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octoFLU: Automated Classification for the Evolutionary Origin of Influenza A Virus Gene Sequences Detected in U.S. Swine.

Chang J, Anderson TK, Zeller MA, Gauger PC, Vincent AL.

Microbiol Resour Announc. 2019 Aug 8;8(32). pii: e00673-19. doi: 10.1128/MRA.00673-19.


Alphavirus-vectored hemagglutinin subunit vaccine provides partial protection against heterologous challenge in pigs.

Abente EJ, Rajao DS, Gauger PC, Vincent AL.

Vaccine. 2019 Mar 7;37(11):1533-1539. doi: 10.1016/j.vaccine.2018.12.071. Epub 2019 Feb 2.


Detection, isolation, and in vitro characterization of porcine parainfluenza virus type 1 isolated from respiratory diagnostic specimens in swine.

Park JY, Welch MW, Harmon KM, Zhang J, Piñeyro PE, Li G, Hause BM, Gauger PC.

Vet Microbiol. 2019 Jan;228:219-225. doi: 10.1016/j.vetmic.2018.12.002. Epub 2018 Dec 5.


Limited shedding of an S-InDel strain of porcine epidemic diarrhea virus (PEDV) in semen and questions regarding the infectivity of the detected virus.

Gallien S, Moro A, Lediguerher G, Catinot V, Paboeuf F, Bigault L, Gauger PC, Pozzi N, Berri M, Authié E, Rose N, Grasland B.

Vet Microbiol. 2019 Jan;228:20-25. doi: 10.1016/j.vetmic.2018.09.025. Epub 2018 Oct 11.


Complete Genome Sequences of Two Novel Human-Like H3N2 Influenza A Viruses, A/swine/Oklahoma/65980/2017 (H3N2) and A/Swine/Oklahoma/65260/2017 (H3N2), Detected in Swine in the United States.

Zeller MA, Li G, Harmon KM, Zhang J, Vincent AL, Anderson TK, Gauger PC.

Microbiol Resour Announc. 2018 Nov 21;7(20). pii: e01203-18. doi: 10.1128/MRA.01203-18. eCollection 2018 Nov.


ISU FLUture: a veterinary diagnostic laboratory web-based platform to monitor the temporal genetic patterns of Influenza A virus in swine.

Zeller MA, Anderson TK, Walia RW, Vincent AL, Gauger PC.

BMC Bioinformatics. 2018 Nov 1;19(1):397. doi: 10.1186/s12859-018-2408-7.


Effects of sample handling on the detection of porcine reproductive and respiratory syndrome virus in oral fluids by reverse-transcription real-time PCR.

Weiser AC, Poonsuk K, Bade SA, Gauger PC, Rotolo M, Harmon K, Gonzalez WM, Wang C, Main R, Zimmerman JJ.

J Vet Diagn Invest. 2018 Nov;30(6):807-812. doi: 10.1177/1040638718805534. Epub 2018 Oct 4.


Comparison of Adjuvanted-Whole Inactivated Virus and Live-Attenuated Virus Vaccines against Challenge with Contemporary, Antigenically Distinct H3N2 Influenza A Viruses.

Abente EJ, Rajao DS, Santos J, Kaplan BS, Nicholson TL, Brockmeier SL, Gauger PC, Perez DR, Vincent AL.

J Virol. 2018 Oct 29;92(22). pii: e01323-18. doi: 10.1128/JVI.01323-18. Print 2018 Nov 15.


The type of adjuvant in whole inactivated influenza a virus vaccines impacts vaccine-associated enhanced respiratory disease.

Souza CK, Rajão DS, Sandbulte MR, Lopes S, Lewis NS, Loving CL, Gauger PC, Vincent AL.

Vaccine. 2018 Oct 1;36(41):6103-6110. doi: 10.1016/j.vaccine.2018.08.072. Epub 2018 Sep 1.


Feed batch sequencing to decrease the risk of porcine epidemic diarrhea virus (PEDV) cross-contamination during feed manufacturing.

Schumacher LL, Cochrane RA, Huss AR, Gebhardt JT, Woodworth JC, Stark CR, Jones CK, Bai J, Main RG, Chen Q, Zhang J, Gauger PC, DeRouchey JM, Goodband RD, Tokach MD, Dritz SS.

J Anim Sci. 2018 Nov 21;96(11):4562-4570. doi: 10.1093/jas/sky320.


Evaluation of the effects of flushing feed manufacturing equipment with chemically treated rice hulls on porcine epidemic diarrhea virus cross-contamination during feed manufacturing.

Gebhardt JT, Cochrane RA, Woodworth JC, Jones CK, Niederwerder MC, Muckey MB, Stark CR, Tokach MD, DeRouchey JM, Goodband RD, Bai J, Gauger PC, Chen Q, Zhang J, Main RG, Dritz SS.

J Anim Sci. 2018 Sep 29;96(10):4149-4158. doi: 10.1093/jas/sky295.


