additional, Moll, Robin J, additional, James, Keith, additional, Oliver, Karen, additional, Makunin, Alex, additional, Barrett, Jeff, additional, and Gunson, Rory N, additional
Published: 2021
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26. The Potential Role of Endogenous Viral Elements in the Evolution of Bats as Reservoirs for Zoonotic Viruses

Author: Skirmuntt, Emilia C., primary, Escalera-Zamudio, Marina, additional, Teeling, Emma C., additional, Smith, Adrian, additional, and Katzourakis, Aris, additional
Published: 2020
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27. Genomic Analysis of Early SARS-CoV-2 Variants Introduced in Mexico

Author: Taboada, Blanca, primary, Vazquez-Perez, Joel Armando, additional, Muñoz-Medina, José Esteban, additional, Ramos-Cervantes, Pilar, additional, Escalera-Zamudio, Marina, additional, Boukadida, Celia, additional, Sanchez-Flores, Alejandro, additional, Isa, Pavel, additional, Mendieta-Condado, Edgar, additional, Martínez-Orozco, José A., additional, Becerril-Vargas, Eduardo, additional, Salas-Hernández, Jorge, additional, Grande, Ricardo, additional, González-Torres, Carolina, additional, Gaytán-Cervantes, Francisco Javier, additional, Vazquez, Gloria, additional, Pulido, Francisco, additional, Araiza-Rodríguez, Adnan, additional, Garcés-Ayala, Fabiola, additional, González-Bonilla, Cesar Raúl, additional, Grajales-Muñiz, Concepción, additional, Borja-Aburto, Víctor Hugo, additional, Barrera-Badillo, Gisela, additional, López, Susana, additional, Hernández-Rivas, Lucía, additional, Perez-Padilla, Rogelio, additional, López-Martínez, Irma, additional, Ávila-Ríos, Santiago, additional, Ruiz-Palacios, Guillermo, additional, Ramírez-González, José Ernesto, additional, and Arias, Carlos F., additional
Published: 2020
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28. Genomic analysis of early SARS-CoV-2 strains introduced in Mexico

Author: Taboada, Blanca, primary, Vazquez-Perez, Joel Armando, additional, Muñoz Medina, José Esteban, additional, Cervantes, Pilar Ramos, additional, Escalera-Zamudio, Marina, additional, Boukadida, Celia, additional, Sanchez-Flores, Alejandro, additional, Isa, Pavel, additional, Condado, Edgar Mendieta, additional, Martínez-Orozco, José Arturo, additional, Becerril-Vargas, Eduardo, additional, Salas-Hernández, Jorge, additional, Grande, Ricardo, additional, González-Torres, Carolina, additional, Gaytán-Cervantes, Francisco Javier, additional, Vazquez, Gloria, additional, Pulido, Francisco, additional, Rodríguez, Adnan Araiza, additional, Garcés Ayala, Fabiola, additional, González Bonilla, Cesar Raúl, additional, Muñiz, Concepción Grajales, additional, Borja Aburto, Víctor Hugo, additional, Badillo, Gisela Barrera, additional, López, Susana, additional, Rivas, Lucía Hernández, additional, Perez-Padilla, Rogelio, additional, Martínez, Irma López, additional, Ávila-Ríos, Santiago, additional, Ruiz-Palacios, Guillermo, additional, Ramírez-González, José Ernesto, additional, and Arias, Carlos F., additional
Published: 2020
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29. Evolutionary Dynamics of Oropouche Virus in South America

Author: Gutierrez, Bernardo, primary, Wise, Emma L., additional, Pullan, Steven T., additional, Logue, Christopher H., additional, Bowden, Thomas A., additional, Escalera-Zamudio, Marina, additional, Trueba, Gabriel, additional, Nunes, Marcio R. T., additional, Faria, Nuno R., additional, and Pybus, Oliver G., additional
Published: 2020
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30. A (H1N1) pdm09 HA D222 variants associated with severity and mortality in patients during a second wave in Mexico

