Age-seroprevalence curves for the multi-strain structure of influenza A virus

Dao Nguyen Vinh; Nguyen Thi Duy Nhat; Erwin de Bruin; Nguyen Ha Thao Vy; Tran Thi Nhu Thao; Huynh Thi Phuong; Pham Hong Anh; Stacy Todd; Tran Minh Quan; Nguyen Thi Le Thanh; Nguyen Thi Nam Lien; Nguyen Thi Hong Ha; Tran Thi Kim Hong; Pham Quang Thai; Marc Choisy; Tran Dang Nguyen; Cameron P. Simmons; Guy E. Thwaites; Hannah E. Clapham; Nguyen Van Vinh Chau; Marion Koopmans; Maciej F. Boni

doi:10.1038/s41467-021-26948-8

Age-seroprevalence curves for the multi-strain structure of influenza A virus

Dao Nguyen Vinh, Nguyen Thi Duy Nhat, Erwin de Bruin, Nguyen Ha Thao Vy, Tran Thi Nhu Thao, Huynh Thi Phuong, Pham Hong Anh, Stacy Todd, Tran Minh Quan, Nguyen Thi Le Thanh, Nguyen Thi Nam Lien, Nguyen Thi Hong Ha, Tran Thi Kim Hong, Pham Quang Thai, Marc Choisy, Tran Dang Nguyen, Cameron P. Simmons, Guy E. Thwaites, Hannah E. Clapham, Nguyen Van Vinh ChauMarion Koopmans, Maciej F. Boni

Research output: Contribution to journal › Article › Research › peer-review

3 Citations (Scopus)

Abstract

The relationship between age and seroprevalence can be used to estimate the annual attack rate of an infectious disease. For pathogens with multiple serologically distinct strains, there is a need to describe composite exposure to an antigenically variable group of pathogens. In this study, we assay 24,402 general-population serum samples, collected in Vietnam between 2009 to 2015, for antibodies to eleven human influenza A strains. We report that a principal components decomposition of antibody titer data gives the first principal component as an appropriate surrogate for seroprevalence; this results in annual attack rate estimates of 25.6% (95% CI: 24.1% – 27.1%) for subtype H3 and 16.0% (95% CI: 14.7% – 17.3%) for subtype H1. The remaining principal components separate the strains by serological similarity and associate birth cohorts with their particular influenza histories. Our work shows that dimensionality reduction can be used on human antibody profiles to construct an age-seroprevalence relationship for antigenically variable pathogens.

Original language	English
Article number	6680
Number of pages	9
Journal	Nature Communications
Volume	12
Issue number	1
DOIs	https://doi.org/10.1038/s41467-021-26948-8
Publication status	Published - 2021

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Vinh, D. N., Nhat, N. T. D., de Bruin, E., Vy, N. H. T., Thao, T. T. N., Phuong, H. T., Anh, P. H., Todd, S., Quan, T. M., Thanh, N. T. L., Lien, N. T. N., Ha, N. T. H., Hong, T. T. K., Thai, P. Q., Choisy, M., Nguyen, T. D., Simmons, C. P., Thwaites, G. E., Clapham, H. E., ... Boni, M. F. (2021). Age-seroprevalence curves for the multi-strain structure of influenza A virus. Nature Communications, 12(1), [6680]. https://doi.org/10.1038/s41467-021-26948-8

@article{da66cce604cb4cd9af11aad601f5d2fc,

title = "Age-seroprevalence curves for the multi-strain structure of influenza A virus",

abstract = "The relationship between age and seroprevalence can be used to estimate the annual attack rate of an infectious disease. For pathogens with multiple serologically distinct strains, there is a need to describe composite exposure to an antigenically variable group of pathogens. In this study, we assay 24,402 general-population serum samples, collected in Vietnam between 2009 to 2015, for antibodies to eleven human influenza A strains. We report that a principal components decomposition of antibody titer data gives the first principal component as an appropriate surrogate for seroprevalence; this results in annual attack rate estimates of 25.6% (95% CI: 24.1% – 27.1%) for subtype H3 and 16.0% (95% CI: 14.7% – 17.3%) for subtype H1. The remaining principal components separate the strains by serological similarity and associate birth cohorts with their particular influenza histories. Our work shows that dimensionality reduction can be used on human antibody profiles to construct an age-seroprevalence relationship for antigenically variable pathogens.",

author = "Vinh, {Dao Nguyen} and Nhat, {Nguyen Thi Duy} and {de Bruin}, Erwin and Vy, {Nguyen Ha Thao} and Thao, {Tran Thi Nhu} and Phuong, {Huynh Thi} and Anh, {Pham Hong} and Stacy Todd and Quan, {Tran Minh} and Thanh, {Nguyen Thi Le} and Lien, {Nguyen Thi Nam} and Ha, {Nguyen Thi Hong} and Hong, {Tran Thi Kim} and Thai, {Pham Quang} and Marc Choisy and Nguyen, {Tran Dang} and Simmons, {Cameron P.} and Thwaites, {Guy E.} and Clapham, {Hannah E.} and Chau, {Nguyen Van Vinh} and Marion Koopmans and Boni, {Maciej F.}",

