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Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution.
Nature. 2005 Oct 20; 437(7062):1162-6.Nat

Abstract

Influenza viruses are remarkably adept at surviving in the human population over a long timescale. The human influenza A virus continues to thrive even among populations with widespread access to vaccines, and continues to be a major cause of morbidity and mortality. The virus mutates from year to year, making the existing vaccines ineffective on a regular basis, and requiring that new strains be chosen for a new vaccine. Less-frequent major changes, known as antigenic shift, create new strains against which the human population has little protective immunity, thereby causing worldwide pandemics. The most recent pandemics include the 1918 'Spanish' flu, one of the most deadly outbreaks in recorded history, which killed 30-50 million people worldwide, the 1957 'Asian' flu, and the 1968 'Hong Kong' flu. Motivated by the need for a better understanding of influenza evolution, we have developed flexible protocols that make it possible to apply large-scale sequencing techniques to the highly variable influenza genome. Here we report the results of sequencing 209 complete genomes of the human influenza A virus, encompassing a total of 2,821,103 nucleotides. In addition to increasing markedly the number of publicly available, complete influenza virus genomes, we have discovered several anomalies in these first 209 genomes that demonstrate the dynamic nature of influenza transmission and evolution. This new, large-scale sequencing effort promises to provide a more comprehensive picture of the evolution of influenza viruses and of their pattern of transmission through human and animal populations. All data from this project are being deposited, without delay, in public archives.

Authors+Show Affiliations

The Institute for Genomic Research, 9712 Medical Center Dr., Rockville, Maryland 20850, USA.No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Historical Article
Journal Article
Research Support, N.I.H., Extramural
Research Support, U.S. Gov't, P.H.S.

Language

eng

PubMed ID

16208317

Citation

Ghedin, Elodie, et al. "Large-scale Sequencing of Human Influenza Reveals the Dynamic Nature of Viral Genome Evolution." Nature, vol. 437, no. 7062, 2005, pp. 1162-6.
Ghedin E, Sengamalay NA, Shumway M, et al. Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution. Nature. 2005;437(7062):1162-6.
Ghedin, E., Sengamalay, N. A., Shumway, M., Zaborsky, J., Feldblyum, T., Subbu, V., Spiro, D. J., Sitz, J., Koo, H., Bolotov, P., Dernovoy, D., Tatusova, T., Bao, Y., St George, K., Taylor, J., Lipman, D. J., Fraser, C. M., Taubenberger, J. K., & Salzberg, S. L. (2005). Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution. Nature, 437(7062), 1162-6.
Ghedin E, et al. Large-scale Sequencing of Human Influenza Reveals the Dynamic Nature of Viral Genome Evolution. Nature. 2005 Oct 20;437(7062):1162-6. PubMed PMID: 16208317.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution. AU - Ghedin,Elodie, AU - Sengamalay,Naomi A, AU - Shumway,Martin, AU - Zaborsky,Jennifer, AU - Feldblyum,Tamara, AU - Subbu,Vik, AU - Spiro,David J, AU - Sitz,Jeff, AU - Koo,Hean, AU - Bolotov,Pavel, AU - Dernovoy,Dmitry, AU - Tatusova,Tatiana, AU - Bao,Yiming, AU - St George,Kirsten, AU - Taylor,Jill, AU - Lipman,David J, AU - Fraser,Claire M, AU - Taubenberger,Jeffery K, AU - Salzberg,Steven L, Y1 - 2005/10/05/ PY - 2005/07/07/received PY - 2005/09/16/accepted PY - 2005/10/7/pubmed PY - 2005/10/29/medline PY - 2005/10/7/entrez SP - 1162 EP - 6 JF - Nature JO - Nature VL - 437 IS - 7062 N2 - Influenza viruses are remarkably adept at surviving in the human population over a long timescale. The human influenza A virus continues to thrive even among populations with widespread access to vaccines, and continues to be a major cause of morbidity and mortality. The virus mutates from year to year, making the existing vaccines ineffective on a regular basis, and requiring that new strains be chosen for a new vaccine. Less-frequent major changes, known as antigenic shift, create new strains against which the human population has little protective immunity, thereby causing worldwide pandemics. The most recent pandemics include the 1918 'Spanish' flu, one of the most deadly outbreaks in recorded history, which killed 30-50 million people worldwide, the 1957 'Asian' flu, and the 1968 'Hong Kong' flu. Motivated by the need for a better understanding of influenza evolution, we have developed flexible protocols that make it possible to apply large-scale sequencing techniques to the highly variable influenza genome. Here we report the results of sequencing 209 complete genomes of the human influenza A virus, encompassing a total of 2,821,103 nucleotides. In addition to increasing markedly the number of publicly available, complete influenza virus genomes, we have discovered several anomalies in these first 209 genomes that demonstrate the dynamic nature of influenza transmission and evolution. This new, large-scale sequencing effort promises to provide a more comprehensive picture of the evolution of influenza viruses and of their pattern of transmission through human and animal populations. All data from this project are being deposited, without delay, in public archives. SN - 1476-4687 UR - https://www.unboundmedicine.com/medline/citation/16208317/Large_scale_sequencing_of_human_influenza_reveals_the_dynamic_nature_of_viral_genome_evolution_ L2 - https://doi.org/10.1038/nature04239 DB - PRIME DP - Unbound Medicine ER -