Author: Vazquez-Perez Joel A, Isa Pavel, Kobasa Darwyn, Ormsby Christopher E, Ramírez-Gonzalez Jose E, Romero-Rodríguez Damaris P, Ranadheera Charlene, Li Yan, Bastien Nathalie, Embury-Hyatt Carissa, González-Duran Elizabeth, Barrera-Badillo Gisela, Ablanedo-Terrazas Yuria, Sevilla-Reyes Edgar E, Escalera-Zamudio Marina, Cobián-Güemes Ana G, Lopez Irma, Ortiz-Alcántara Joanna, Alpuche-Aranda Celia, Perez-Padilla Jose R, and Reyes-Terán Gustavo
Subjects: Infectious and parasitic diseases, RC109-216
Abstract: Abstract Background Pandemic type A (H1N1) influenza arose in early 2009, probably in Mexico and the United States, and reappeared in North America in September for seven more months. An amino acid substitution in the hemagglutinin (HA), D222G, has been reported in a significant proportion of patients with a severe and fatal outcome. We studied the prevalence of HA222 substitutions in patients in Mexico during the second wave and its association with clinical outcome and pathogenicity in a mouse model. Methods The nucleotide sequences of hemagglutinin (HA) from viruses collected from 77 patients were determined including 50 severe and fatal cases and 27 ambulatory cases. Deep sequencing was done on 5 samples from severe or fatal cases in order to determine the quasispecies proportion. Weight loss and mortality due to infection with cultured influenza viruses were analyzed in a mouse model. Results Viruses from 14 out of 50 hospitalized patients (28%) had a non aspartic acid residue at the HA 222 position (nD222), while all 27 ambulatory patients had D222 (p = 0.0014). G222 was detected as sole species or in coexistence with N222 and D222 in 12 patients with severe disease including 8 who died. N222 in coexistence with D222 was detected in 1 patient who died and co-occurrence of A222 and V222, together with D222, was detected in another patient who died. The patients with a nD222 residue had higher mortality (71.4%), compared to the group with only D222 (22.2%, p = 0.0008). Four of the 14 viruses from hospitalized patients were cultured and intranasally infected into mice. Two viruses with G222 were lethal while a third virus, with G222, caused only mild illness in mice similar to the fourth virus that contained D222. Conclusions We confirm the elevated incidence of HA222 (H1N1)pdm09 variants in severe disease and mortality. Both clinical and mouse infection data support the idea that nD222 mutations contribute to increased severity of disease but additional determinants in disease outcome may be present.
Published: 2013
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31. Efficient whole genome sequencing of influenza A viruses

Author: Escalera-Zamudio, Marina, primary, Cobián-Güemes, Ana Georgina, additional, Taboada, Blanca, additional, López-Martínez, Irma, additional, Vázquez-Pérez, Joel Armando, additional, Montalvo-Corral, Maricela, additional, Hernandez, Jesus, additional, Díaz-Quiñonez, José Alberto, additional, Badillo, Gisela Barrera, additional, López, Susana, additional, Arias, Carlos F., additional, and Iša, Pavel, additional
Published: 2019
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32. A60 Revealing the evolution of virulence in RNA viruses

Author: Escalera-Zamudio, Marina, primary, Gutiérrez, Bernardo, additional, Thézé, Julien, additional, and Pybus, Oliver G, additional
Published: 2019
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33. The Third Annual Meeting of the European Virus Bioinformatics Center

Author: Hufsky, Franziska, primary, Ibrahim, Bashar, additional, Modha, Sejal, additional, Clokie, Martha R. J., additional, Deinhardt-Emmer, Stefanie, additional, Dutilh, Bas E., additional, Lycett, Samantha, additional, Simmonds, Peter, additional, Thiel, Volker, additional, Abroi, Aare, additional, Adriaenssens, Evelien M., additional, Escalera-Zamudio, Marina, additional, Kelly, Jenna Nicole, additional, Lamkiewicz, Kevin, additional, Lu, Lu, additional, Susat, Julian, additional, Sicheritz, Thomas, additional, Robertson, David L., additional, and Marz, Manja, additional
Published: 2019
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34. Leukocyte Profiles Reflect Geographic Range Limits in a Widespread Neotropical Bat

