Data from: Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential | Ag Data Commons

Data from: Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential

Influenza A virus in swine hemagglutinin (HA) gene sequence data for 9 virus strains.

H1N1pdm09 HA gene sequencesData
9 hemagglutinin (HA) gene sequences of influenza A virus collected from...
MD5:
Explore Data 15.71 KB
Download All

Field	Value
Tags	Influenza A virus Swine epidemiology phylogeny zoonosis NP103
Modified	2023-01-04
Release Date	2023-01-04
Frequency	Not Planned
Identifier	abe6e20e-6d18-4d66-bc39-b95b5e86565a
Spatial / Geographical Coverage Area	POLYGON ((-124.22103881836 48.778817717921, -93.924865722656 49.082411585065, -82.735633850098 41.918373400143, -78.93367767334 42.607179367064, -70.698738098145 45.209133637737, -68.718795776367 47.29809208597, -67.148780822754 44.61442273747, -71.138191223145 42.952904653227, -76.757011413574 35.375054256726, -82.170181274414 31.072344027715, -80.805473327637 28.314959798141, -80.800666809082 28.305589777949, -80.388336181641 25.14839244282, -85.241203308105 30.351249994096, -95.197219848633 29.918042526071, -97.71240234375 26.830504576992, -100.8984375 29.695807117753, -107.44148254395 31.975463762189, -115.42304992676 32.816132537537, -121.05731964111 35.081707990841, -124.35150146484 43.925840938264, -120.91484069824 44.291172345439, -124.44797515869 44.14772503381))
Publisher	Ag Data Commons
Spatial / Geographical Coverage Location	USA
Temporal Coverage	May 13, 2010 to June 3, 2019
License	U.S. Public Domain
Contact Name	Anderson, Tavis
Contact Email	tavis.anderson@usda.gov
Public Access Level	Public
Program Code	005:040 - Department of Agriculture - National Research
Bureau Code	005:18 - Agricultural Research Service

Extended Metadata:

Field	Value
Authors	Markin, Alexey (ORCID) Ciacci Zanella, Giovana (ORCID) Arendsee, Zebulun W. (ORCID) Zhang, Jianqiang (ORCID) Krueger, Karen M. (Scopus Author ID) Gauger, Phillip C. (ORCID) Vincent Baker, Amy L. (ORCID) Anderson, Tavis K. (ORCID)
Peer Reviewed	No
Intended Use	These data include hemagglutinin (HA) gene sequence data for nine influenza A virus strains collected from United States pigs. Following incorporation into a larger gene sequence dataset they may be used to study the evolutionary history of H1 subtype influenza A viruses in swine.
Use Limitations	The 9 hemagglutinin genes are sourced from clinically sick pigs, were not isolated, and archival samples are not available. The sequence quality is not adequate to submit these strains to NCBI Genbank as sequence errors have introduced frameshifts and premature stop codons. They should not be used as representative of H1 influenza A virus in swine data. However, when studied in the context of other swine H1 subtype HA genes, the data may be aligned, and phylogenetic methods may be applied to make appropriate evolutionary inference.
Funding Sources	Agricultural Research Service 5030-32000-231-000D Animal and Plant Health Inspection Service 5030-32000-231-080-I National Institute of Allergy and Infectious Diseases 75N93021C00015 Defense Advanced Research Projects Agency HR00112020034 Oak Ridge Institute for Science and Education DE-AC05-06OR23100 Centers for Disease Control and Prevention 21FED2100395IPD Agricultural Research Service 0500-00093-001-00-D
Primary Article	Markin, A., Zanella, G. C., Arendsee, Z. W., Zhang, J., Krueger, K. M., Gauger, P. C., Vincent Baker, A. L., & Anderson, T. K. (2022). Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2022.12.15.520479
Dataset DOI (digital object identifier)	10.15482/USDA.ADC/1528393

Field	Value
ARIS Log Number	400655
OSTI Identifier
ISO Topic(s)	biota farming health
National Agricultural Library Thesaurus Term	pandemic Influenza A virus swine viruses zoonoses hemagglutinins nucleotide sequences phylogeny swine influenza United States virulent strains
Ag Data Commons Keywords	Animals & Livestock Animal health Animals & Livestock Genomics & Genetics

Suggested Citations:

(original article) Markin, A., Zanella, G. C., Arendsee, Z. W., Zhang, J., Krueger, K. M., Gauger, P. C., Vincent Baker, A. L., & Anderson, T. K. (2022). Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2022.12.15.520479

(dataset) Markin, Alexey; Ciacci Zanella, Giovana; Arendsee, Zebulun W.; Zhang, Jianqiang; Krueger, Karen M.; Gauger, Phillip C.; Vincent Baker, Amy L.; Anderson, Tavis K. (2023). Data from: Reverse-zoonoses of 2009 H1N1 pandemic influenza A viruses and evolution in United States swine results in viruses with zoonotic potential. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1528393. Accessed 2023-09-23.