Detection and genomic characterization of new avian-like hepatitis E virus in a sparrow in the United States.

Yang C, Wang L, Shen H, Zheng Y, Gauger PC, Chen Q, Zhang J, Yoon KJ, Harmon KM, Main RG, Li G.

Arch Virol. 2018 Oct;163(10):2861-2864. doi: 10.1007/s00705-018-3925-4. Epub 2018 Jul 3.


Better horizontal transmission of a US non-InDel strain compared with a French InDel strain of porcine epidemic diarrhoea virus.

Gallien S, Andraud M, Moro A, Lediguerher G, Morin N, Gauger PC, Bigault L, Paboeuf F, Berri M, Rose N, Grasland B.

Transbound Emerg Dis. 2018 Dec;65(6):1720-1732. doi: 10.1111/tbed.12945. Epub 2018 Jul 2.


The emergence of novel sparrow deltacoronaviruses in the United States more closely related to porcine deltacoronaviruses than sparrow deltacoronavirus HKU17.

Chen Q, Wang L, Yang C, Zheng Y, Gauger PC, Anderson T, Harmon KM, Zhang J, Yoon KJ, Main RG, Li G.

Emerg Microbes Infect. 2018 Jun 6;7(1):105. doi: 10.1038/s41426-018-0108-z. No abstract available.


Metagenomic analysis of the RNA fraction of the fecal virome indicates high diversity in pigs infected by porcine endemic diarrhea virus in the United States.

Chen Q, Wang L, Zheng Y, Zhang J, Guo B, Yoon KJ, Gauger PC, Harmon KM, Main RG, Li G.

Virol J. 2018 May 25;15(1):95. doi: 10.1186/s12985-018-1001-z.


Detection and genetic characterization of porcine pegivirus in pigs in the United States.

Yang C, Wang L, Shen H, Zheng Y, Bade SA, Gauger PC, Chen Q, Zhang J, Guo B, Yoon KJ, Harmon KM, Main RG, Li G.

Transbound Emerg Dis. 2018 Jun;65(3):618-626. doi: 10.1111/tbed.12844. Epub 2018 Feb 27.


Comparison of the efficacy of a commercial inactivated influenza A/H1N1/pdm09 virus (pH1N1) vaccine and two experimental M2e-based vaccines against pH1N1 challenge in the growing pig model.

Opriessnig T, Gauger PC, Gerber PF, Castro AMMG, Shen H, Murphy L, Digard P, Halbur PG, Xia M, Jiang X, Tan M.

PLoS One. 2018 Jan 30;13(1):e0191739. doi: 10.1371/journal.pone.0191739. eCollection 2018.


Evidence of porcine epidemic diarrhea virus (PEDV) shedding in semen from infected specific pathogen-free boars.

Gallien S, Moro A, Lediguerher G, Catinot V, Paboeuf F, Bigault L, Berri M, Gauger PC, Pozzi N, Authié E, Rose N, Grasland B.

Vet Res. 2018 Jan 24;49(1):7. doi: 10.1186/s13567-018-0505-2.


Vaccination of pigs with a codon-pair bias de-optimized live attenuated influenza vaccine protects from homologous challenge.

Kaplan BS, Souza CK, Gauger PC, Stauft CB, Robert Coleman J, Mueller S, Vincent AL.

Vaccine. 2018 Feb 14;36(8):1101-1107. doi: 10.1016/j.vaccine.2018.01.027.


Evaluating the role of wild songbirds or rodents in spreading avian influenza virus across an agricultural landscape.

Houston DD, Azeem S, Lundy CW, Sato Y, Guo B, Blanchong JA, Gauger PC, Marks DR, Yoon KJ, Adelman JS.

PeerJ. 2017 Dec 13;5:e4060. doi: 10.7717/peerj.4060. eCollection 2017.


Porcine reproductive and respiratory disease virus: Evolution and recombination yields distinct ORF5 RFLP 1-7-4 viruses with individual pathogenicity.

van Geelen AGM, Anderson TK, Lager KM, Das PB, Otis NJ, Montiel NA, Miller LC, Kulshreshtha V, Buckley AC, Brockmeier SL, Zhang J, Gauger PC, Harmon KM, Faaberg KS.

Virology. 2018 Jan 1;513:168-179. doi: 10.1016/j.virol.2017.10.002. Epub 2017 Nov 5.


Characterizing the rapid spread of porcine epidemic diarrhea virus (PEDV) through an animal food manufacturing facility.

Schumacher LL, Huss AR, Cochrane RA, Stark CR, Woodworth JC, Bai J, Poulsen EG, Chen Q, Main RG, Zhang J, Gauger PC, Ramirez A, Derscheid RJ, Magstadt DM, Dritz SS, Jones CK.

PLoS One. 2017 Nov 2;12(11):e0187309. doi: 10.1371/journal.pone.0187309. eCollection 2017.