Author: Becker, Daniel J, primary, Nachtmann, Cecilia, additional, Argibay, Hernan D, additional, Botto, Germán, additional, Escalera-Zamudio, Marina, additional, Carrera, Jorge E, additional, Tello, Carlos, additional, Winiarski, Erik, additional, Greenwood, Alex D, additional, Méndez-Ojeda, Maria L, additional, Loza-Rubio, Elizabeth, additional, Lavergne, Anne, additional, de Thoisy, Benoit, additional, Czirják, Gábor Á, additional, Plowright, Raina K, additional, Altizer, Sonia, additional, and Streicker, Daniel G, additional
Published: 2019
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35. Parallel Evolution in the Emergence of Highly Pathogenic Avian Influenza A Viruses

Author: Escalera-Zamudio, Marina, primary, Golden, Michael, additional, Gutiérrez, Bernardo, additional, Thézé, Julien, additional, Keown, Jeremy Russell, additional, Carrique, Loic, additional, Bowden, Thomas A., additional, and Pybus, Oliver G., additional
Published: 2018
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36. Viral Communities Among Sympatric Vampire Bats and Cattle

Author: Escalera-Zamudio, Marina, primary, Taboada, Blanca, additional, Rojas-Anaya, Edith, additional, Löber, Ulrike, additional, Loza-Rubio, Elizabeth, additional, Arias, Carlos F., additional, and Greenwood, Alex D., additional
Published: 2017
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37. The Vampire Bat Virome: Evolutionary Implications in an Immunological Context

