Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties
The rapid spread of highly pathogenic avian influenza (HPAI) A (H5N1) viruses in Southeast Asia in 2004 prompted the New Zealand Ministry for Primary Industries to expand its avian influenza surveillance in wild birds. A total of 18,693 birds were sampled between 2004 and 2020, including migratory s...
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crplos:10.1371/journal.pone.0303756 2024-09-30T14:33:23+00:00 Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties Stanislawek, Wlodek L. Tana, Toni Rawdon, Thomas G. Cork, Susan C. Chen, Kylie Fatoyinbo, Hammed Cogger, Naomi Webby, Richard J. Webster, Robert G. Joyce, Maree Tuboltsev, Mary Ann Orr, Della Ohneiser, Sylvia Watts, Jonathan Riegen, Adrian C. McDougall, Matthew Klee, David O’Keefe, Joseph S. Wen, Feng Ministry for Primary Industries (MPI), Animal Health Laboratory, Diagnostics and Surveillance Directorate, Biosecurity New Zealand 2024 http://dx.doi.org/10.1371/journal.pone.0303756 https://dx.plos.org/10.1371/journal.pone.0303756 en eng Public Library of Science (PLoS) http://creativecommons.org/licenses/by/4.0/ PLOS ONE volume 19, issue 6, page e0303756 ISSN 1932-6203 journal-article 2024 crplos https://doi.org/10.1371/journal.pone.0303756 2024-09-17T04:32:44Z The rapid spread of highly pathogenic avian influenza (HPAI) A (H5N1) viruses in Southeast Asia in 2004 prompted the New Zealand Ministry for Primary Industries to expand its avian influenza surveillance in wild birds. A total of 18,693 birds were sampled between 2004 and 2020, including migratory shorebirds (in 2004–2009), other coastal species (in 2009–2010), and resident waterfowl (in 2004–2020). No avian influenza viruses (AIVs) were isolated from cloacal or oropharyngeal samples from migratory shorebirds or resident coastal species. Two samples from red knots (Calidris canutus) tested positive by influenza A RT-qPCR, but virus could not be isolated and no further characterization could be undertaken. In contrast, 6179 samples from 15,740 mallards ( Anas platyrhynchos ) tested positive by influenza A RT-qPCR. Of these, 344 were positive for H5 and 51 for H7. All H5 and H7 viruses detected were of low pathogenicity confirmed by a lack of multiple basic amino acids at the hemagglutinin (HA) cleavage site. Twenty H5 viruses (six different neuraminidase [NA] subtypes) and 10 H7 viruses (two different NA subtypes) were propagated and characterized genetically. From H5- or H7-negative samples that tested positive by influenza A RT-qPCR, 326 AIVs were isolated, representing 41 HA/NA combinations. The most frequently isolated subtypes were H4N6, H3N8, H3N2, and H10N3. Multivariable logistic regression analysis of the relations between the location and year of sampling, and presence of AIV in individual waterfowl showed that the AIV risk at a given location varied from year to year. The H5 and H7 isolates both formed monophyletic HA groups. The H5 viruses were most closely related to North American lineages, whereas the H7 viruses formed a sister cluster relationship with wild bird viruses of the Eurasian and Australian lineages. Bayesian analysis indicates that the H5 and H7 viruses have circulated in resident mallards in New Zealand for some time. Correspondingly, we found limited evidence of influenza viruses in ... Article in Journal/Newspaper Calidris canutus PLOS New Zealand PLOS ONE 19 6 e0303756 |
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PLOS |
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crplos |
language |
English |
description |
