scholarly journals Coding-Complete Genome Sequences of Six Influenza Type A Strains Circulating in Lithuania in the 2009–2010 Epidemic Season

2021 ◽  
Vol 10 (1) ◽  
Author(s):  
Lukasz Rabalski ◽  
Boguslaw Szewczyk ◽  
Kęstutis Zagminas ◽  
Algirdas Griskevicius ◽  
Krzysztof Lepek
Keyword(s):  
Complete Genome ◽  
Influenza A ◽  
Reference Strain ◽  
Type A ◽  
Influenza Surveillance ◽  
Genome Sequences ◽  
Epidemic Season ◽  
Link Type ◽  
Influenza A H1n1 ◽  
Genes Encoding

ABSTRACT Here, we report the coding-complete genome sequences of six influenza A(H1N1) strains that were detected in Vilnius, Lithuania, among patients exhibiting influenza-like symptoms during the 2009–2010 epidemic season, within national influenza surveillance. Several mutations were found in genes encoding hemagglutinin and neuraminidase, in comparison with the A/California/07/2009 reference strain (GenBank accession numbers NC_026433 and NC_026434).

scholarly journals Complete Genome Sequences of Influenza A/H1N1 Strains Isolated from Patients during the 2013-2014 Epidemic Season in Finland

2015 ◽  
Vol 3 (2) ◽  
Author(s):  
Petri Jalovaara ◽  
Polina Mishel ◽  
Hannimari Kallio-Kokko ◽  
Miia Valkonen ◽  
Anu Kantele ◽  
...  
Keyword(s):  
Complete Genome ◽  
Influenza A ◽  
Genome Sequences ◽  
Epidemic Season ◽  
Influenza A H1n1

scholarly journals Differentiation of two distinct clusters among currently circulating influenza A(H1N1)v viruses, March-September 2009

2009 ◽  
Vol 14 (46) ◽  
Author(s):  
S R Fereidouni ◽  
M Beer ◽  
T Vahlenkamp ◽  
E Starick
Keyword(s):  
Influenza A ◽  
Matrix Protein ◽  
Phylogenetic Inference ◽  
Surface Proteins ◽  
Structural Protein ◽  
Genome Sequences ◽  
Tree Construction ◽  
Influenza A H1n1 ◽  
Genes Encoding ◽  
Matrix Protein M1

Analysis of all complete genome sequences of the pandemic influenza A(H1N1)v virus available as of 10 September 2009 revealed that two closely related but distinct clusters were circulating in most of the affected countries at the same time. The characteristic differences are located in genes encoding the two surface proteins - haemagglutinin and neuraminidase - and four internal proteins – the polymerase PB2 subunit, nucleoprotein, matrix protein M1 and the non-structural protein NS1. Phylogenetic inference was demonstrated by neighbour joining, maximum likelihood and Bayesian trees analyses of the involved genes and by tree construction of concatenated sequences.

scholarly journals SUMMARY OF INFLUENZA AND OTHER RESPIRATORY VIRUSES DETECTED AND CHARACTERIZED IN RUSSIA DURING 2017–2018 SEASON

2019 ◽  
Vol 8 (4) ◽  
pp. 473-488
Author(s):  
A. A. Sominina ◽  
D. M. Danilenko ◽  
A. B. Komissarov ◽  
A. V. Fadeev ◽  
M. M. Pisareva ◽  
...  
Keyword(s):  
Influenza A ◽  
Influenza Viruses ◽  
Moderate Intensity ◽  
Antigenic Determinants ◽  
Influenza B ◽  
Epidemic Season ◽  
Influenza A H1n1 ◽  
Epidemic Period ◽  
Genes Encoding ◽  
The Impact