Author: Escalera Zamudio, Marina
Subjects: disease transmission, 600 Technik, Medizin, angewandte Wissenschaften::630 Landwirtschaft::630 Landwirtschaft und verwandte Bereiche, Chiroptera, haematophagy, evolution, infections, Toll like-receptors (MeSH), mutations, Betaretrovirus
Abstract: The adaptation of bats to different environments has resulted in the evolution of unique phenotypic and genotypic characteristics such as flight, echolocation and highly specialized diets. Bats have also been increasingly recognized as reservoirs for viruses which can cross species barriers. Among the Neotropical bats, vampire bats (Desmodontinae subfamily) are the only mammals that feed exclusively on the blood from other animals. Because of such an exceptional adaptation to hematophagy these species exhibit a unique set of behavioral, physiological, and morphological characteristics distinct among all other bats. The common vampire bat (Desmodus rotundus) is a known reservoir for rabies-causing lyssaviruses considered to be a major constraint on the cattle industry since bat-transmitted rabies is a primary problem in livestock from Latin America. Nonetheless, the presence of other viruses in this species has hardly been explored. Although bats can be persistently infected with many viruses, they rarely display clinical symptoms and it has been suggested that they might have evolved specific immune strategies to control viral replication. Toll like-receptors (TLRs) are a class of innate immune receptors considered to be the first-line defense mechanism against invading pathogens. The mammalian TLRs 3, 7, 8 and 9 play an important role in triggering acquired immunity as they are activated by nucleic acid ligands. TLRs are of interest from an evolutionary point of view since there is evidence that the ligand binding properties of these receptors may vary among different species thereby having an impact on the evolutionary ecology of infectious diseases. Thus, the analysis of the bat immune variation at a molecular level could reveal patterns of resistance or susceptibility to pathogens within different species and at different taxonomic levels. However, the study of the genetic variability of the immune system in bats has been restricted to a few species and to a few genes. The hypothesis that vampire bats carry viruses common to other mammals was tested based on the premise that their exclusive adaptation to hematophagy could have resulted in viral spill-over events among taxa throughout evolutionary history. Particular focus was made on Retroviruses, given that this viral group is primarily transmitted via body fluid exchange, and thus might have been particularly prone to jump between vampire bats and other taxa. A novel endogenous betaretrovirus (DrERV) was described with an evolutionary pattern that suggests multiple cross- species transmissions among different species throughout their evolutionary history. It was further hypothesized that given the unique adaptations within the Chiroptera, bats as a taxonomic group would have acquired distinctive mutations fixed within the nucleic-acid sensing TLRs with potential consequences on their ligand recognition properties. The nucleic acid sensing TLRs (3, 7, 8 and 9) of the common vampire bat were characterized and the genetic variation of these receptors within different bats species and among other mammals was compared by further testing for ongoing and episodic diversifying selection acting upon specific lineages. Our results provide evidence for potential functional differences between the bat and other mammalian TLRs in terms of recognition of foreign nucleic acids. This project was carried out in close collaboration with several European and Mexican institutions contributing to the development of research on emerging zoonotic diseases and wildlife surveillance., Anpassungen von Fledermäusen an verschiedene Umgebungen haben zu der Entwicklung Die Anpassung von Fledermäusen an ihre Umwelt hat zu der Entwicklung von besonderen phänotypischen und genotypischen Eigenschaften wie Flugfähigkeit, Echoortung und spezifischen Ernährungsweisen geführt. Diese Anpassungen haben auch zur evolutionären Entwicklung potentieller Krankheitserreger beigetragen. So werden Fledermäuse zunehmend als Wirte für Viren erkannt, welche auch interspezifisch übertragen werden können. Unter den Fledermäusen der Neuen Welt sind die Vampirfledermäuse (Unterfamilie Desmodontinae) als die einzigen Säugetiere bekannt, die sich ausschließlich vom Blut anderer Tiere ernähren können. Wegen dieser ungewöhnlichen Anpassung an Hämatophagie, zeigen diese Arten besondere Eigenschaften in ihrem Verhalten, ihrer Physiologie und ihrer Morphologie, die sie von allen anderen Fledermausarten unterscheidet. Der Gemeine Vampir (Desmodus rotundus) ist ein bekannter Wirt für Tollwut-verursachende Lyssaviren und stellt eine große Einschränkung für die Rinderhaltung in Lateinamerika dar. Der Einfluss anderer Virentypen in dieser Art ist bisher kaum erforscht. Obwohl Fledermäuse dauerhaft von vielen Viren infiziert sein können, zeigen sie selten klinische Symptome. Es wird deshalb angenommen dass sie spezifische Immunstrategien entwickelt haben um die Virusreplikation zu kontrollieren. Die Toll like- receptors (TLRs) gehören zu den Immunrezeptoren, die als Bestandteil der primäreren Abwehrantwort gegen eindringende Pathogene angesehen werden. Abhängig von der Tierart unterscheidet man bis zu 13 verschiedene TLRs. Insbesondere die Nukleinsäure-bindenden TLRs 3, 7, 8 und 9 spielen eine wichtige Rolle in der erworbenen Immunreaktion, weil sie diese durch Liganden in Form von Nukleinsäuren aktivieren. Die TLRs sind aus evolutionsbiologischer Sicht besonders interessant, da die Bindungseigenschaften dieser Rezeptoren unter verschiedenen Tierarten variieren können und deshalb einen Einfluss auf die Evolutionsökologie von Infektionskrankheiten haben. Daher könnte die Analyse der Immunvariation bei Fledermäusen auf molekularer Ebene Resistenz- oder Anfälligkeitsmuster gegenüber Pathogenen innerhalb verschiedener Arten und auf unterschiedlichen taxonomischen Ebenen offenlegen. Bisher wurde die genetische Variabilität des Immunsystems von Fledermäusen nur bei wenigen Arten und Genen erforscht. Unserer Hypothese zur Folge könnten Vampirfledermäusen Viren in sich tragen, die auch in anderen Säugetieren vorkommen, da ihre Fähigkeit zur Hämatophagie zu einer Virusübertragung zwischen verschiedenen Taxa in der Evolutionsgeschichte geführt haben könnte. Beispielsweise werden Retroviren hauptsächlich über den Austausch von Körperflüssigkeiten übertragen, weswegen Viren dieser Gruppe leicht zwischen Vampirfledermäusen und Tieren andere Taxa übertragen werden können. Ziel unserer Arbeit war es, neue und bereits bekannte Retroviren in D. rotundus mit Hilfe molekularevolutionärer Methoden zu untersuchen, um interspezifische Übertragungen zu identifizieren. Wir konnten zeigen, dass ein neues endogenes Betaretrovirus (DrERV) in D. rotundus ein Evolutionsmuster aufweist, das auf mehrere interspezifische Übertragungen zwischen verschiedenen Taxa im Laufe der Stammesentwicklung hindeutet. Außerdem sind wir davon ausgegangen dass sich in Fledermäuse, auf Grund ihrer Anpassungen, spezielle Mutationen in den Nukleinsäure-bindenden TLRs fixiert haben, welche wahrscheinlich Auswirkungen auf die Bindungseigenschaften von Liganden haben. Wir haben die Nukleinsäure- bindenden TLRs 3, 7, 8 und 9 des Gemeinen Vampirs grundlegend untersucht und die genetischen Variationen dieser Rezeptoren innerhalb verschiedener Fledermausarten und anderen Säugetieren verglichen. Wir untersuchten ob sich die diversifizierende Selektion fortlaufend oder punktuell auf die Fledermaus- TLRs ausgewirkt hat, um das evolutionäre Muster über lange und kurze Zeiträume beschreiben zu können. Anschließende Analysen der Evolution auf molekularer Ebene ließen spezielle Anpassungsmuster bei den TLRs verschiedener Fledermausarten erkennen. Unsere Ergebnisse konnten außerdem funktionelle Unterschiede in den Bindungseigenschaften von wirtsfremden Nucleinsäuren zwischen den TLRs von Fledermäusen und denen anderer Säugetiere zeigen und lieferten somit entscheidende Hinweise über die Anpassung von Fledermäuse an Viren als potentielle Krankheitserreger. Dieses Projekt wurde in enger Zusammenarbeit mit einigen europäischen und mexikanischen Instituten durchgeführt, die zur Entwicklung von Forschungsbereichen wie Zoonosen und Wildtierüberwachung beitragen.
Published: 2016
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38. Bats, Primates, and the Evolutionary Origins and Diversification of Mammalian Gammaherpesviruses

