scholarly journals Monitoring Genetic Diversity of Influenza A(H1N1)pdm09 Virus Circulating during the Post-Pandemic Period in Turkey

2013 ◽  
Vol 66 (4) ◽  
pp. 299-305 ◽  
Author(s):  
Dilek Guldemir ◽  
Atila T. Kalaycioglu ◽  
A. Basak Altas ◽  
Gulay Korukluoglu ◽  
Riza Durmaz
Keyword(s):  
Genetic Diversity ◽  
Influenza A ◽  
Pdm09 Virus ◽  
Influenza A H1n1

scholarly journals Next-Generation Sequencing Analysis of the Within-Host Genetic Diversity of Influenza A(H1N1)pdm09 Viruses in the Upper and Lower Respiratory Tracts of Patients with Severe Influenza

mSphere ◽  
2021 ◽  
Vol 6 (1) ◽  
Author(s):  
Ikuyo Takayama ◽  
Binh Gia Nguyen ◽  
Co Xuan Dao ◽  
Thach The Pham ◽  
Tuan Quoc Dang ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Next Generation Sequencing ◽  
Lower Respiratory Tract ◽  
Influenza A ◽  
Severe Disease ◽  
Pdm09 Virus ◽  
Influenza A H1n1 ◽  
Host Genetic ◽  
Ha Protein ◽  
Generation Sequencing

ABSTRACT The influenza A(H1N1)pdm09 virus emerged in April 2009 with an unusual incidence of severe disease and mortality, and currently circulates as a seasonal influenza virus. Previous studies using consensus viral genome sequencing data have overlooked the viral genomic and phenotypic diversity. Next-generation sequencing (NGS) may instead be used to characterize viral populations in an unbiased manner and to measure within-host genetic diversity. In this study, we used NGS analysis to investigate the within-host genetic diversity of influenza A(H1N1)pdm09 virus in the upper and lower respiratory samples from nine patients who were admitted to the intensive care unit (ICU). A total of 47 amino acid substitution positions were found to differ between the upper and lower respiratory tract samples from all patients. However, the D222G/N substitution in hemagglutinin (HA) protein was the only amino acid substitution common to multiple patients. Furthermore, the substitution was detected only in the six samples from the lower respiratory tract. Therefore, it is important to investigate influenza A(H1N1)pdm09 virus populations using multiple paired samples from the upper and lower respiratory tract to avoid overlooking potentially important substitutions, especially in patients with severe disease. IMPORTANCE The D222G/N substitution in the hemagglutinin (HA) protein of influenza A(H1N1)pdm09 virus has been reported to be associated with disease severity and mortality in numerous previous studies. In the present study, 75% of lower respiratory samples contained heterogeneous influenza populations that carried different amino acids at position 222 of the HA protein, whereas all upper respiratory samples only contained the wild-type 222D. These results suggest the influenza A(H1N1)pdm09 virus has diversified inside the host owing to differences in tissue specificity. In this study, the within-host genetic diversity of influenza A(H1N1)pdm09 virus was investigated for the first time using next-generation sequencing analysis of the viral whole-genome in samples extracted from the upper and lower respiratory tracts of patients with severe disease.

scholarly journals Characterizing the Countrywide Epidemic Spread of Influenza A(H1N1)pdm09 Virus in Kenya between 2009 and 2018

Viruses ◽  
2021 ◽  
Vol 13 (10) ◽  
pp. 1956
Author(s):  
D. Collins Owuor ◽  
Zaydah R. de Laurent ◽  
Gilbert K. Kikwai ◽  
Lillian M. Mayieka ◽  
Melvin Ochieng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Influenza A ◽  
Sequence Data ◽  
Influenza Viruses ◽  
Seasonal Fluctuations ◽  
Middle Income ◽  
Full Diversity ◽  
Virus Diversity ◽  
Pdm09 Virus ◽  
Influenza A H1n1