Abstract.The influenza season 2017–2018 started significantly later compared to the five previous seasons. Influenza epidemic lasted for 12 weeks (weeks 6–17), was of moderate intensity and 10,4% of the population of the country was involved with children aged 0–2 and 3–6 years being the most affected groups as usually. The average hospitalization rate of patients with ILI and ARI was 2,6% and was the highest in infants aged 0–2 years (5,4%). The number of influenzaassociated deaths was two times higher this season compared to 2016–2017 which can be attributed to the circulation of A(H1N1)pdm09 viruses that still is the major cause of lethal influenza outcomes in the country. A total 72 759 patients were investigated by RT-PCR in 55 collaborating RBLs. Laboratory confirmed influenza (LCI) was detected in 12 149 (20.7%) cases, of which 39.3% were influenza A(H1N1)pdm09 viruses, 29.6% were A(H3N2) and 31.1% influenza B (Yamagata lineage) viruses. The first cases of influenza viruses were detected at the very beginning of the season (weeks 40–45.2017), however a distinct increase in the rate of detection was registered only from the week 2.2018 with the peak on the week 13–14.2018 and subsequent gradual decline up to the end of the season. The certain differences in the etiology of morbidity between Federal Districts were registered. The impact of influenza and other ARI agents in different stage of epidemic was determined. In the pre-epidemic period, the incidence growth was occurred mainly due to ARI agents (about 32,7%), especially due to rhinoviruses (RhV) and RSV (10.2 and 8.0% cases, respectively) while LCI were registered in 3.4% only. During the epidemic, the rate of LCI detection increased up to 29.2% at simultaneous decrease in frequency of parainfluenza, adenovirus, bocavirus, coronavirus and, especially, rhinoviruses, to a lesser extent RSV infection. In the post-epidemic period, the role of influenza A(H1N1)pdm09, A(H3N2) and В viruses decreased up to 6.1; 6.9 and 3.6%, respectively, with increase of rhinoviruses (9.5% of diseases). Genetic analysis of influenza A(H1N1)pdm09 and A(H3N2) viruses circulating in 2017–2018 season showed that all analyzed viruses by the structure of surface genes encoding antigenic determinants, in difference from influenza B viruses, corresponded to the vaccine strains recommended by WHO for the Northern Hemisphere for 2017–2018 epidemic season. However, significant changes in the internal genes of circulating viruses were revealed. The control of the susceptibility of 316 influenza A and B viruses to antiviral drugs showed that the absolute majority of them (99.7%) retained their susceptibility to neuraminidase inhibitors.

scholarly journals Complete Genome Analysis of Influenza A(H1N1) Viruses Isolated in Kerala, India

2020 ◽  
Vol 9 (12) ◽  
Author(s):  
Raji Prasad ◽  
Vishnu VikramanThampi Mohanakumari ◽  
Remya Vasanthi Sasi ◽  
Radhakrishnan Nair ◽  
Sara Jones ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Genome Analysis ◽  
Influenza A ◽  
South India ◽  
Reference Strain ◽  
H1n1 Virus ◽  
Complete Sequence ◽  
Epidemic Season ◽  
Influenza A H1n1 ◽  
Complete Genome Analysis

Here, we report the complete sequence of four influenza A(H1N1) virus samples isolated from cases that occurred during the 2017 epidemic season in Kerala in South India. Sequence analysis showed mutations that differentiate this strain from the reference strain A/California/07/2009 virus.

scholarly journals Whole-Genome Sequences of Influenza A(H1N1)pdm09 Virus Isolates from Kerala, India

2017 ◽  
Vol 5 (28) ◽  
Author(s):  
Sara Jones ◽  
Raji Prasad ◽  
Anjana S. Nair ◽  
Sanjai Dharmaseelan ◽  
Remya Usha ◽  
...  
Keyword(s):  
Amino Acid ◽  
Amino Acid Analysis ◽  
Influenza A ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
H1n1 Pandemic ◽  
Genome Sequences ◽  
Influenza A H1n1 ◽  
Virus Isolates ◽  
New Mutations