Author: Escalera-Zamudio, Marina, primary, Rojas-Anaya, Edith, additional, Kolokotronis, Sergios-Orestis, additional, Taboada, Blanca, additional, Loza-Rubio, Elizabeth, additional, Méndez-Ojeda, Maria L., additional, Arias, Carlos F., additional, Osterrieder, Nikolaus, additional, and Greenwood, Alex D., additional
Published: 2016
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39. The evolution of bat nucleic acid-sensing Toll-like receptors

Author: Escalera-Zamudio, Marina, primary, Zepeda-Mendoza, M. Lisandra, additional, Loza-Rubio, Elizabeth, additional, Rojas-Anaya, Edith, additional, Méndez-Ojeda, Maria L., additional, Arias, Carlos F., additional, and Greenwood, Alex D., additional
Published: 2015
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40. Evolución de los virus de influenza a en México

Author: Escalera Zamudio, Marina and Haspra Pavel, Isa
Subjects: Ciencias Biológicas, Químicas y de la Salud
Published: 2011

41. Mycobacterial glycolipids di-O-acylated trehalose and tri-O-acylated trehalose downregulate inducible nitric oxide synthase and nitric oxide production in macrophages

Author: Espinosa-Cueto, Patricia, primary, Escalera-Zamudio, Marina, additional, Magallanes-Puebla, Alejandro, additional, López-Marín, Luz María, additional, Segura-Salinas, Erika, additional, and Mancilla, Raúl, additional
Published: 2015
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42. A Novel Endogenous Betaretrovirus in the Common Vampire Bat (Desmodus rotundus) Suggests Multiple Independent Infection and Cross-Species Transmission Events

