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Sampling strategies and biodiversity of influenza A subtypes in wild birds

Olson, Sarah H.; Parmley, Jane; Soos, Catherine; Gilbert, Martin; Latorre-Margalef, Neus LU ; Hall, Jeffrey S.; Hansbro, Phillip M.; Leighton, Frederick; Munster, Vincent J. and Joly, Damien (2014) In PLoS ONE 9(3).
Abstract

Wild aquatic birds are recognized as the natural reservoir of avian influenza A viruses (AIV), but across high and low pathogenic AIV strains, scientists have yet to rigorously identify most competent hosts for the various subtypes. We examined 11,870 GenBank records to provide a baseline inventory and insight into patterns of global AIV subtype diversity and richness. Further, we conducted an extensive literature review and communicated directly with scientists to accumulate data from 50 non-overlapping studies and over 250,000 birds to assess the status of historic sampling effort. We then built virus subtype sample-based accumulation curves to better estimate sample size targets that capture a specific percentage of virus subtype... (More)

Wild aquatic birds are recognized as the natural reservoir of avian influenza A viruses (AIV), but across high and low pathogenic AIV strains, scientists have yet to rigorously identify most competent hosts for the various subtypes. We examined 11,870 GenBank records to provide a baseline inventory and insight into patterns of global AIV subtype diversity and richness. Further, we conducted an extensive literature review and communicated directly with scientists to accumulate data from 50 non-overlapping studies and over 250,000 birds to assess the status of historic sampling effort. We then built virus subtype sample-based accumulation curves to better estimate sample size targets that capture a specific percentage of virus subtype richness at seven sampling locations. Our study identifies a sampling methodology that will detect an estimated 75% of circulating virus subtypes from a targeted bird population and outlines future surveillance and research priorities that are needed to explore the influence of host and virus biodiversity on emergence and transmission.

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author
publishing date
type
Contribution to journal
publication status
published
subject
in
PLoS ONE
volume
9
issue
3
publisher
Public Library of Science
external identifiers
  • scopus:84897148224
ISSN
1932-6203
DOI
10.1371/journal.pone.0090826
language
English
LU publication?
no
id
0bc73bc5-59a2-4c81-a6ab-37c2296df956
date added to LUP
2017-04-11 13:59:53
date last changed
2017-08-20 05:10:08
@article{0bc73bc5-59a2-4c81-a6ab-37c2296df956,
  abstract     = {<p>Wild aquatic birds are recognized as the natural reservoir of avian influenza A viruses (AIV), but across high and low pathogenic AIV strains, scientists have yet to rigorously identify most competent hosts for the various subtypes. We examined 11,870 GenBank records to provide a baseline inventory and insight into patterns of global AIV subtype diversity and richness. Further, we conducted an extensive literature review and communicated directly with scientists to accumulate data from 50 non-overlapping studies and over 250,000 birds to assess the status of historic sampling effort. We then built virus subtype sample-based accumulation curves to better estimate sample size targets that capture a specific percentage of virus subtype richness at seven sampling locations. Our study identifies a sampling methodology that will detect an estimated 75% of circulating virus subtypes from a targeted bird population and outlines future surveillance and research priorities that are needed to explore the influence of host and virus biodiversity on emergence and transmission.</p>},
  articleno    = {e90826},
  author       = {Olson, Sarah H. and Parmley, Jane and Soos, Catherine and Gilbert, Martin and Latorre-Margalef, Neus and Hall, Jeffrey S. and Hansbro, Phillip M. and Leighton, Frederick and Munster, Vincent J. and Joly, Damien},
  issn         = {1932-6203},
  language     = {eng},
  month        = {03},
  number       = {3},
  publisher    = {Public Library of Science},
  series       = {PLoS ONE},
  title        = {Sampling strategies and biodiversity of influenza A subtypes in wild birds},
  url          = {http://dx.doi.org/10.1371/journal.pone.0090826},
  volume       = {9},
  year         = {2014},
}