ABSTRACT We report here the whole-genome sequence of six clinical isolates of influenza A(H1N1)pdm09, isolated from Kerala, India. Amino acid analysis of all gene segments from the A(H1N1)pdm09 isolates obtained in 2014 and 2015 identified several new mutations compared to the 2009 A(H1N1) pandemic strain.

scholarly journals Full-Genome Sequences of Influenza A(H1N1)pdm09 Viruses Isolated from Finnish Patients from 2009 to 2013

2014 ◽  
Vol 2 (1) ◽  
Author(s):  
T. Lakspere ◽  
J. Tynell ◽  
M. Kaloinen ◽  
M. Vanlede ◽  
A. Parsons ◽  
...  
Keyword(s):  
Influenza A ◽  
Full Genome ◽  
Genome Sequences ◽  
Influenza A H1n1

scholarly journals MOLECULAR AND GENETIC CHARACTERISTICS OF SURFACE AND NONSTRUCTURE PROTEINS OF PANDEMIC INFLUENZA VIRUSES A(H1N1)PDM09 IN 2015-2016 EPIDEMIC SEASON

2016 ◽  
Vol 72 (2) ◽  
pp. 44-48
Author(s):  
O. Smutko ◽  
L. Radchenko ◽  
A. Mironenko
Keyword(s):  
Amino Acid ◽  
Pandemic Influenza ◽  
Influenza A ◽  
Phylogenetic Trees ◽  
Influenza Viruses ◽  
Amino Acid Substitutions ◽  
Ns1 Protein ◽  
Genetic Characteristics ◽  
Epidemic Season ◽  
Influenza A H1n1

The aim of the present study was identifying of molecular and genetic changes in hemaglutinin (HA), neuraminidase (NA) and non-structure protein (NS1) genes of pandemic influenza A(H1N1)pdm09 strains, that circulated in Ukraine during 2015-2016 epidemic season. Samples (nasopharyngeal swabs from patients) were analyzed using real-time polymerase chain reaction (RTPCR). Phylogenetic trees were constructed using MEGA 7 software. 3D structures were constructed in Chimera 1.11.2rc software. Viruses were collected in 2015-2016 season fell into genetic group 6B and in two emerging subgroups, 6B.1 and 6B.2 by gene of HA and NA. Subgroups 6B.1 and 6B.2 are defined by the following amino acid substitutions. In the NS1 protein were identified new amino acid substitutions D2E, N48S, and E125D in 2015-2016 epidemic season. Specific changes were observed in HA protein antigenic sites, but viruses saved similarity to vaccine strain. NS1 protein acquired substitution associated with increased virulence of the influenza virus.

scholarly journals Genetic analysis of the complete genome of influenza A (H1N1) pdm09 during the first wave of the pandemic season in Indonesia

2017 ◽  
Vol 6 (3) ◽  
pp. 476 ◽  
Author(s):  
Hana Apsari Pawestri ◽  
Ni K. Susilarini ◽  
Kartika D. Puspa ◽  
Hartanti D. Ikawati ◽  
Kindi Adam ◽  
...  
Keyword(s):  
Genetic Analysis ◽  
Complete Genome ◽  
Influenza A ◽  
Influenza A H1n1

Antigenic and genomic characterization of human influenza A and B viruses circulating in Argentina after the introduction of influenza A(H1N1)pdm09

2014 ◽  
Vol 63 (12) ◽  
pp. 1626-1637 ◽  
Author(s):  
Mara L. Russo ◽  
Andrea V. Pontoriero ◽  
Estefania Benedetti ◽  
Andrea Czech ◽  
Martin Avaro ◽  
...  
Keyword(s):  
Southern Hemisphere ◽  
Influenza A ◽  
Vaccine Virus ◽  
Influenza Viruses ◽  
World Health ◽  
Influenza Surveillance ◽  
Human Influenza ◽  
Surveillance Network ◽  
Influenza A H1n1 ◽  
Health Organization