Author: Escalera-Zamudio, Marina, primary, Mendoza, M. Lisandra Zepeda, additional, Heeger, Felix, additional, Loza-Rubio, Elizabeth, additional, Rojas-Anaya, Edith, additional, Méndez-Ojeda, Maria L., additional, Taboada, Blanca, additional, Mazzoni, Camila J., additional, Arias, Carlos F., additional, and Greenwood, Alex D., additional
Published: 2015
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43. Characterization of an influenza A virus in Mexican swine that is related to the A/H1N1/2009 pandemic clade

Author: Escalera-Zamudio, Marina, primary, Cobián-Güemes, Georgina, additional, de los Dolores Soto-del Río, María, additional, Isa, Pavel, additional, Sánchez-Betancourt, Iván, additional, Parissi-Crivelli, Aurora, additional, Teresa Martínez-Cázares, María, additional, Romero, Pedro, additional, Velázquez-Salinas, Lauro, additional, Huerta-Lozano, Belem, additional, Nelson, Martha, additional, Montero, Hilda, additional, Vinuesa, Pablo, additional, López, Susana, additional, and Arias, Carlos F., additional
Published: 2012
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44. Molecular Anatomy of 2009 Influenza Virus A (H1N1)

Author: Arias, Carlos F., primary, Escalera-Zamudio, Marina, additional, de los Dolores Soto-Del Río, María, additional, Georgina Cobián-Güemes, Ana, additional, Isa, Pavel, additional, and López, Susana, additional
Published: 2009
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45. Molecular Epidemiology of Influenza A/H3N2 Viruses Circulating in Mexico from 2003 to 2012.

Author: Escalera-Zamudio, Marina, Nelson, Martha I., Cobián Güemes, Ana Georgina, López-Martínez, Irma, Cruz-Ortiz, Natividad, Iguala-Vidales, Miguel, García, Elvia Rodríguez, Barrera-Badillo, Gisela, Díaz-Quiñonez, Jose Alberto, López, Susana, Arias, Carlos F., and Isa, Pavel
Subjects: *MOLECULAR epidemiology, *INFLUENZA, *MICROBIAL evolution, *PHYLOGENY, *PATHOGENIC microorganisms
Abstract: In this work, nineteen influenza A/H3N2 viruses isolated in Mexico between 2003 and 2012 were studied. Our findings show that different human A/H3N2 viral lineages co-circulate within a same season and can also persist locally in between different influenza seasons, increasing the chance for genetic reassortment events. A novel minor cluster was also identified, named here as Korea, that circulated worldwide during 2003. Frequently, phylogenetic characterization did not correlate with the determined antigenic identity, supporting the need for the use of molecular evolutionary tools additionally to antigenic data for the surveillance and characterization of viral diversity during each flu season. This work represents the first long-term molecular epidemiology study of influenza A/H3N2 viruses in Mexico based on the complete genomic sequences and contributes to the monitoring of evolutionary trends of A/H3N2 influenza viruses within North and Central America. [ABSTRACT FROM AUTHOR]
Published: 2014
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46. The evolutionary dynamics of Oropouche Virus in South America.

Author: Gutierrez, Bernardo, Wise, Emma L., Pullan, Steven T., Logue, Christopher H., Bowden, Thomas A., Escalera-Zamudio, Marina, Trueba, Gabriel, Nunes, Marcio R. T., Faria, Nuno R., and Pybus, Oliver G.
Subjects: *VIRAL genomes, *POPULATION, *VIRUS diversity, *VIRAL proteins, *GENES
Abstract: The Amazon basin is home to numerous arthropod-borne viral pathogens that cause febrile disease in humans. Among these, Oropouche orthobunyavirus (OROV) is a relatively understudied member of the genus Orthobunyavirus, family Peribunyaviridae, that causes periodic outbreaks in human populations in Brazil and other South American countries. Although several studies have described the genetic diversity of the virus, the evolutionary processes that shape the OROV genome remain poorly understood. Here we present a comprehensive study of the genomic dynamics of OROV that encompasses phylogenetic analysis, evolutionary rate estimates, inference of natural selective pressures, recombination and reassortment, and structural analysis of OROV variants. Our study includes all available published sequences, as well as a set of new OROV genomes sequences obtained from patients in Ecuador, representing the first set of genomes from this country. Our results show differing evolutionary processes on the three segments that comprise the viral genome. We infer differing times of the most recent common ancestors (TMRCAs) of the genome segments and propose this can be explained by cryptic reassortment. We also present the discovery of previously unobserved putative N-linked glycosylation sites, and codons that evolve under positive selection on the viral surface proteins, and discuss the potential role of these features in the evolution of OROV through a combined phylogenetic and structural approach. [ABSTRACT FROM AUTHOR]
Published: 2020
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47. Identification of evolutionary trajectories shared across human betacoronaviruses.

