Maciej F Boni

Associate Professor of Biology

Maciej F Boni

Research Summary

Human influenza epidemiology and evolution, evaluating population-level malaria treatment strategies with individual-based microsimulation models, phylogenetic analysis of avian influenza evolution in southern Vietnam, economic epidemiology of avian influenza, evaluating population-level efficacy of a potential dengue vaccine with mathematical models

Huck Affiliations

Links

Publication Tags

Viruses Pandemics Sars Virus Genome Artemisinine Plasmodium Falciparum Chiroptera Norovirus Malaria Population Epidemics Mutation Epidemiology Genetic Recombination Parasites Infections Infection Coronavirus Case Control Studies Resistance Clostridium Tetani Severe Acute Respiratory Syndrome Tetanus Genes Gastroenteritis

Most Recent Papers

Optimal SARS-CoV-2 vaccine allocation using real-time attack-rate estimates in Rhode Island and Massachusetts

Thu Nguyen Anh Tran, Nathan B. Wikle, Emmy Albert, Haider Inam, Emily Strong, Karel Brinda, Scott M. Leighow, Fuhan Yang, Sajid Hossain, Justin R. Pritchard, Philip Chan, William P. Hanage, Ephraim M. Hanks, Maciej F. Boni, 2021, BMC Medicine

Age-seroprevalence curves for the multi-strain structure of influenza A virus

Dao Nguyen Vinh, Nguyen Thi Duy Nhat, Erwin de Bruin, Nguyen Ha Thao Vy, Tran Thi Nhu Thao, Huynh Thi Phuong, Pham Hong Anh, Stacy Todd, Tran Minh Quan, Nguyen Thi Le Thanh, Nguyen Thi Nam Lien, Nguyen Thi Hong Ha, Tran Thi Kim Hong, Pham Quang Thai, Marc Choisy, Tran Dang Nguyen, Cameron P. Simmons, Guy E. Thwaites, Hannah E. Clapham, Nguyen Van Vinh Chau, Marion Koopmans, Maciej F. Boni, 2021, Nature Communications

Assessing the effect of climate variables on the incidence of dengue cases in the metropolitan region of panama city

Vicente Navarro Valencia, Yamilka Díaz, Juan Miguel Pascale, Maciej F. Boni, Javier E. Sanchez-Galan, 2021, International Journal of Environmental Research and Public Health

Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic

Ben Jackson, Maciej F. Boni, Matthew J. Bull, Amy Colleran, Rachel M. Colquhoun, Alistair C. Darby, Sam Haldenby, Verity Hill, Anita Lucaci, John T. McCrone, Samuel M. Nicholls, Áine O'Toole, Nicole Pacchiarini, Radoslaw Poplawski, Emily Scher, Flora Todd, Hermione J. Webster, Mark Whitehead, Claudia Wierzbicki, Nicholas J. Loman, Thomas R. Connor, David L. Robertson, Oliver G. Pybus, Andrew Rambaut, 2021, Cell on p. 5179-5188.e8

The origins of SARS-CoV-2

Edward C. Holmes, Stephen A. Goldstein, Angela L. Rasmussen, David L. Robertson, Alexander Crits-Christoph, Joel O. Wertheim, Simon J. Anthony, Wendy S. Barclay, Maciej F. Boni, Peter C. Doherty, Jeremy Farrar, Jemma L. Geoghegan, Xiaowei Jiang, Julian L. Leibowitz, Stuart J.D. Neil, Tim Skern, Susan R. Weiss, Michael Worobey, Kristian G. Andersen, Robert F. Garry, Andrew Rambaut, 2021, Cell on p. 4848-4856

The role of the gastrointestinal tract in toxigenic Clostridium tetani infection

Nguyen van Hao, Nguyen Ngoc My Huyen, Nguyen Thi Han Ny, Vo Thi Nhu Trang, Nguyen van Minh Hoang, Duong Bich Thuy, Nguyen Thanh Nguyen, Pham Thi Lieu, Ha Thi Hai Duong, Tran Thi Diem Thuy, Phung Tran Huy Nhat, Dong Thi Hoai Tam, Maciej F. Boni, Lam Minh Yen, Le van Tan, Tran Tan Thanh, James Campbell, C. Louise Thwaites, 2021, American Journal of Tropical Medicine and Hygiene on p. 494-497

Using NS1 Flavivirus Protein Microarray to Infer Past Infecting Dengue Virus Serotype and Number of Past Dengue Virus Infections in Vietnamese Individuals

