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4 results on '"Ferreira, Giulia M"'

1. Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil

Author

Faria, Nuno R, Mellan, Thomas A, Whittaker, Charles, Claro, Ingra M, Candido, Darlan da S, Mishra, Swapnil, Crispim, Myuki AE, Sales, Flavia CS, Hawryluk, Iwona, McCrone, John T, Hulswit, Ruben JG, Franco, Lucas AM, Ramundo, Mariana S, de Jesus, Jaqueline G, Andrade, Pamela S, Coletti, Thais M, Ferreira, Giulia M, Silva, Camila AM, Manuli, Erika R, Pereira, Rafael HM, Peixoto, Pedro S, Kraemer, Moritz UG, Gaburo, Nelson, Camilo, Cecilia da C, Hoeltgebaum, Henrique, Souza, William M, Rocha, Esmenia C, de Souza, Leandro M, de Pinho, Mariana C, Araujo, Leonardo JT, Malta, Frederico SV, de Lima, Aline B, Silva, Joice do P, Zauli, Danielle AG, Ferreira, Alessandro C de S, Schnekenberg, Ricardo P, Laydon, Daniel J, Walker, Patrick GT, Schlüter, Hannah M, Dos Santos, Ana LP, Vidal, Maria S, Del Caro, Valentina S, Filho, Rosinaldo MF, Dos Santos, Helem M, Aguiar, Renato S, Proença-Modena, José L, Nelson, Bruce, Hay, James A, Monod, Mélodie, Miscouridou, Xenia, Coupland, Helen, Sonabend, Raphael, Vollmer, Michaela, Gandy, Axel, Prete, Carlos A, Nascimento, Vitor H, Suchard, Marc A, Bowden, Thomas A, Pond, Sergei LK, Wu, Chieh-Hsi, Ratmann, Oliver, Ferguson, Neil M, Dye, Christopher, Loman, Nick J, Lemey, Philippe, Rambaut, Andrew, Fraiji, Nelson A, Carvalho, Maria do PSS, Pybus, Oliver G, Flaxman, Seth, Bhatt, Samir, and Sabino, Ester C

Subjects
Human Genome, Immunization, Pneumonia & Influenza, Lung, Prevention, Genetics, Vaccine Related, Biotechnology, Pneumonia, Emerging Infectious Diseases, Biodefense, Infectious Diseases, Infection, Good Health and Well Being, Angiotensin-Converting Enzyme 2, Brazil, COVID-19, Communicable Diseases, Emerging, Epidemiological Monitoring, Genome, Viral, Genomics, Humans, Models, Theoretical, Molecular Epidemiology, Mutation, Protein Binding, SARS-CoV-2, Spike Glycoprotein, Coronavirus, Viral Load, General Science & Technology
Abstract

Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a novel SARS-CoV-2 variant of concern. Lineage P.1 acquired 17 mutations, including a trio in the spike protein (K417T, E484K, and N501Y) associated with increased binding to the human ACE2 (angiotensin-converting enzyme 2) receptor. Molecular clock analysis shows that P.1 emergence occurred around mid-November 2020 and was preceded by a period of faster molecular evolution. Using a two-category dynamical model that integrates genomic and mortality data, we estimate that P.1 may be 1.7- to 2.4-fold more transmissible and that previous (non-P.1) infection provides 54 to 79% of the protection against infection with P.1 that it provides against non-P.1 lineages. Enhanced global genomic surveillance of variants of concern, which may exhibit increased transmissibility and/or immune evasion, is critical to accelerate pandemic responsiveness.

Published
2021

2. Neutralisation of SARS-CoV-2 lineage P.1 by antibodies elicited through natural SARS-CoV-2 infection or vaccination with an inactivated SARS-CoV-2 vaccine: an immunological study

Author

Souza, William M, Amorim, Mariene R, Sesti-Costa, Renata, Coimbra, Lais D, Brunetti, Natalia S, Toledo-Teixeira, Daniel A, de Souza, Gabriela F, Muraro, Stefanie P, Parise, Pierina L, Barbosa, Priscilla P, Bispo-dos-Santos, Karina, Mofatto, Luciana S, Simeoni, Camila L, Claro, Ingra M, Duarte, Adriana S S, Coletti, Thais M, Zangirolami, Audrey B, Costa-Lima, Carolina, Gomes, Arilson B S P, Buscaratti, Lucas I, Sales, Flavia C, Costa, Vitor A, Franco, Lucas A M, Candido, Darlan S, Pybus, Oliver G, de Jesus, Jaqueline G, Silva, Camila A M, Ramundo, Mariana S, Ferreira, Giulia M, Pinho, Mariana C, Souza, Leandro M, Rocha, Esmenia C, Andrade, Pamela S, Crispim, Myuki A E, Maktura, Grazielle C, Manuli, Erika R, Santos, Magnun N N, Camilo, Cecilia C, Angerami, Rodrigo N, Moretti, Maria L, Spilki, Fernando R, Arns, Clarice W, Addas-Carvalho, Marcelo, Benites, Bruno D, Vinolo, Marco A R, Mori, Marcelo A S, Gaburo, Nelson, Dye, Christopher, Marques-Souza, Henrique, Marques, Rafael E, Farias, Alessandro S, Diamond, Michael S, Faria, Nuno R, Sabino, Ester C, Granja, Fabiana, and Proença-Módena, Jose Luiz