The rapid spread of highly pathogenic avian influenza (HPAI) A (H5N1) viruses in Southeast Asia in 2004 prompted the New Zealand Ministry for Primary Industries to expand its avian influenza surveillance in wild birds. A total of 18,693 birds were sampled between 2004 and 2020, including migratory shorebirds (in 2004–2009), other coastal species (in 2009–2010), and resident waterfowl (in 2004–2020). No avian influenza viruses (AIVs) were isolated from cloacal or oropharyngeal samples from migratory shorebirds or resident coastal species. Two samples from red knots (Calidris canutus) tested positive by influenza A RT-qPCR, but virus could not be isolated and no further characterization could be undertaken. In contrast, 6179 samples from 15,740 mallards ( Anas platyrhynchos ) tested positive by influenza A RT-qPCR. Of these, 344 were positive for H5 and 51 for H7. All H5 and H7 viruses detected were of low pathogenicity confirmed by a lack of multiple basic amino acids at the hemagglutinin (HA) cleavage site. Twenty H5 viruses (six different neuraminidase [NA] subtypes) and 10 H7 viruses (two different NA subtypes) were propagated and characterized genetically. From H5- or H7-negative samples that tested positive by influenza A RT-qPCR, 326 AIVs were isolated, representing 41 HA/NA combinations. The most frequently isolated subtypes were H4N6, H3N8, H3N2, and H10N3. Multivariable logistic regression analysis of the relations between the location and year of sampling, and presence of AIV in individual waterfowl showed that the AIV risk at a given location varied from year to year. The H5 and H7 isolates both formed monophyletic HA groups. The H5 viruses were most closely related to North American lineages, whereas the H7 viruses formed a sister cluster relationship with wild bird viruses of the Eurasian and Australian lineages. Bayesian analysis indicates that the H5 and H7 viruses have circulated in resident mallards in New Zealand for some time. Correspondingly, we found limited evidence of influenza viruses in ... |
author2 |
Wen, Feng Ministry for Primary Industries (MPI), Animal Health Laboratory, Diagnostics and Surveillance Directorate, Biosecurity New Zealand |
format |
Article in Journal/Newspaper |
author |
Stanislawek, Wlodek L. Tana, Toni Rawdon, Thomas G. Cork, Susan C. Chen, Kylie Fatoyinbo, Hammed Cogger, Naomi Webby, Richard J. Webster, Robert G. Joyce, Maree Tuboltsev, Mary Ann Orr, Della Ohneiser, Sylvia Watts, Jonathan Riegen, Adrian C. McDougall, Matthew Klee, David O’Keefe, Joseph S. |
spellingShingle |
Stanislawek, Wlodek L. Tana, Toni Rawdon, Thomas G. Cork, Susan C. Chen, Kylie Fatoyinbo, Hammed Cogger, Naomi Webby, Richard J. Webster, Robert G. Joyce, Maree Tuboltsev, Mary Ann Orr, Della Ohneiser, Sylvia Watts, Jonathan Riegen, Adrian C. McDougall, Matthew Klee, David O’Keefe, Joseph S. Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties |
author_facet |
Stanislawek, Wlodek L. Tana, Toni Rawdon, Thomas G. Cork, Susan C. Chen, Kylie Fatoyinbo, Hammed Cogger, Naomi Webby, Richard J. Webster, Robert G. Joyce, Maree Tuboltsev, Mary Ann Orr, Della Ohneiser, Sylvia Watts, Jonathan Riegen, Adrian C. McDougall, Matthew Klee, David O’Keefe, Joseph S. |
author_sort |
Stanislawek, Wlodek L. |
title |
Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties |
title_short |
Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties |
title_full |
Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties |
title_fullStr |
Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties |
title_full_unstemmed |
Avian influenza viruses in New Zealand wild birds, with an emphasis on subtypes H5 and H7: Their distinctive epidemiology and genomic properties |
title_sort |
avian influenza viruses in new zealand wild birds, with an emphasis on subtypes h5 and h7: their distinctive epidemiology and genomic properties |
publisher |
Public Library of Science (PLoS) |
publishDate |
2024 |
url |
http://dx.doi.org/10.1371/journal.pone.0303756 https://dx.plos.org/10.1371/journal.pone.0303756 |
geographic |
New Zealand |
geographic_facet |
New Zealand |
genre |
Calidris canutus |
genre_facet |
Calidris canutus |
op_source |
PLOS ONE volume 19, issue 6, page e0303756 ISSN 1932-6203 |
op_rights |
http://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.1371/journal.pone.0303756 |
container_title |
PLOS ONE |
container_volume |
19 |
container_issue |
6 |
container_start_page |
e0303756 |
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1811637284165910528 |