The spatiotemporal patterns of spread of influenza A(H1N1)pdm09 viruses on a countrywide scale are unclear in many tropical/subtropical regions mainly because spatiotemporally representative sequence data are lacking. We isolated, sequenced, and analyzed 383 A(H1N1)pdm09 viral genomes from hospitalized patients between 2009 and 2018 from seven locations across Kenya. Using these genomes and contemporaneously sampled global sequences, we characterized the spread of the virus in Kenya over several seasons using phylodynamic methods. The transmission dynamics of A(H1N1)pdm09 virus in Kenya were characterized by (i) multiple virus introductions into Kenya over the study period, although only a few of those introductions instigated local seasonal epidemics that then established local transmission clusters, (ii) persistence of transmission clusters over several epidemic seasons across the country, (iii) seasonal fluctuations in effective reproduction number (Re) associated with lower number of infections and seasonal fluctuations in relative genetic diversity after an initial rapid increase during the early pandemic phase, which broadly corresponded to epidemic peaks in the northern and southern hemispheres, (iv) high virus genetic diversity with greater frequency of seasonal fluctuations in 2009–2011 and 2018 and low virus genetic diversity with relatively weaker seasonal fluctuations in 2012–2017, and (v) virus spread across Kenya. Considerable influenza virus diversity circulated within Kenya, including persistent viral lineages that were unique to the country, which may have been capable of dissemination to other continents through a globally migrating virus population. Further knowledge of the viral lineages that circulate within understudied low-to-middle-income tropical and subtropical regions is required to understand the full diversity and global ecology of influenza viruses in humans and to inform vaccination strategies within these regions.

scholarly journals Characterizing the countrywide epidemic spread of influenza A(H1N1)pdm09 virus in Kenya between 2009 and 2018

2021 ◽  
Author(s):  
D. Collins Owuor ◽  
Zaydah R. de Laurent ◽  
Gilbert K. Kikwai ◽  
Lillian M. Mayieka ◽  
Melvin Ochieng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Influenza A ◽  
Sequence Data ◽  
Influenza Viruses ◽  
Seasonal Fluctuations ◽  
Middle Income ◽  
Virus Diversity ◽  
Pdm09 Virus ◽  
Geographical Regions ◽  
Influenza A H1n1

ABSTRACTBackgroundThe spatiotemporal patterns of spread of influenza A(H1N1)pdm09 viruses on a countrywide scale are unclear in many tropical/subtropical regions mainly because spatiotemporally representative sequence data is lacking.MethodsWe isolated, sequenced, and analyzed 383 influenza A(H1N1)pdm09 viral genomes isolated from hospitalized patients between 2009 and 2018 from seven locations across Kenya. Using these genomes and contemporaneously sampled global sequences, we characterized the spread of the virus in Kenya over several seasons using phylodynamic methods.ResultsThe transmission dynamics of influenza A(H1N1)pdm09 virus in Kenya was characterized by: (i) multiple virus introductions into Kenya over the study period, although these were remarkably few, with only a few of those introductions instigating seasonal epidemics that then established local transmission clusters; (ii) persistence of transmission clusters over several epidemic seasons across the country; (iii) seasonal fluctuations in effective reproduction number (Re) associated with lower number of infections and seasonal fluctuations in relative genetic diversity after an initial rapid increase during the early pandemic phase, which broadly corresponded to epidemic peaks in the northern and southern hemispheres; (iv) high virus genetic diversity with greater frequency of seasonal fluctuations in 2009-11 and 2018 and low virus genetic diversity with relatively weaker seasonal fluctuations in 2012-17; and (v) virus migration from multiple geographical regions to multiple geographical destinations in Kenya.ConclusionConsiderable influenza virus diversity circulates within Africa, as demonstrated in this report, including virus lineages that are unique to the region, which may be capable of dissemination to other continents through a globally migrating virus population. Further knowledge of the viral lineages that circulate within understudied low-to-middle income tropical and subtropical regions is required to understand the full diversity and global ecology of influenza viruses in humans and to inform vaccination strategies within these regions.

scholarly journals Seroprevalence study of infection with influenza A(H1N1)pdm09 virus in San Felipe Town, Chile

2013 ◽  
Vol 03 (07) ◽  
pp. 476-482
Author(s):  
Olea Andrea ◽  
Fasce Rodrigo ◽  
Aguilera Ximena ◽  
Oliva Otavio ◽  
Muñoz Sergio ◽  
...  
Keyword(s):  
Influenza A ◽  
Seroprevalence Study ◽  
Pdm09 Virus ◽  
Influenza A H1n1

scholarly journals Fluctuations in influenza-like illness epidemics and suicide mortality: A time-series regression of 13-year mortality data in South Korea

