Rapid molecular haemagglutinin subtyping of avian influenza isolates by specific real-time RT-PCR tests

Elizalde, Maia; Agüero, Montserrat; Buitrago, Dolores; Yuste, María; Arias, M.; Muñoz, Marı́a Jesús; Lelli, Davide; Pérez‐Ramírez, Elisa; Martin, Ana Moreno; Fernández-Piñero, Jovita

doi:10.1016/j.jviromet.2013.10.031

Cited by 19 publications

(10 citation statements)

References 54 publications

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“…Recently, Elizalde and colleagues described a molecular subtyping approach for HA subtyping of IAV 19 , and the use of locked nucleic acids (LNA) within the probe sequence in this method rendered the RT-qPCR assays highly subtype-specific 19 . LNA probes are specific to such an extent that single nucleotide polymorphism (SNP) genotyping is possible 20 .…”

Section: Discussionmentioning

confidence: 99%

Riems influenza a typing array (RITA): An RT-qPCR-based low density array for subtyping avian and mammalian influenza a viruses

Hoffmann

Henritzi

et al. 2016

Sci Rep

119

105

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Rapid and sensitive diagnostic approaches are of the utmost importance for the detection of humans and animals infected by specific influenza virus subtype(s). Cascade-like diagnostics starting with the use of pan-influenza assays and subsequent subtyping devices are normally used. Here, we demonstrated a novel low density array combining 32 TaqMan® real-time RT-PCR systems in parallel for the specific detection of the haemagglutinin (HA) and neuraminidase (NA) subtypes of avian and porcine hosts. The sensitivity of the newly developed system was compared with that of the pan-influenza assay, and the specificity of all RT-qPCRs was examined using a broad panel of 404 different influenza A virus isolates representing 45 different subtypes. Furthermore, we analysed the performance of the RT-qPCR assays with diagnostic samples obtained from wild birds and swine. Due to the open format of the array, adaptations to detect newly emerging influenza A virus strains can easily be integrated. The RITA array represents a competitive, fast and sensitive subtyping tool that requires neither new machinery nor additional training of staff in a lab where RT-qPCR is already established.

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Section: Discussionmentioning

confidence: 99%

Riems influenza a typing array (RITA): An RT-qPCR-based low density array for subtyping avian and mammalian influenza a viruses

Hoffmann

Henritzi

et al. 2016

Sci Rep

119

105

View full text Add to dashboard Cite

show abstract

“…If no AIV was detected, the allantoic fluid was passaged twice in a new set of embryonated chicken eggs. AIV+ HA and neuraminidase subtyping was also performed ( 34 , 35 ).…”

Section: Methodsmentioning

confidence: 99%

Avian Influenza Virus Surveillance in South-Central Spain Using Fecal Samples of Aquatic Birds Foraging at Landfills

et al. 2017

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Aquatic wild birds have been intensively studied to better understand their role in avian influenza virus (AIV) maintenance and spread. To date, AIV surveillance has primarily focused on natural aquatic environments where different bird species aggregate and viral survival is enhanced. However, artificial habitats such as landfills are attracting substantial numbers of wild birds, AIV reservoir species included. The use of landfills as a predictable food source has significantly influenced population size, migratory traits, and feeding behavior of white storks (Ciconia ciconia) and black-headed gulls (Chroicocephalus ridibundus) among others. Considering the proximity of landfills to urban settlements and frequently poultry-farms, targeted monitoring of AIV in bird species that forage at landfills but are known to also frequent urban and agricultural habitats could be a useful means for monitoring of AIV, especially during periods of bird aggregation. During the wintering season 2014–2015, the prevalence of AIV in five avian species at two landfills in South-Central Spain was explored by rRT-PCR and species related temporal variation in AIV prevalence determined. We collected and tested 1,186 fresh fecal samples from white storks (N = 689), cattle egrets (Bubulcus ibis, N = 116) and mixed flocks of gulls (N = 381) as well as cloacal and oral swabs from five birds found dead. Seven samples contained AIV, five from gulls and one each from a stork and a cattle egret. Overall, AIV prevalence was 0.60%. No significant temporal variation was observed in AIV prevalence. Prevalence differed significantly among the sampled taxonomic groups, being highest in gulls (1.31%). H16N3 subtype was detected from a cattle egret and H11N9 subtype from a white stork, whereas gulls harbored both subtypes in addition to H11N3 subtype. H16 subtype detection in a cattle egret evidences its host range may not be restricted to gulls. Our results indicate that wild birds foraging at landfills may carry different LPAIV subtypes.

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“…A total of 124 environmental specimens, including poultry feces, poultry cage swabs and water used to remove feathers, were collected from two wholesale LPMs in Hangzhou during the period from August 2013 to January 2014. Sixteen hemagglutinin (HA) subtypes and three neuraminidase (NA) subtypes were tested using real-time reverse transcription polymerase chain reaction according to previously published methods 6 and the protocols provided by the World Health Organization Collaborating Center for Reference and Research on Influenza at the Chinese National Influenza Center, Beijing, China. Five environmental specimens positive for H7 and N9 by reverse transcription polymerase chain reaction were utilized to determine H7 and N9 sequences using previously described methods 7 .…”

mentioning

confidence: 99%

The diversity of avian influenza virus subtypes in live poultry markets before and during the second wave of A(H7N9) infections in Hangzhou, China

et al. 2015

Emerging Microbes & Infections

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Rapid molecular haemagglutinin subtyping of avian influenza isolates by specific real-time RT-PCR tests

Cited by 19 publications

References 54 publications

Riems influenza a typing array (RITA): An RT-qPCR-based low density array for subtyping avian and mammalian influenza a viruses

Riems influenza a typing array (RITA): An RT-qPCR-based low density array for subtyping avian and mammalian influenza a viruses

Avian Influenza Virus Surveillance in South-Central Spain Using Fecal Samples of Aquatic Birds Foraging at Landfills

The diversity of avian influenza virus subtypes in live poultry markets before and during the second wave of A(H7N9) infections in Hangzhou, China

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