Genetic Analysis of Influenza A/H1N1 of Swine Origin Virus (SOIV) Circulating in Central and South America

Sovero, Merly; Garcia, Josefina; Laguna-Torres, V. Alberto; Gómez, Jorge; Alemán, Washington; Chicaiza, Wilson; Barrantes, Melvin; Sanchez, Felix; Jimenez, Mirna; Comach, Guillermo; Lorenzana, Ivette; Barboza, Alma; Aguayo, Nicolás; Kochel, Tadeusz J.

doi:10.4269/ajtmh.2010.09-0757

Cited by 4 publications

(2 citation statements)

References 7 publications

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“…This analysis shows that the circulating seasonal A/H1N1 strains in Venezuela ( Figure 1A) were similar to the ones previously described in Central and South America [15,16] and all of these samples can be grouped with the A/ Brisbane/56/07 like 2008-2009 genotype. The pH1N1 samples were part of only one cluster similar to previously reported strains in Latin America [23]. Influenza A/H3N2 samples possessed more genetic variability ( Figure 1B); isolates from 2007 revealed two genotypes, A/Brisbane/10/07-like and A/ California/7/04-like, while the more recent isolates were closer to the A/Perth/16/09-like genotype.…”

Section: Phylogenetic Analysissupporting

confidence: 76%

“…The most commonly detected viral pathogens in the 0-4 year old group were influenza A (11.1%) and adenoviruses (5.6%). Influenza A and B were the most commonly detected viruses in the school-age group (5)(6)(7)(8)(9)(10)(11)(12)(13)(14) year old: 6.8% and 4.0%, respectively) and the late adolescent and young adult group (15)(16)(17)(18)(19)(20)(21)(22)(23)(24)(25)(26)(27)(28)(29) year-old: 9.7% and 1.7%, respectively). Influenza A was the only detectable virus among patients who were 60 years or older.…”

Section: Laboratory Resultsmentioning

confidence: 99%

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Sentinel Surveillance of Influenza-Like Illness in Two Hospitals in Maracay, Venezuela: 2006–2010

et al. 2012

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BackgroundLimited information exists on the epidemiology of acute febrile respiratory illnesses in tropical South American countries such as Venezuela. The objective of the present study was to examine the epidemiology of influenza-like illness (ILI) in two hospitals in Maracay, Venezuela.Methodology/Principal FindingsWe performed a prospective surveillance study of persons with ILI who presented for care at two hospitals in Maracay, Venezuela, from October 2006 to December 2010. A respiratory specimen and clinical information were obtained from each participant. Viral isolation and identification with immunofluorescent antibodies and molecular methods were employed to detect respiratory viruses such as adenovirus, influenza A and B, parainfluenza, and respiratory sincytial virus, among others. There were 916 participants in the study (median age: 17 years; range: 1 month – 86 years). Viruses were identified in 143 (15.6%) subjects, and one participant was found to have a co-infection with more than one virus. Influenza viruses, including pandemic H1N1 2009, were the most frequently detected pathogens, accounting for 67.4% (97/144) of the viruses detected. Adenovirus (15/144), parainfluenza virus (13/144), and respiratory syncytial virus (11/144) were also important causes of ILI in this study. Pandemic H1N1 2009 virus became the most commonly isolated influenza virus during its initial appearance in 2009. Two waves of the pandemic were observed: the first which peaked in August 2009 and the second - higher than the preceding - that peaked in October 2009. In 2010, influenza A/H3N2 re-emerged as the most predominant respiratory virus detected.Conclusions/SignificanceInfluenza viruses were the most commonly detected viral organisms among patients with acute febrile respiratory illnesses presenting at two hospitals in Maracay, Venezuela. Pandemic H1N1 2009 influenza virus did not completely replace other circulating influenza viruses during its initial appearance in 2009. Seasonal influenza A/H3N2 was the most common influenza virus in the post-pandemic phase.

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Section: Phylogenetic Analysissupporting

confidence: 76%

Section: Laboratory Resultsmentioning

confidence: 99%

Sentinel Surveillance of Influenza-Like Illness in Two Hospitals in Maracay, Venezuela: 2006–2010

et al. 2012

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Simultaneous and complete genome sequencing of influenza A and B with high coverage by Illumina MiSeq Platform

Rutvisuttinunt

Chinnawirotpisan

Simasathien

et al. 2013

Journal of Virological Methods

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Active global surveillance and characterization of influenza viruses are essential for better preparation against possible pandemic events. Obtaining comprehensive information about the influenza genome can improve our understanding of the evolution of influenza viruses and emergence of new strains, and improve the accuracy when designing preventive vaccines. This study investigated the use of deep sequencing by the next-generation sequencing (NGS) Illumina MiSeq Platform to obtain complete genome sequence information from influenza virus isolates. The influenza virus isolates were cultured from 6 respiratory acute clinical specimens collected in Thailand and Nepal. DNA libraries obtained from each viral isolate were mixed and all were sequenced simultaneously. Total information of 2.6 Gbases was obtained from a 455±14 K/mm2 density with 95.76% (8,571,655/8,950,724 clusters) of the clusters passing quality control (QC) filters. Approximately 93.7% of all sequences from Read1 and 83.5% from Read2 contained high quality sequences that were ≥Q30, a base calling QC score standard. Alignments analysis identified three seasonal influenza A H3N2 strains, one 2009 pandemic influenza A H1N1 strain and two influenza B strains. The nearly entire genomes of all six virus isolates yielded equal or greater than 600-fold sequence coverage depth. MiSeq Platform identified seasonal influenza A H3N2, 2009 pandemic influenza A H1N1and influenza B in the DNA library mixtures efficiently.

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Bayesian coalescent analysis of pandemic H1N1 influenza A virus circulating in the South American region

et al. 2012

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Genetic Analysis of Influenza A/H1N1 of Swine Origin Virus (SOIV) Circulating in Central and South America

Cited by 4 publications

References 7 publications

Sentinel Surveillance of Influenza-Like Illness in Two Hospitals in Maracay, Venezuela: 2006–2010

Sentinel Surveillance of Influenza-Like Illness in Two Hospitals in Maracay, Venezuela: 2006–2010

Simultaneous and complete genome sequencing of influenza A and B with high coverage by Illumina MiSeq Platform

Bayesian coalescent analysis of pandemic H1N1 influenza A virus circulating in the South American region

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