PLoS ONE ◽  
2021 ◽  
Vol 16 (2) ◽  
pp. e0244596
Author(s):  
Sun Jae Jung ◽  
Sung-Shil Lim ◽  
Jin-Ha Yoon
Keyword(s):  
Time Series ◽  
South Korea ◽  
Influenza A ◽  
Suicide Mortality ◽  
Mortality Data ◽  
Time Series Regression ◽  
Influenza Like Illness ◽  
Pdm09 Virus ◽  
Influenza A H1n1 ◽  
Novel Influenza A

Aims We explored the association between influenza epidemic and suicide mortality rates in a large population using a time-series regression of 13-year mortality data in South Korea. Methods Weekly suicide mortalities and influenza-like illness (ILI) were analyzed using time series regression. Regression coefficient for suicide mortality based on percentage change of ILI was calculated using a quasi-Poisson regression. Non-linear distributed lag models with quadratic function up to 24 weeks were constructed. Results The association between ILI and suicide mortality increased significantly up to 8 weeks post-influenza diagnosis. A significant positive association between ILI and suicide mortality was observed from 2009, when a novel influenza A(H1N1)pdm09 virus provoked a worldwide pandemic. No meaningful association between these factors was observed before 2009. Conclusion There was a significant positive relationship between ILI and suicide mortality after 2009, when a novel influenza A(H1N1)pdm09 virus provoked a worldwide pandemic.

scholarly journals Influenza A(H1N1)pdm09 virus and asthma

2013 ◽  
Vol 4 ◽  
Author(s):  
Masatsugu Obuchi ◽  
Yuichi Adachi ◽  
Takenori Takizawa ◽  
Tetsutaro Sata
Keyword(s):  
Influenza A ◽  
Pdm09 Virus ◽  
Influenza A H1n1

scholarly journals Detection of the Influenza A(H1N1)pdm09 Virus Carrying the K-15E, P83S and Q293H Mutations in Patients Who Have Undergone Bone Marrow Transplant

PLoS ONE ◽  
2014 ◽  
Vol 9 (4) ◽  
pp. e94822 ◽  
Author(s):  
Milene Mesquita ◽  
Paola Resende ◽  
Andressa Marttorelli ◽  
Viviane Machado ◽  
Carolina Q. Sacramento ◽  
...  
Keyword(s):  
Bone Marrow ◽  
Bone Marrow Transplant ◽  
Influenza A ◽  
Marrow Transplant ◽  
Pdm09 Virus ◽  
Influenza A H1n1

scholarly journals Contact Tracing for Influenza A(H1N1)pdm09 Virus–infected Passenger on International Flight

2014 ◽  
Vol 20 (1) ◽  
pp. 118-120 ◽  
Author(s):  
Ananda G. Shankar ◽  
Kulsum Janmohamed ◽  
Babatunde Olowokure ◽  
Gillian E. Smith ◽  
Angela H. Hogan ◽  
...  
Keyword(s):  
Influenza A ◽  
Contact Tracing ◽  
Pdm09 Virus ◽  
Influenza A H1n1

Oseltamivir-resistant influenza A(H1N1) pdm09 virus: first reported case from India

2013 ◽  
Vol 2 (3) ◽  
pp. 181 ◽  
Author(s):  
VarshaA Potdar ◽  
VikramV Padbidri ◽  
MandeepS Chadha
Keyword(s):  
Influenza A ◽  
Pdm09 Virus ◽  
Influenza A H1n1

scholarly journals Surveillance for Oseltamivir-Resistant Influenza A(H1N1)pdm09 Virus Infections During 2015–2016, United States

2016 ◽  
Vol 3 (suppl_1) ◽  
Author(s):  
Sarah Spencer ◽  
Ha Nguyen ◽  
Anwar Abd Elal ◽  
Angela P. Campbell ◽  
Jennifer Laplante ◽  
...  
Keyword(s):  
United States ◽  
Influenza A ◽  
Virus Infections ◽  
Pdm09 Virus ◽  
Influenza A H1n1
Sign in / Sign up

Export Citation Format

Share Document