Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States

Martha I Nelson, Yi Tan, Elodie Ghedin, David E. Wentworth, Kirsten St. George, Laurel Edelman, Eric T. Beck, Jiang Fan, Tommy Tsan-Yuk Lam, Swati Kumar, David J. Spiro, Lone Simonsen, Cecile Viboud, Edward C. Holmes, Kelly J. Henrickson, James M. Musser

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

Resumé

Spatial variation in the epidemiological patterns of successive waves of pandemic influenza virus in humans has been documented throughout the 20th century but never understood at a molecular level. However, the unprecedented intensity of sampling and whole-genome sequencing of the H1N1/09 pandemic virus now makes such an approach possible. To determine whether the spring and fall waves of the H1N1/09 influenza pandemic were associated with different epidemiological patterns, we undertook a large-scale phylogeographic analysis of viruses sampled from three localities in the United States. Analysis of genomic and epidemiological data reveals distinct spatial heterogeneities associated with the first pandemic wave, March to July 2009, in Houston, TX, Milwaukee, WI, and New York State. In Houston, no specific H1N1/09 viral lineage dominated during the spring of 2009, a period when little epidemiological activity was observed in Texas. In contrast, major pandemic outbreaks occurred at this time in Milwaukee and New York State, each dominated by a different viral lineage and resulting from strong founder effects. During the second pandemic wave, beginning in August 2009, all three U.S. localities were dominated by a single viral lineage, that which had been dominant in New York during wave 1. Hence, during this second phase of the pandemic, extensive viral migration and mixing diffused the spatially defined population structure that had characterized wave 1, amplifying the one viral lineage that had dominated early on in one of the world's largest international travel centers.
OriginalsprogEngelsk
TidsskriftJournal of Virology
Vol/bind85
Udgave nummer2
Sider (fra-til)828-834
ISSN0022-538X
StatusUdgivet - 2011

Citer dette

Nelson, M. I., Tan, Y., Ghedin, E., Wentworth, D. E., St. George, K., Edelman, L., ... Musser, J. M. (2011). Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States. Journal of Virology, 85(2), 828-834.
Nelson, Martha I ; Tan, Yi ; Ghedin, Elodie ; Wentworth, David E. ; St. George, Kirsten ; Edelman, Laurel ; Beck, Eric T. ; Fan, Jiang ; Lam, Tommy Tsan-Yuk ; Kumar, Swati ; Spiro, David J. ; Simonsen, Lone ; Viboud, Cecile ; Holmes, Edward C. ; Henrickson, Kelly J. ; Musser, James M. / Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States. I: Journal of Virology. 2011 ; Bind 85, Nr. 2. s. 828-834.
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title = "Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States",
abstract = "Spatial variation in the epidemiological patterns of successive waves of pandemic influenza virus in humans has been documented throughout the 20th century but never understood at a molecular level. However, the unprecedented intensity of sampling and whole-genome sequencing of the H1N1/09 pandemic virus now makes such an approach possible. To determine whether the spring and fall waves of the H1N1/09 influenza pandemic were associated with different epidemiological patterns, we undertook a large-scale phylogeographic analysis of viruses sampled from three localities in the United States. Analysis of genomic and epidemiological data reveals distinct spatial heterogeneities associated with the first pandemic wave, March to July 2009, in Houston, TX, Milwaukee, WI, and New York State. In Houston, no specific H1N1/09 viral lineage dominated during the spring of 2009, a period when little epidemiological activity was observed in Texas. In contrast, major pandemic outbreaks occurred at this time in Milwaukee and New York State, each dominated by a different viral lineage and resulting from strong founder effects. During the second pandemic wave, beginning in August 2009, all three U.S. localities were dominated by a single viral lineage, that which had been dominant in New York during wave 1. Hence, during this second phase of the pandemic, extensive viral migration and mixing diffused the spatially defined population structure that had characterized wave 1, amplifying the one viral lineage that had dominated early on in one of the world's largest international travel centers.",
author = "Nelson, {Martha I} and Yi Tan and Elodie Ghedin and Wentworth, {David E.} and {St. George}, Kirsten and Laurel Edelman and Beck, {Eric T.} and Jiang Fan and Lam, {Tommy Tsan-Yuk} and Swati Kumar and Spiro, {David J.} and Lone Simonsen and Cecile Viboud and Holmes, {Edward C.} and Henrickson, {Kelly J.} and Musser, {James M.}",
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journal = "Journal of Virology",
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Nelson, MI, Tan, Y, Ghedin, E, Wentworth, DE, St. George, K, Edelman, L, Beck, ET, Fan, J, Lam, TT-Y, Kumar, S, Spiro, DJ, Simonsen, L, Viboud, C, Holmes, EC, Henrickson, KJ & Musser, JM 2011, 'Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States', Journal of Virology, bind 85, nr. 2, s. 828-834.

Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States. / Nelson, Martha I; Tan, Yi; Ghedin, Elodie; Wentworth, David E.; St. George, Kirsten; Edelman, Laurel; Beck, Eric T.; Fan, Jiang; Lam, Tommy Tsan-Yuk; Kumar, Swati; Spiro, David J.; Simonsen, Lone; Viboud, Cecile; Holmes, Edward C.; Henrickson, Kelly J.; Musser, James M.

I: Journal of Virology, Bind 85, Nr. 2, 2011, s. 828-834.

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

TY - JOUR

T1 - Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States

AU - Nelson, Martha I

AU - Tan, Yi

AU - Ghedin, Elodie

AU - Wentworth, David E.

AU - St. George, Kirsten

AU - Edelman, Laurel

AU - Beck, Eric T.

AU - Fan, Jiang

AU - Lam, Tommy Tsan-Yuk

AU - Kumar, Swati

AU - Spiro, David J.

AU - Simonsen, Lone

AU - Viboud, Cecile

AU - Holmes, Edward C.

AU - Henrickson, Kelly J.

AU - Musser, James M.

PY - 2011

Y1 - 2011

N2 - Spatial variation in the epidemiological patterns of successive waves of pandemic influenza virus in humans has been documented throughout the 20th century but never understood at a molecular level. However, the unprecedented intensity of sampling and whole-genome sequencing of the H1N1/09 pandemic virus now makes such an approach possible. To determine whether the spring and fall waves of the H1N1/09 influenza pandemic were associated with different epidemiological patterns, we undertook a large-scale phylogeographic analysis of viruses sampled from three localities in the United States. Analysis of genomic and epidemiological data reveals distinct spatial heterogeneities associated with the first pandemic wave, March to July 2009, in Houston, TX, Milwaukee, WI, and New York State. In Houston, no specific H1N1/09 viral lineage dominated during the spring of 2009, a period when little epidemiological activity was observed in Texas. In contrast, major pandemic outbreaks occurred at this time in Milwaukee and New York State, each dominated by a different viral lineage and resulting from strong founder effects. During the second pandemic wave, beginning in August 2009, all three U.S. localities were dominated by a single viral lineage, that which had been dominant in New York during wave 1. Hence, during this second phase of the pandemic, extensive viral migration and mixing diffused the spatially defined population structure that had characterized wave 1, amplifying the one viral lineage that had dominated early on in one of the world's largest international travel centers.

AB - Spatial variation in the epidemiological patterns of successive waves of pandemic influenza virus in humans has been documented throughout the 20th century but never understood at a molecular level. However, the unprecedented intensity of sampling and whole-genome sequencing of the H1N1/09 pandemic virus now makes such an approach possible. To determine whether the spring and fall waves of the H1N1/09 influenza pandemic were associated with different epidemiological patterns, we undertook a large-scale phylogeographic analysis of viruses sampled from three localities in the United States. Analysis of genomic and epidemiological data reveals distinct spatial heterogeneities associated with the first pandemic wave, March to July 2009, in Houston, TX, Milwaukee, WI, and New York State. In Houston, no specific H1N1/09 viral lineage dominated during the spring of 2009, a period when little epidemiological activity was observed in Texas. In contrast, major pandemic outbreaks occurred at this time in Milwaukee and New York State, each dominated by a different viral lineage and resulting from strong founder effects. During the second pandemic wave, beginning in August 2009, all three U.S. localities were dominated by a single viral lineage, that which had been dominant in New York during wave 1. Hence, during this second phase of the pandemic, extensive viral migration and mixing diffused the spatially defined population structure that had characterized wave 1, amplifying the one viral lineage that had dominated early on in one of the world's largest international travel centers.

M3 - Journal article

VL - 85

SP - 828

EP - 834

JO - Journal of Virology

JF - Journal of Virology

SN - 0022-538X

IS - 2

ER -

Nelson MI, Tan Y, Ghedin E, Wentworth DE, St. George K, Edelman L et al. Phylogeography of the Spring and Fall waves of the H1N1/09 pandemic influenza virus in the United States. Journal of Virology. 2011;85(2):828-834.