Tran Thi Nhu Thao, Erwin De Bruin, Huynh Thi Phuong, Nguyen Ha Thao Vy, Henk Jan Van Den Ham, Bridget A. Wills, Nguyen Thi Hanh Tien, Huynh Thi Le Duyen, Dinh The Trung, Stephen S. Whitehead, Maciej F. Boni, Marion Koopmans, Hannah E. Clapham, 2021, Journal of Infectious Diseases on p. 2053-2061

Natural selection in the evolution of SARS-CoV-2 in bats created a generalist virus and highly capable human pathogen

Oscar A. MacLean, Spyros Lytras, Steven Weaver, Joshua B. Singer, Maciej F. Boni, Philippe Lemey, Sergei L. Kosakovsky Pond, David L. Robertson, 2021, PLoS Biology

An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples

Ambroise Ahouidi, Mozam Ali, Jacob Almagro-Garcia, Alfred Amambua-Ngwa, Chanaki Amaratunga, Roberto Amato, Lucas Amenga-Etego, Ben Andagalu, Tim J.C. Anderson, Voahangy Andrianaranjaka, Tobias Apinjoh, Cristina Ariani, Elizabeth A. Ashley, Sarah Auburn, Gordon Awandare, Hampate Ba, Vito Baraka, Alyssa E. Barry, Philip Bejon, Gwladys I. Bertin, Maciej F. Boni, Steffen Borrmann, Teun Bousema, Oralee Branch, Peter C. Bull, George B.J. Busby, Thanat Chookajorn, Kesinee Chotivanich, Antoine Claessens, David Conway, Alister Craig, Umberto D'Alessandro, Souleymane Dama, Nicholas P.J. Day, Brigitte Denis, Mahamadou Diakite, Abdoulaye Djimdé, Christiane Dolecek, Arjen M. Dondorp, Chris Drakeley, Eleanor Drury, Patrick Duffy, Diego F. Echeverry, Thomas G. Egwang, Berhanu Erko, Rick M. Fairhurst, Abdul Faiz, Caterina A. Fanello, Mark M. Fukuda, Dionicia Gamboa, 2021, Wellcome Open Research

Evolutionary origins of the SARS-CoV-2 sarbecovirus lineage responsible for the COVID-19 pandemic

Maciej F. Boni, Philippe Lemey, Xiaowei Jiang, Tommy Tsan Yuk Lam, Blair W. Perry, Todd A. Castoe, Andrew Rambaut, David L. Robertson, 2020, Nature Microbiology on p. 1408-1417

Most-Cited Papers

Multiple populations of artemisinin-resistant Plasmodium falciparum in Cambodia

Olivo Miotto, Jacob Almagro-Garcia, Magnus Manske, Bronwyn MacInnis, Susana Campino, Kirk A. Rockett, Chanaki Amaratunga, Pharath Lim, Seila Suon, Sokunthea Sreng, Jennifer M. Anderson, Socheat Duong, Chea Nguon, Char Meng Chuor, David Saunders, Youry Se, Chantap Lon, Mark M. Fukuda, Lucas Amenga-Etego, Abraham V.O. Hodgson, Victor Asoala, Mallika Imwong, Shannon Takala-Harrison, François Nosten, Xin Zhuan Su, Pascal Ringwald, Frédéric Ariey, Christiane Dolecek, Tran Tinh Hien, Maciej F. Boni, Cao Quang Thai, Alfred Amambua-Ngwa, David J. Conway, Abdoulaye A. Djimdé, Ogobara K. Doumbo, Issaka Zongo, Jean Bosco Ouedraogo, Daniel Alcock, Eleanor Drury, Sarah Auburn, Oliver Koch, Mandy Sanders, Christina Hubbart, Gareth Maslen, Valentin Ruano-Rubio, Dushyanth Jyothi, Alistair Miles, John O'Brien, Chris Gamble, Samuel O. Oyola, Julian C. Rayner, Chris I. Newbold, Matthew Berriman, Chris C.A. Spencer, Gilean McVean, Nicholas P. Day, Nicholas J. White, Delia Bethell, Arjen M. Dondorp, Christopher V. Plowe, Rick M. Fairhurst, Dominic P. Kwiatkowski, 2013, Nature Genetics on p. 648-655

Evolutionary origins of the SARS-CoV-2 sarbecovirus lineage responsible for the COVID-19 pandemic

Maciej F. Boni, Philippe Lemey, Xiaowei Jiang, Tommy Tsan Yuk Lam, Blair W. Perry, Todd A. Castoe, Andrew Rambaut, David L. Robertson, 2020, Nature Microbiology on p. 1408-1417