This study was conducted as part of the Argentinean Influenza and other Respiratory Viruses Surveillance Network, in the context of the Global Influenza Surveillance carried out by the World Health Organization (WHO). The objective was to study the activity and the antigenic and genomic characteristics of circulating viruses for three consecutive seasons (2010, 2011 and 2012) in order to investigate the emergence of influenza viral variants. During the study period, influenza virus circulation was detected from January to December. Influenza A and B, and all current subtypes of human influenza viruses, were present each year. Throughout the 2010 post-pandemic season, influenza A(H1N1)pdm09, unexpectedly, almost disappeared. The haemagglutinin (HA) of the A(H1N1)pdm09 viruses studied were segregated in a different genetic group to those identified during the 2009 pandemic, although they were still antigenically closely related to the vaccine strain A/California/07/2009. Influenza A(H3N2) viruses were the predominant strains circulating during the 2011 season, accounting for nearly 76 % of influenza viruses identified. That year, all HA sequences of the A(H3N2) viruses tested fell into the A/Victoria/208/2009 genetic clade, but remained antigenically related to A/Perth/16/2009 (reference vaccine recommended for this three-year period). A(H3N2) viruses isolated in 2012 were antigenically closely related to A/Victoria/361/2011, recommended by the WHO as the H3 component for the 2013 Southern Hemisphere formulation. B viruses belonging to the B/Victoria lineage circulated in 2010. A mixed circulation of viral variants of both B/Victoria and B/Yamagata lineages was detected in 2012, with the former being predominant. A(H1N1)pdm09 viruses remained antigenically closely related to the vaccine virus A/California/7/2009; A(H3N2) viruses continually evolved into new antigenic clusters and both B lineages, B/Victoria/2/87-like and B/Yamagata/16/88-like viruses, were observed during the study period. The virological surveillance showed that the majority of the circulating strains during the study period were antigenically related to the corresponding Southern Hemisphere vaccine strains except for the 2012 A(H3N2) viruses.

Dual and Triple Infections With Influenza A and B Viruses: A Case-Control Study in Southern Brazil

2019 ◽  
Vol 220 (6) ◽  
pp. 961-968 ◽  
Author(s):  
Tatiana Schäffer Gregianini ◽  
Ivana R Santos Varella ◽  
Patricia Fisch ◽  
Letícia Garay Martins ◽  
Ana B G Veiga
Keyword(s):  
Influenza Virus ◽  
Influenza A ◽  
Clinical Symptoms ◽  
Antiviral Treatment ◽  
Influenza Virus Infection ◽  
H3n2 Virus ◽  
Influenza Surveillance ◽  
Influenza B Virus ◽  
Influenza B ◽  
Influenza A H1n1

Abstract Influenza surveillance is important for disease control and should consider possible coinfection with different viruses, which can be associated with disease severity. This study analyzed 34 459 patients with respiratory infection from 2009 to 2018, of whom 8011 were positive for influenza A virus (IAV) or influenza B virus (IBV). We found 18 cases of dual influenza virus infection, including coinfection with 2009 pandemic influenza A(H1N1) virus (A[H1N1]pdm09) and influenza A(H3N2) virus (1 case), A(H1N1)pdm09 and IBV (6 cases), A(H3N2) and IBV (8 cases), and nonsubtyped IAV and IBV (3 cases); and 1 case of triple infection with A(H3N2), A(H1N1)pdm09, and IBV. Compared with 76 monoinfected patients, coinfection was significantly associated with cardiopathy and death. Besides demographic characteristics and clinical symptoms, we assessed vaccination status, antiviral treatment, timeliness of antiviral use, hospitalization, and intensive care unit admission, but no significant differences were found between coinfected and monoinfected cases. Our findings indicate that influenza virus coinfection occurs more often than previously reported and that it can lead to a worse disease outcome.

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