Published
2021
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3. Evolution and epidemic spread of SARS-CoV-2 in Brazil

Author

Candido, Darlan S, Claro, Ingra M, de Jesus, Jaqueline G, Souza, William M, Moreira, Filipe RR, Dellicour, Simon, Mellan, Thomas A, du Plessis, Louis, Pereira, Rafael HM, Sales, Flavia CS, Manuli, Erika R, Thézé, Julien, Almeida, Luiz, Menezes, Mariane T, Voloch, Carolina M, Fumagalli, Marcilio J, Coletti, Thaís M, da Silva, Camila AM, Ramundo, Mariana S, Amorim, Mariene R, Hoeltgebaum, Henrique H, Mishra, Swapnil, Gill, Mandev S, Carvalho, Luiz M, Buss, Lewis F, Prete, Carlos A, Ashworth, Jordan, Nakaya, Helder I, Peixoto, Pedro S, Brady, Oliver J, Nicholls, Samuel M, Tanuri, Amilcar, Rossi, Átila D, Braga, Carlos KV, Gerber, Alexandra L, de C Guimarães, Ana Paula, Gaburo, Nelson, Alencar, Cecila Salete, Ferreira, Alessandro CS, Lima, Cristiano X, Levi, José Eduardo, Granato, Celso, Ferreira, Giulia M, Francisco, Ronaldo S, Granja, Fabiana, Garcia, Marcia T, Moretti, Maria Luiza, Perroud, Mauricio W, Castiñeiras, Terezinha MPP, Lazari, Carolina S, Hill, Sarah C, de Souza Santos, Andreza Aruska, Simeoni, Camila L, Forato, Julia, Sposito, Andrei C, Schreiber, Angelica Z, Santos, Magnun NN, de Sá, Camila Zolini, Souza, Renan P, Resende-Moreira, Luciana C, Teixeira, Mauro M, Hubner, Josy, Leme, Patricia AF, Moreira, Rennan G, Nogueira, Maurício L, Brazil-UK Centre for Arbovirus Discovery, Diagnosis, Genomics an, Ferguson, Neil M, Costa, Silvia F, Proenca-Modena, José Luiz, Vasconcelos, Ana Tereza R, Bhatt, Samir, Lemey, Philippe, Wu, Chieh-Hsi, Rambaut, Andrew, Loman, Nick J, Aguiar, Renato S, Pybus, Oliver G, Sabino, Ester C, and Faria, Nuno Rodrigues

Abstract

Brazil currently has one of the fastest-growing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) epidemics in the world. Because of limited available data, assessments of the impact of nonpharmaceutical interventions (NPIs) on this virus spread remain challenging. Using a mobility-driven transmission model, we show that NPIs reduced the reproduction number from >3 to 1 to 1.6 in São Paulo and Rio de Janeiro. Sequencing of 427 new genomes and analysis of a geographically representative genomic dataset identified >100 international virus introductions in Brazil. We estimate that most (76%) of the Brazilian strains fell in three clades that were introduced from Europe between 22 February and 11 March 2020. During the early epidemic phase, we found that SARS-CoV-2 spread mostly locally and within state borders. After this period, despite sharp decreases in air travel, we estimated multiple exportations from large urban centers that coincided with a 25% increase in average traveled distances in national flights. This study sheds new light on the epidemic transmission and evolutionary trajectories of SARS-CoV-2 lineages in Brazil and provides evidence that current interventions remain insufficient to keep virus transmission under control in this country.