Impact of human mobility on the emergence of dengue epidemics in Pakistan

Amy Wesolowski, Taimur Qureshi, Maciej F. Boni, Pål Roe Sundsøy, Michael A. Johansson, Syed Basit Rasheed, Kenth Engø-Monsen, Caroline O. Buckee, Burton H. Singer, 2015, Proceedings of the National Academy of Sciences of the United States of America on p. 11887-11892

Role for migratory wild birds in the global spread of avian influenza H5N8

Samantha J. Lycett, Rogier Bodewes, Anne Pohlmann, Jill Banks, Krisztián Bányai, Maciej F. Boni, Ruth Bouwstra, Andrew C. Breed, Ian H. Brown, Hualan Chen, Ádám Dán, Thomas J. DeLiberto, Nguyen Diep, Marius Gilbert, Sarah Hill, Hon S. Ip, Chang Wen Ke, Hiroshi Kida, Mary Lea Killian, Marion P. Koopmans, Jung Hoon Kwon, Dong Hun Lee, Youn Jeong Lee, Lu Lu, Isabella Monne, John Pasick, Oliver G. Pybus, Andrew Rambaut, Timothy P. Robinson, Yoshihiro Sakoda, Siamak Zohari, Chang Seon Song, David E. Swayne, Mia Kim Torchetti, Hsiang Jung Tsai, Ron A.M. Fouchier, Martin Beer, Mark Woolhouse, Thijs Kuiken, 2016, Science on p. 213-217

Recombination within the pandemic norovirus GII.4 lineage

John Sebastian Eden, Mark M. Tanaka, Maciej F. Boni, William D. Rawlinson, Peter A. White, 2013, Journal of Virology on p. 6270-6282

Genomic epidemiology of artemisinin resistant malaria

Roberto Amato, Olivo Miotto, Charles J. Woodrow, Jacob Almagro-Garcia, Ipsita Sinha, Susana Campino, Daniel Mead, Eleanor Drury, Mihir Kekre, Mandy Sanders, Alfred Amambua-Ngwa, Chanaki Amaratunga, Lucas Amenga-Etego, Voahangy Andrianaranjaka, Tobias Apinjoh, Elizabeth Ashley, Sarah Auburn, Gordon A. Awandare, Vito Baraka, Alyssa Barry, Maciej F. Boni, Steffen Borrmann, Teun Bousema, Oralee Branch, Peter C. Bull, Kesinee Chotivanich, David J. Conway, Alister Craig, Nicholas P. Day, Abdoulaye Djimdé, Christiane Dolecek, Arjen M. Dondorp, Chris Drakeley, Patrick Duffy, Diego F. Echeverry, Thomas G. Egwang, Rick M. Fairhurst, Abul Faiz, Caterina I. Fanello, Tran Tinh Hien, Abraham Hodgson, Mallika Imwong, Deus Ishengoma, Pharath Lim, Chanthap Lon, Jutta Marfurt, Kevin Marsh, Mayfong Mayxay, Pascal Michon, Victor Mobegi, 2016, eLife

Malaria eradication within a generation

Richard G.A. Feachem, Ingrid Chen, Omar Akbari, Amelia Bertozzi-Villa, Samir Bhatt, Fred Binka, Maciej F. Boni, Caroline Buckee, Joseph Dieleman, Arjen Dondorp, Alex Eapen, Neelam Sekhri Feachem, Scott Filler, Peter Gething, Roly Gosling, Annie Haakenstad, Kelly Harvard, Arian Hatefi, Dean Jamison, Kate E. Jones, Corine Karema, Richard Nchabi Kamwi, Altaf Lal, Erika Larson, Margaret Lees, Neil F. Lobo, Angela E. Micah, Bruno Moonen, Gretchen Newby, Xiao Ning, Muhammad Pate, Martha Quiñones, Michelle Roh, Ben Rolfe, Dennis Shanks, Balbir Singh, Kenneth Staley, James Tulloch, Jennifer Wegbreit, Hyun Ju Woo, Winnie Mpanju-Shumbusho, 2019, The Lancet on p. 1056-1112

In vivo susceptibility of plasmodium falciparum to artesunate in Binh Phuoc Province, Vietnam

Tran Tinh Hien, Nguyen Thanh Thuy-Nhien, Nguyen Hoan Phu, MacIej F. Boni, Ngo Viet Thanh, Nguyen Thuy Nha-Ca, Le Hong Thai, Cao Quang Thai, Pham Van Toi, Phung Duc Thuan, Le Thanh Long, Le Thanh Dong, Laura Merson, Christiane Dolecek, Kasia Stepniewska, Pascal Ringwald, Nicholas J. White, Jeremy Farrar, Marcel Wolbers, 2012, Malaria Journal

