Phylodynamics of influenza A(H3N2) in South America, 1999–2012

Born, Priscila Silva; Siqueira, Marilda Mendonça; Faria, Nuno Rodrigues; Resende, Paola Cristina; Motta, Fernando Couto; Bello, Gonzalo

doi:10.1016/j.meegid.2016.06.012

Cited by 4 publications

(5 citation statements)

References 46 publications

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“…Pre-pandemic Chilean IAVs are mainly related to sequences from South America, North America, and Asia. These findings are consistent with previous studies, which reported that viruses arriving in South America originate mainly from North America and that there is a continuous viral exchange between South American countries 8 , 14 , 15 . However, A/H3N2 virus introductions would also come from Europe, indicating that the epidemic outbreaks in Chile every year are influenced by viruses from different geographical regions, which may differ antigenically.…”

Section: Discussionsupporting

confidence: 93%

“…Additionally, for the HA segment, the encoded HA1 domain was analyzed using time-scaled Bayesian analyses. The HA1 domain is the most variable region of the virus 35 – 38 ; therefore, it is selected for the time scaled tree 14 . The number of sequences by geographic origin in the H1 subtype database was as follows (number in parentheses indicate number of sequences): Chile (31), South America (53), North America (119), Europe (89), Africa (39), Asia (145) and Oceania (34); and for H3 subtype was as follow: Chile (50), South America (47), North America (147), Europe (141), Africa (32), Asia (238) and Oceania (80).…”

Section: Methodsmentioning

confidence: 99%

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Circulation patterns of human seasonal Influenza A viruses in Chile before H1N1pdm09 pandemic

Mena

Tapia

Verdugo

et al. 2021

Sci Rep

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Understanding the diversity and circulation dynamics of seasonal influenza viruses is key to public health decision-making. The limited genetic information of pre-pandemic seasonal IAVs in Chile has made it difficult to accurately reconstruct the phylogenetic relationships of these viruses within the country. The objective of this study was to determine the genetic diversity of pre-pandemic human seasonal IAVs in Chile. We sequenced the complete genome of 42 historic IAV obtained between 1996 and 2007. The phylogeny was determined using HA sequences and complemented using other segments. Time-scale phylogenetic analyses revealed that the diversity of pre-pandemic human seasonal IAVs in Chile was influenced by continuous introductions of new A/H1N1 and A/H3N2 lineages and constant viral exchange between Chile and other countries every year. These results provide important knowledge about genetic diversity and evolutionary patterns of pre-pandemic human seasonal IAVs in Chile, which can help design optimal surveillance systems and prevention strategies. However, future studies with current sequences should be conducted.

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Section: Discussionsupporting

confidence: 93%

Section: Methodsmentioning

confidence: 99%

Circulation patterns of human seasonal Influenza A viruses in Chile before H1N1pdm09 pandemic

Mena

Tapia

Verdugo

et al. 2021

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Pre-pandemic Chilean IAVs are mainly related to sequences from South and North America. This is consistent with previous studies, which reported that viruses arriving in South America originate mainly in North America, and that there is a continuous viral exchange between South American countries 8,14,15 . However, A/H3N2 virus introductions would also come from Asia and Europe, indicating that the epidemic outbreaks that occur in Chile every year are influenced by viruses from different geographical regions, which may differ antigenically among them.…”

Section: Discussionsupporting

confidence: 93%

“…Additionally, for the HA segment, the encoding the HA1 domain was analyzed using time-scaled Bayesian analyses. HA1 domain is the most variable region of the virus [35][36][37][38] ; therefore, is selected for time scaled tree 14…”

Section: Phylogenetic Analysismentioning

confidence: 99%

“…In South America and in general in the southern hemisphere, the epidemiological and evolutionary dynamics of circulating IAVs have only been partially explored due to the lack of IAV sequences. Some studies indicate that in South America IAV strains do not persist locally between seasons, and genetic diversity is driven by the northern regions of the continent, mainly influenced by North America [13][14][15] . In Chile, the information about IAV before the A/H1N1pdm09 pandemic is scarce, only include 43 HA sequences are publicly available and there are no studies on the epidemiology and/or evolutionary dynamics of human IAVs.…”

Section: Introductionmentioning

confidence: 99%

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Circulation Patterns of Human Seasonal Influenza a Virus in Chile Before H1N1pdm09 Pandemic

Mena

Tapia

Verdugo

et al. 2021

Preprint

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Understanding the diversity and circulation dynamics of seasonal influenza viruses is key to public health decision-making. The limited genetic information of pre-pandemic seasonal IAVs in Chile has made it difficult to accurately reconstruct the phylogenetic relationships of these viruses within the country. The objective of this study was to determine the genetic diversity and estimate the antigenic evolution of pre-pandemic human seasonal IAVs in Chile. We sequenced the complete genome of 42 historic IAV obtained between 1996 to 2007. The phylogeny was determined using HA sequences and complemented using other segments. Time-scale phylogenetic analyses revealed that diversity of pre-pandemic human seasonal IAVs in Chile have been influenced by continuous introductions of new A/H1N1 and A/H3N2 lineages and constant viral exchange between Chile and the rest of the countries every year. Besides, wide genetic and antigenic diversity was observed co-circulating in some years and introduced lineages every year become extinct at the end of each season. These results provide important knowledge about genetic diversity and evolutionary patterns of pre-pandemic human seasonal IAVs in Chile, which can help to design optimal surveillance systems and prevention strategies in the country, however, future studies with current sequences should be conducted.

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Influenza Viruses, Biology, Epidemiology, and Control

Baumeister

Pontoriero

2017

Human Virology in Latin America

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Phylodynamics of influenza A(H3N2) in South America, 1999–2012

Cited by 4 publications

References 46 publications

Circulation patterns of human seasonal Influenza A viruses in Chile before H1N1pdm09 pandemic

Circulation patterns of human seasonal Influenza A viruses in Chile before H1N1pdm09 pandemic

Circulation Patterns of Human Seasonal Influenza a Virus in Chile Before H1N1pdm09 Pandemic

Influenza Viruses, Biology, Epidemiology, and Control

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