note = "Funding Information: This work was funded by the Wellcome Trust Grant 089276/B/09/7 (D.N.V., N.T.D.T., P.H.A., G.E.T.) a Wellcome Trust Sir Henry Dale Fellowship and Enhancement Award (M.F.B., N.H.T.V., T.T.N.T., H.T.P., P.H.A., N.T.L.T., H.E.C.) Wellcome Trust Grant 097465/B/11/Z (S.T.) and by a British Medical Association HC Roscoe Award (2011–2014). C.P.S. is funded by the National Health and Medical Research Council of Australia. M.K. and E.d.B. are funded by Dutch Ministry of Economic Affairs, Agriculture, and Innovation, Castellum Project. Publisher Copyright: {\textcopyright} 2021, The Author(s).",

year = "2021",

doi = "10.1038/s41467-021-26948-8",

language = "English",

volume = "12",

journal = "Nature Communications",

issn = "2041-1723",

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Vinh, DN, Nhat, NTD, de Bruin, E, Vy, NHT, Thao, TTN, Phuong, HT, Anh, PH, Todd, S, Quan, TM, Thanh, NTL, Lien, NTN, Ha, NTH, Hong, TTK, Thai, PQ, Choisy, M, Nguyen, TD, Simmons, CP, Thwaites, GE, Clapham, HE, Chau, NVV, Koopmans, M & Boni, MF 2021, 'Age-seroprevalence curves for the multi-strain structure of influenza A virus', Nature Communications, vol. 12, no. 1, 6680. https://doi.org/10.1038/s41467-021-26948-8

TY - JOUR

T1 - Age-seroprevalence curves for the multi-strain structure of influenza A virus

AU - Vinh, Dao Nguyen

AU - Nhat, Nguyen Thi Duy

AU - de Bruin, Erwin

AU - Vy, Nguyen Ha Thao

AU - Thao, Tran Thi Nhu

AU - Phuong, Huynh Thi

AU - Anh, Pham Hong

AU - Todd, Stacy

AU - Quan, Tran Minh

AU - Thanh, Nguyen Thi Le

AU - Lien, Nguyen Thi Nam

AU - Ha, Nguyen Thi Hong

AU - Hong, Tran Thi Kim

AU - Thai, Pham Quang

AU - Choisy, Marc

AU - Nguyen, Tran Dang

AU - Simmons, Cameron P.

AU - Thwaites, Guy E.

AU - Clapham, Hannah E.

AU - Chau, Nguyen Van Vinh

AU - Koopmans, Marion

AU - Boni, Maciej F.

N1 - Funding Information: This work was funded by the Wellcome Trust Grant 089276/B/09/7 (D.N.V., N.T.D.T., P.H.A., G.E.T.) a Wellcome Trust Sir Henry Dale Fellowship and Enhancement Award (M.F.B., N.H.T.V., T.T.N.T., H.T.P., P.H.A., N.T.L.T., H.E.C.) Wellcome Trust Grant 097465/B/11/Z (S.T.) and by a British Medical Association HC Roscoe Award (2011–2014). C.P.S. is funded by the National Health and Medical Research Council of Australia. M.K. and E.d.B. are funded by Dutch Ministry of Economic Affairs, Agriculture, and Innovation, Castellum Project. Publisher Copyright: © 2021, The Author(s).

PY - 2021

Y1 - 2021

N2 - The relationship between age and seroprevalence can be used to estimate the annual attack rate of an infectious disease. For pathogens with multiple serologically distinct strains, there is a need to describe composite exposure to an antigenically variable group of pathogens. In this study, we assay 24,402 general-population serum samples, collected in Vietnam between 2009 to 2015, for antibodies to eleven human influenza A strains. We report that a principal components decomposition of antibody titer data gives the first principal component as an appropriate surrogate for seroprevalence; this results in annual attack rate estimates of 25.6% (95% CI: 24.1% – 27.1%) for subtype H3 and 16.0% (95% CI: 14.7% – 17.3%) for subtype H1. The remaining principal components separate the strains by serological similarity and associate birth cohorts with their particular influenza histories. Our work shows that dimensionality reduction can be used on human antibody profiles to construct an age-seroprevalence relationship for antigenically variable pathogens.

AB - The relationship between age and seroprevalence can be used to estimate the annual attack rate of an infectious disease. For pathogens with multiple serologically distinct strains, there is a need to describe composite exposure to an antigenically variable group of pathogens. In this study, we assay 24,402 general-population serum samples, collected in Vietnam between 2009 to 2015, for antibodies to eleven human influenza A strains. We report that a principal components decomposition of antibody titer data gives the first principal component as an appropriate surrogate for seroprevalence; this results in annual attack rate estimates of 25.6% (95% CI: 24.1% – 27.1%) for subtype H3 and 16.0% (95% CI: 14.7% – 17.3%) for subtype H1. The remaining principal components separate the strains by serological similarity and associate birth cohorts with their particular influenza histories. Our work shows that dimensionality reduction can be used on human antibody profiles to construct an age-seroprevalence relationship for antigenically variable pathogens.

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U2 - 10.1038/s41467-021-26948-8

DO - 10.1038/s41467-021-26948-8

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AN - SCOPUS:85119272227

VL - 12

JO - Nature Communications

JF - Nature Communications

SN - 2041-1723

IS - 1

M1 - 6680

ER -

Age-seroprevalence curves for the multi-strain structure of influenza A virus

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