The emergence and evolution of the novel epidemic norovirus GII.4 variant Sydney 2012

John Sebastian Eden, Joanne Hewitt, Kun Lee Lim, Maciej F. Boni, Juan Merif, Gail Greening, Rodney M. Ratcliff, Edward C. Holmes, Mark M. Tanaka, William D. Rawlinson, Peter A. White, 2014, Virology on p. 106-113

Genomic analysis of local variation and recent evolution in Plasmodium vivax

Richard D. Pearson, Roberto Amato, Sarah Auburn, Olivo Miotto, Jacob Almagro-Garcia, Chanaki Amaratunga, Seila Suon, Sivanna Mao, Rintis Noviyanti, Hidayat Trimarsanto, Jutta Marfurt, Nicholas M. Anstey, Timothy William, MacIej F. Boni, Christiane Dolecek, Hien Tinh Tran, Nicholas J. White, Pascal Michon, Peter Siba, Livingstone Tavul, Gabrielle Harrison, Alyssa Barry, Ivo Mueller, Marcelo U. Ferreira, Nadira Karunaweera, Milijaona Randrianarivelojosia, Qi Gao, Christina Hubbart, Lee Hart, Ben Jeffery, Eleanor Drury, Daniel Mead, Mihir Kekre, Susana Campino, Magnus Manske, Victoria J. Cornelius, Bronwyn MacInnis, Kirk A. Rockett, Alistair Miles, Julian C. Rayner, Rick M. Fairhurst, Francois Nosten, Ric N. Price, Dominic P. Kwiatkowski, 2016, Nature Genetics on p. 959-964

News Articles Featuring Maciej F Boni

Omicron may be less severe in South Africa. That may not be the case for the U.S.

It's been about a month since scientists first detected the highly mutated coronavirus variant dubbed "omicron." Since then, scientists have come to learn that omicron spreads faster than the delta variant and is the quickest-spreading variant the world has yet faced. It also has a huge ability to bypass immune protection and cause breakthrough infections.

New technique better assesses exposure of a population to a virus

Accurately assessing the exposure of a population to a particular virus is difficult because the tools for doing so do not account for the fact that many viruses comprise multiple circulating strains, or the fact that people can be vaccinated or naturally immune, among other factors. Using influenza as a model, a team of researchers led by Penn State has developed a new technique that overcomes many of these roadblocks.

Plenty of Evidence for Recombination in SARS-CoV-2

Different variants of the virus behind the COVID-19 pandemic are swapping chunks of genetic material, but it’s not yet clear what implications that may have for public health.

Experts on WHO team say search for COVID origins has stalled

The international scientists dispatched to China by the World Health Organization to find out where the coronavirus came from said Wednesday the search has stalled and warned that the window of opportunity for solving the mystery is “closing fast.”

China Tells WHO It's Not Nation's Fault Investigation Into COVID-19 Origins Has Stalled

China told the World Health Organization (WHO) on Wednesday that it wasn't the nation's fault that the investigation into the origin of COVID-19 has stalled, the Associated Press reported.

Webinar Alert: Where Did COVID-19 Come From?

The virus that causes COVID-19 disrupted nearly every facet of life for people around the world. The best way to ensure we are prepared for the next pandemic is to understand where the current one started, but that question has become bogged down in geopolitics and conspiracy theories.

Fact Check: The Facts – and Gaps – on the Origin of the Coronavirus

A year and a half into the COVID-19 pandemic — and with a death toll approaching 4 million lives — how the coronavirus came to spark a global scourge remains unknown. Was it the result of a spillover from an animal to a human, as has happened repeatedly in the past? Or did the virus accidentally escape from a nearby lab in Wuhan?

The science around the lab leak theory hasn't changed. But here's why some scientists have.

Five virologists said few conclusions can be drawn based on the available scientific evidence, but they noted that the context and circumstances of the debate have changed.

‘It was just a matter of time’ until coronavirus variant arrived in Centre County amid rising cases

A little over one year after the first coronavirus case was reported in Centre County, a more infectious variant has arrived in the Centre region. The B.1.1.7 variant, also referred to as the United Kingdom variant, was first discovered at Penn State in tested wastewater samples and was confirmed in a “COVID-19 Status Update” with university officials and community leaders on March 26.

Origins of an outbreak

It was late January 2020 when Maciej Boni realized that the COVID-19 pandemic was about to take over his life. Boni, associate professor of biology, is an epidemiologist with extensive expertise in viral evolution, including a recent focus on human and avian flu. When COVID-19 hit, he tapped into a network of colleagues around the world, quickly joining an international team intent on tracking the outbreak to its origins.