Author: Escalera-Zamudio M, Kosakovsky Pond SL, de la Viña NM, Gutiérrez B, Inward RPD, Thézé J, van Dorp L, Castelán-Sánchez HG, Bowden TA, Pybus OG, and Hulswit RJG
Abstract: Comparing the evolution of distantly related viruses can provide insights into common adaptive processes related to shared ecological niches. Phylogenetic approaches, coupled with other molecular evolution tools, can help identify mutations informative on adaptation, whilst the structural contextualization of these to functional sites of proteins may help gain insight into their biological properties. Two zoonotic betacoronaviruses capable of sustained human-to-human transmission have caused pandemics in recent times (SARS-CoV-1 and SARS-CoV-2), whilst a third virus (MERS-CoV) is responsible for sporadic outbreaks linked to animal infections. Moreover, two other betacoronaviruses have circulated endemically in humans for decades (HKU1 and OC43). To search for evidence of adaptive convergence between established and emerging betacoronaviruses capable of sustained human-to-human transmission (HKU1, OC43, SARS-CoV-1 and SARS-CoV-2), we developed a methodological pipeline to classify shared non-synonymous mutations as putatively denoting homoplasy (repeated mutations that do not share direct common ancestry) or stepwise evolution (sequential mutations leading towards a novel genotype). In parallel, we look for evidence of positive selection, and draw upon protein structure data to identify potential biological implications. We find 30 mutations, with four of these [codon sites 18121 (nsp14/residue 28), 21623 (spike/21), 21635 (spike/25) and 23948 (spike/796); SARS-CoV-2 genome numbering] displaying evolution under positive selection and proximity to functional protein regions. Our findings shed light on potential mechanisms underlying betacoronavirus adaptation to the human host and pinpoint common mutational pathways that may occur during establishment of human endemicity.
Published: 2023
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48. Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador.

Author: Gutierrez B, Márquez S, Prado-Vivar B, Becerra-Wong M, Guadalupe JJ, da Silva Candido D, Fernandez-Cadena JC, Morey-Leon G, Armas-Gonzalez R, Andrade-Molina DM, Bruno A, de Mora D, Olmedo M, Portugal D, Gonzalez M, Orlando A, Drexler JF, Moreira-Soto A, Sander AL, Brünink S, Kühne A, Patiño L, Carrazco-Montalvo A, Mestanza O, Zurita J, Sevillano G, du Plessis L, McCrone JT, Coloma J, Trueba G, Barragán V, Rojas-Silva P, Grunauer M, Kraemer MUG, Faria NR, Escalera-Zamudio M, Pybus OG, and Cárdenas P
Abstract: Characterisation of SARS-CoV-2 genetic diversity through space and time can reveal trends in virus importation and domestic circulation, and permit the exploration of questions regarding the early transmission dynamics. Here we present a detailed description of SARS-CoV-2 genomic epidemiology in Ecuador, one of the hardest hit countries during the early stages of the COVID-19 pandemic. We generate and analyse 160 whole genome sequences sampled from all provinces of Ecuador in 2020. Molecular clock and phylgeographic analysis of these sequences in the context of global SARS-CoV-2 diversity enable us to identify and characterise individual transmission lineages within Ecuador, explore their spatiotemporal distributions, and consider their introduction and domestic circulation. Our results reveal a pattern of multiple international importations across the country, with apparent differences between key provinces. Transmission lineages were mostly introduced before the implementation of non-pharmaceutical interventions (NPIs), with differential degrees of persistence and national dissemination.
Published: 2021
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