Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds
We evaluated the presence of coronaviruses by PCR in 918 Australian wild bird samples collected during 2016-17. Coronaviruses were detected in 141 samples (15.3%) from species of ducks, shorebirds and herons and from multiple sampling locations. Sequencing of selected positive samples found mainly g...
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ftdeakinunifig:oai:figshare.com:article/20807380 2024-06-23T07:56:28+00:00 Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds A Chamings TM Nelson J Vibin M Wille Marcel Klaassen Soren Alexandersen 2018-12-01T00:00:00Z http://hdl.handle.net/10536/DRO/DU:30107873 https://figshare.com/articles/journal_contribution/Detection_and_characterisation_of_coronaviruses_in_migratory_and_non-migratory_Australian_wild_birds/20807380 unknown http://hdl.handle.net/10536/DRO/DU:30107873 https://figshare.com/articles/journal_contribution/Detection_and_characterisation_of_coronaviruses_in_migratory_and_non-migratory_Australian_wild_birds/20807380 All Rights Reserved Ecology not elsewhere classified Other health sciences not elsewhere classified Science & Technology Multidisciplinary Sciences Science & Technology - Other Topics INFECTIOUS-BRONCHITIS VIRUS INFLUENZA-A VIRUS NUCLEOTIDE SUBSTITUTIONS AVIAN CORONAVIRUSES RECOMBINATION IDENTIFICATION SURVEILLANCE POPULATIONS DIVERSITY SUGGESTS School of Life and Environmental Sciences Centre for Integrative Ecology School of Medicine MD Multidisciplinary 3107 Microbiology Text Journal contribution 2018 ftdeakinunifig 2024-06-06T01:18:24Z We evaluated the presence of coronaviruses by PCR in 918 Australian wild bird samples collected during 2016-17. Coronaviruses were detected in 141 samples (15.3%) from species of ducks, shorebirds and herons and from multiple sampling locations. Sequencing of selected positive samples found mainly gammacoronaviruses, but also some deltacoronaviruses. The detection rate of coronaviruses was improved by using multiple PCR assays, as no single assay could detect all coronavirus positive samples. Sequencing of the relatively conserved Orf1 PCR amplicons found that Australian duck gammacoronaviruses were similar to duck gammacoronaviruses around the world. Some sequenced shorebird gammacoronaviruses belonged to Charadriiformes lineages, but others were more closely related to duck gammacoronaviruses. Australian duck and heron deltacoronaviruses belonged to lineages with other duck and heron deltacoronaviruses, but were almost 20% different in nucleotide sequence to other deltacoronavirus sequences available. Deltacoronavirus sequences from shorebirds formed a lineage with a deltacoronavirus from a ruddy turnstone detected in the United States. Given that Australian duck gammacoronaviruses are highly similar to those found in other regions, and Australian ducks rarely come into contact with migratory Palearctic duck species, we hypothesise that migratory shorebirds are the important vector for moving wild bird coronaviruses into and out of Australia. Article in Journal/Newspaper Ruddy Turnstone DRO - Deakin Research Online |
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Open Polar |
collection |
DRO - Deakin Research Online |
op_collection_id |
ftdeakinunifig |
language |
unknown |
topic |
Ecology not elsewhere classified Other health sciences not elsewhere classified Science & Technology Multidisciplinary Sciences Science & Technology - Other Topics INFECTIOUS-BRONCHITIS VIRUS INFLUENZA-A VIRUS NUCLEOTIDE SUBSTITUTIONS AVIAN CORONAVIRUSES RECOMBINATION IDENTIFICATION SURVEILLANCE POPULATIONS DIVERSITY SUGGESTS School of Life and Environmental Sciences Centre for Integrative Ecology School of Medicine MD Multidisciplinary 3107 Microbiology |
spellingShingle |
Ecology not elsewhere classified Other health sciences not elsewhere classified Science & Technology Multidisciplinary Sciences Science & Technology - Other Topics INFECTIOUS-BRONCHITIS VIRUS INFLUENZA-A VIRUS NUCLEOTIDE SUBSTITUTIONS AVIAN CORONAVIRUSES RECOMBINATION IDENTIFICATION SURVEILLANCE POPULATIONS DIVERSITY SUGGESTS School of Life and Environmental Sciences Centre for Integrative Ecology School of Medicine MD Multidisciplinary 3107 Microbiology A Chamings TM Nelson J Vibin M Wille Marcel Klaassen Soren Alexandersen Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds |
topic_facet |
Ecology not elsewhere classified Other health sciences not elsewhere classified Science & Technology Multidisciplinary Sciences Science & Technology - Other Topics INFECTIOUS-BRONCHITIS VIRUS INFLUENZA-A VIRUS NUCLEOTIDE SUBSTITUTIONS AVIAN CORONAVIRUSES RECOMBINATION IDENTIFICATION SURVEILLANCE POPULATIONS DIVERSITY SUGGESTS School of Life and Environmental Sciences Centre for Integrative Ecology School of Medicine MD Multidisciplinary 3107 Microbiology |
description |
We evaluated the presence of coronaviruses by PCR in 918 Australian wild bird samples collected during 2016-17. Coronaviruses were detected in 141 samples (15.3%) from species of ducks, shorebirds and herons and from multiple sampling locations. Sequencing of selected positive samples found mainly gammacoronaviruses, but also some deltacoronaviruses. The detection rate of coronaviruses was improved by using multiple PCR assays, as no single assay could detect all coronavirus positive samples. Sequencing of the relatively conserved Orf1 PCR amplicons found that Australian duck gammacoronaviruses were similar to duck gammacoronaviruses around the world. Some sequenced shorebird gammacoronaviruses belonged to Charadriiformes lineages, but others were more closely related to duck gammacoronaviruses. Australian duck and heron deltacoronaviruses belonged to lineages with other duck and heron deltacoronaviruses, but were almost 20% different in nucleotide sequence to other deltacoronavirus sequences available. Deltacoronavirus sequences from shorebirds formed a lineage with a deltacoronavirus from a ruddy turnstone detected in the United States. Given that Australian duck gammacoronaviruses are highly similar to those found in other regions, and Australian ducks rarely come into contact with migratory Palearctic duck species, we hypothesise that migratory shorebirds are the important vector for moving wild bird coronaviruses into and out of Australia. |
format |
Article in Journal/Newspaper |
author |
A Chamings TM Nelson J Vibin M Wille Marcel Klaassen Soren Alexandersen |
author_facet |
A Chamings TM Nelson J Vibin M Wille Marcel Klaassen Soren Alexandersen |
author_sort |
A Chamings |
title |
Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds |
title_short |
Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds |
title_full |
Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds |
title_fullStr |
Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds |
title_full_unstemmed |
Detection and characterisation of coronaviruses in migratory and non-migratory Australian wild birds |
title_sort |
detection and characterisation of coronaviruses in migratory and non-migratory australian wild birds |
publishDate |
2018 |
url |
http://hdl.handle.net/10536/DRO/DU:30107873 https://figshare.com/articles/journal_contribution/Detection_and_characterisation_of_coronaviruses_in_migratory_and_non-migratory_Australian_wild_birds/20807380 |
genre |
Ruddy Turnstone |
genre_facet |
Ruddy Turnstone |
op_relation |
http://hdl.handle.net/10536/DRO/DU:30107873 https://figshare.com/articles/journal_contribution/Detection_and_characterisation_of_coronaviruses_in_migratory_and_non-migratory_Australian_wild_birds/20807380 |
op_rights |
All Rights Reserved |
_version_ |
1802649556737851392 |