Published
2020

4. Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil

Author

Faria, Nuno R., Mellan, Thomas A., Whittaker, Charles, Claro, Ingra M., Candido, Darlan da S., Mishra, Swapnil, Crispim, Myuki A. E., Sales, Flavia C., Hawryluk, Iwona, McCrone, John T., Hulswit, Ruben J. G., Franco, Lucas A. M., Ramundo, Mariana S., de Jesus, Jaqueline G., Andrade, Pamela S., Coletti, Thais M., Ferreira, Giulia M., Silva, Camila A. M., Manuli, Erika R., Pereira, Rafael H. M., Peixoto, Pedro S., Kraemer, Moritz U., Gaburo, Nelson, Camilo, Cecilia da C., Hoeltgebaum, Henrique, Souza, William M., Rocha, Esmenia C., de Souza, Leandro M., de Pinho, Mariana C., Araujo, Leonardo J. T., Malta, Frederico S., de Lima, Aline B., Silva, Joice do P., Zauli, Danielle A. G., Ferreira, Alessandro C. de S., Schnekenberg, Ricardo P., Laydon, Daniel J., Walker, Patrick G. T., Schlueter, Hannah M., dos Santos, Ana L. P., Vidal, Maria S., Del Caro, Valentina S., Filho, Rosinaldo M. F., dos Santos, Helem M., Aguiar, Renato S., Proenca-Modena, Jose L. P., Nelson, Bruce, Hay, James A., Monod, Melodie, Miscouridou, Xenia, Coupland, Helen, Sonabend, Raphael, Vollmer, Michaela, Gandy, Axel, Prete, Carlos A., Nascimento, Vitor H., Suchard, Marc A., Bowden, Thomas A., Pond, Sergei L. K., Wu, Chieh-Hsi, Ratmann, Oliver, Ferguson, Neil M., Dye, Christopher, Loman, Nick J., Lemey, Philippe, Rambaut, Andrew, Fraiji, Nelson A., Carvalho, Maria do P. S. S., Pybus, Oliver G., Flaxman, Seth, Bhatt, Samir, Sabino, Ester C., Faria, Nuno R., Mellan, Thomas A., Whittaker, Charles, Claro, Ingra M., Candido, Darlan da S., Mishra, Swapnil, Crispim, Myuki A. E., Sales, Flavia C., Hawryluk, Iwona, McCrone, John T., Hulswit, Ruben J. G., Franco, Lucas A. M., Ramundo, Mariana S., de Jesus, Jaqueline G., Andrade, Pamela S., Coletti, Thais M., Ferreira, Giulia M., Silva, Camila A. M., Manuli, Erika R., Pereira, Rafael H. M., Peixoto, Pedro S., Kraemer, Moritz U., Gaburo, Nelson, Camilo, Cecilia da C., Hoeltgebaum, Henrique, Souza, William M., Rocha, Esmenia C., de Souza, Leandro M., de Pinho, Mariana C., Araujo, Leonardo J. T., Malta, Frederico S., de Lima, Aline B., Silva, Joice do P., Zauli, Danielle A. G., Ferreira, Alessandro C. de S., Schnekenberg, Ricardo P., Laydon, Daniel J., Walker, Patrick G. T., Schlueter, Hannah M., dos Santos, Ana L. P., Vidal, Maria S., Del Caro, Valentina S., Filho, Rosinaldo M. F., dos Santos, Helem M., Aguiar, Renato S., Proenca-Modena, Jose L. P., Nelson, Bruce, Hay, James A., Monod, Melodie, Miscouridou, Xenia, Coupland, Helen, Sonabend, Raphael, Vollmer, Michaela, Gandy, Axel, Prete, Carlos A., Nascimento, Vitor H., Suchard, Marc A., Bowden, Thomas A., Pond, Sergei L. K., Wu, Chieh-Hsi, Ratmann, Oliver, Ferguson, Neil M., Dye, Christopher, Loman, Nick J., Lemey, Philippe, Rambaut, Andrew, Fraiji, Nelson A., Carvalho, Maria do P. S. S., Pybus, Oliver G., Flaxman, Seth, Bhatt, Samir, and Sabino, Ester C.

Abstract

Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a novel SARS-CoV-2 variant of concern. Lineage P.1 acquired 17 mutations, including a trio in the spike protein (K417T, E484K, and N501Y) associated with increased binding to the human ACE2 (angiotensin-converting enzyme 2) receptor. Molecular clock analysis shows that P.1 emergence occurred around mid-November 2020 and was preceded by a period of faster molecular evolution. Using a two-category dynamical model that integrates genomic and mortality data, we estimate that P.1 may be 1.7- to 2.4-fold more transmissible and that previous (non-P.1) infection provides 54 to 79% of the protection against infection with P.1 that it provides against non-P.1 lineages. Enhanced global genomic surveillance of variants of concern, which may exhibit increased transmissibility and/or immune evasion, is critical to accelerate pandemic responsiveness.

Published
2021

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