Ecology of Influenza Virus in Wild Bird Populations in Central Asia

Marchenko, Vasiliy Y.; Alekseev, Alexander; Sharshov, Kirill; Petrov, V. N.; Silko, Nikita Y.; Susloparov, Ivan M.; Tserennorov, D.; Otgonbaatar, Dashdavaa; Савченко, И. А.; Shestopalov, А. М.

doi:10.1637/9834-061611-resnote.1

Cited by 31 publications

(16 citation statements)

References 14 publications

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“…For example, the selection of minority variants with a deletion in the neuraminidase (NA) gene that allows the adaptation of avian influenza viruses from waterfowl to domestic poultry [77], suggests a high frequency of mixed infections and genetic reassortment within these viruses [78, 79, 85]. Other studies described the prevalence and spread patterns of different human influenza viruses in specific geographic areas, based not only on the hemagglutinin (HA) and NA genes but by analyzing all viral segments [86–89].…”

Section: Applications In General Virologymentioning

confidence: 99%

Deep sequencing: Becoming a critical tool in clinical virology

Quiñones‐Mateu¹,

Ávila²,

Reyes‐Terán³

et al. 2014

Journal of Clinical Virology

115

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Population (Sanger) sequencing has been the standard method in basic and clinical DNA sequencing for almost 40 years; however, next-generation (deep) sequencing methodologies are now revolutionizing the field of genomics, and clinical virology is no exception. Deep sequencing is highly efficient, producing an enormous amount of information at low cost in a relatively short period of time. High-throughput sequencing techniques have enabled significant contributions to multiples areas in virology, including virus discovery and metagenomics (viromes), molecular epidemiology, pathogenesis, and studies of how viruses to escape the host immune system and antiviral pressures. In addition, new and more affordable deep sequencing-based assays are now being implemented in clinical laboratories. Here we review the use of the current deep sequencing platforms in virology, focusing on three of the most studied viruses: human immunodeficiency virus (HIV), hepatitis C virus (HCV), and influenza virus.

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Section: Applications In General Virologymentioning

confidence: 99%

Deep sequencing: Becoming a critical tool in clinical virology

Quiñones‐Mateu¹,

Ávila²,

Reyes‐Terán³

et al. 2014

Journal of Clinical Virology

115

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“…Currently, 18 known HA and 11 known NA subtypes were reported (CDC, 2015). Of these, 16 HA [H1-H16] and 9 NA [N1-N9] subtypes have been isolated from wild aquatic birds (Webster et al, 1992;Olsen et al, 2006;Krauss and Webster, 2010;Marchenko et al, 2012). Influenza A virus infections in wild aquatic birds are predominantly maintained by asymptomatic condition (Taubenberger and Kash, 2010;França and Brown, 2014).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide gene expression pattern underlying differential host response to high or low pathogenic H5N1 avian influenza virus in ducks

Kumar¹,

Vijayakumar²,

Gandhale³

et al. 2017

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The differences in the influenza viral pathogenesis observed between different pathogenic strains are associated with distinct properties of virus strains and the host immune responses. In order to determine the differences in the duck immune response against two different pathogenic strains, we studied genome-wide host immune gene response of ducks infected with A/duck/India/02CA10/2011 and A/duck/Tripura/103597/2008 H5N1 viruses using custom-designed microarray. A/duck/India/02CA10/2011 is highly pathogenic virus (HP) to ducks, whereas A/duck/Tripura/103597/2008 is a low pathogenic (LP) virus strain. Comparative lung tissue transcriptome analysis of differentially expressed genes revealed that 686 genes were commonly expressed, 880 and 1556 genes are expressed uniquely to infection with HP and LP virus, respectively. The up-regulation of chemokines (CCL4 and CXCR4) and IFN-stimulated genes (IFITM2, STAT3, TGFB1 and TGFB3) was observed in the lung tissues of ducks infected with HP virus. The up-regulation of other immune genes (IL17, OAS, SOCS3, MHC I and MHC II) was observed in both infection conditions. The expression of important antiviral immune genes MX, IFIT5, IFITM5, ISG12, β-defensins, RSAD2, EIF2AK2, TRIM23 and SLC16A3 was observed in LP virus infection, but not in HP virus infection. Several immune-related gene ontology terms and pathways activated by both the viruses were qualitatively similar but quantitatively different. Based on these findings, the differences in the host immune response might explain a part of the difference observed in the viral pathogenesis of high and low pathogenic influenza strains in ducks.

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“…European Teal winters in western Europe, the Mediterranean, and the Caspian Sea. Various subtypes (H1N1, H2N1, H3N8, H4N6, H5N1, H8N4, H8N4, and H15N4) were isolated from European Teals during influenza surveillance in Russian Federation (Sivay et al 2011(Sivay et al , 2013Marchenko et al 2010aMarchenko et al , 2012aDonchenko et al 2012;Sayfutdinova et al 2012). Lower virus isolation rates are typical for Charadriiformes (Webster et al 1992;Stallknecht and Shane 1988;Neumann and Kawaoka 2006).…”

Section: Discussionmentioning

confidence: 99%

Avian influenza virus ecology in wild birds of Western Siberia

Sharshov

Yurlov

et al. 2017

Avian Res

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Background: The aim of the study was to explore the ecological diversity of wild birds in Siberia, which are the natural reservoir of avian influenza virus (AIV). Methods:Cloacal swabs and intestinal fragments were collected from wild migratory birds from 2007-2014. Isolated viruses were grown in the allantoic cavity of embryonated chicken eggs. The presence of virus was determined using hemagglutination assays. Primary identification and subtyping of influenza viruses was confirmed by RT-PCR. Conclusions:Wild migratory waterfowl of orders Anseriformes and Charadriiformes are the main reservoir of AIV in the south of Western Siberia. This area plays a key role in persistence, evolution, and geographical distribution of avian influenza.

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Ecology of Influenza Virus in Wild Bird Populations in Central Asia

Cited by 31 publications

References 14 publications

Deep sequencing: Becoming a critical tool in clinical virology

Deep sequencing: Becoming a critical tool in clinical virology

Genome-wide gene expression pattern underlying differential host response to high or low pathogenic H5N1 avian influenza virus in ducks

Avian influenza virus ecology in wild birds of Western Siberia

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