Protective efficacy of a virus-vectored multi-component vaccine against porcine reproductive and respiratory syndrome virus, porcine circovirus type 2 and swine influenza virus.

Tian D, Sooryanarain H, Matzinger SR, Gauger PC, Karuppannan AK, Elankumaran S, Opriessnig T, Meng XJ.

J Gen Virol. 2017 Dec;98(12):3026-3036. doi: 10.1099/jgv.0.000964. Epub 2017 Nov 1.


Complete Genome Sequence of Porcine respirovirus 1 Strain USA/MN25890NS/2016, Isolated in the United States.

Park JY, Welch M, Harmon KM, Zhang J, Piñeyro PE, Li G, Gauger PC.

Genome Announc. 2017 Oct 19;5(42). pii: e01139-17. doi: 10.1128/genomeA.01139-17.


Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States.

Abente EJ, Gauger PC, Walia RR, Rajao DS, Zhang J, Harmon KM, Killian ML, Vincent AL.

Virology. 2017 Nov;511:56-65. doi: 10.1016/j.virol.2017.08.021. Epub 2017 Aug 23.


Effect of pelleting on survival of porcine epidemic diarrhea virus-contaminated feed.

Cochrane RA, Schumacher LL, Dritz SS, Woodworth JC, Huss AR, Stark CR, DeRouchey JM, Tokach MD, Goodband RD, Bia J, Chen Q, Zhang J, Gauger PC, Derscheid RJ, Magstadt DR, Main RG, Jones CK.

J Anim Sci. 2017 Mar;95(3):1170-1178. doi: 10.2527/jas.2016.0961.


Sampling guidelines for oral fluid-based surveys of group-housed animals.

Rotolo ML, Sun Y, Wang C, Giménez-Lirola L, Baum DH, Gauger PC, Harmon KM, Hoogland M, Main R, Zimmerman JJ.

Vet Microbiol. 2017 Sep;209:20-29. doi: 10.1016/j.vetmic.2017.02.004. Epub 2017 Feb 17.


A highly pathogenic avian-derived influenza virus H5N1 with 2009 pandemic H1N1 internal genes demonstrates increased replication and transmission in pigs.

Abente EJ, Kitikoon P, Lager KM, Gauger PC, Anderson TK, Vincent AL.

J Gen Virol. 2017 Jan;98(1):18-30. doi: 10.1099/jgv.0.000678.


High-throughput whole genome sequencing of Porcine reproductive and respiratory syndrome virus from cell culture materials and clinical specimens using next-generation sequencing technology.

Zhang J, Zheng Y, Xia XQ, Chen Q, Bade SA, Yoon KJ, Harmon KM, Gauger PC, Main RG, Li G.

J Vet Diagn Invest. 2017 Jan;29(1):41-50. doi: 10.1177/1040638716673404. Epub 2016 Dec 20.


Pigs with Severe Combined Immunodeficiency Are Impaired in Controlling Influenza A Virus Infection.

Rajao DS, Loving CL, Waide EH, Gauger PC, Dekkers JC, Tuggle CK, Vincent AL.

J Innate Immun. 2017;9(2):193-202. doi: 10.1159/000451007. Epub 2016 Dec 17.


Reassortment between Swine H3N2 and 2009 Pandemic H1N1 in the United States Resulted in Influenza A Viruses with Diverse Genetic Constellations with Variable Virulence in Pigs.

Rajão DS, Walia RR, Campbell B, Gauger PC, Janas-Martindale A, Killian ML, Vincent AL.

J Virol. 2017 Jan 31;91(4). pii: e01763-16. doi: 10.1128/JVI.01763-16. Print 2017 Feb 15.


Evaluation of the minimum infectious dose of porcine epidemic diarrhea virus in virus-inoculated feed.

Schumacher LL, Woodworth JC, Jones CK, Chen Q, Zhang J, Gauger PC, Stark CR, Main RG, Hesse RA, Tokach MD, Dritz SS.

Am J Vet Res. 2016 Oct;77(10):1108-13. doi: 10.2460/ajvr.77.10.1108.


Outbreak of H5N2 highly pathogenic avian Influenza A virus infection in two commercial layer facilities: lesions and viral antigen distribution.

Arruda PH, Stevenson GW, Killian ML, Burrough ER, Gauger PC, Harmon KM, Magstadt DR, Yoon KJ, Zhang J, Madson DM, Piñeyro P, Derscheid RJ, Schwartz KJ, Cooper VL, Halbur PG, Main RG, Sato Y, Arruda BL.

J Vet Diagn Invest. 2016 Sep;28(5):568-73. doi: 10.1177/1040638716658929. Epub 2016 Jul 16.


Validation of a gauze sponge sampling methodology to detect Tritrichomonas foetus by real-time PCR.

Dewell GA, Phillips PE, Dohlman TM, Harmon KM, Gauger PC.

J Vet Diagn Invest. 2016 Sep;28(5):595-8. doi: 10.1177/1040638716653637. Epub 2016 Jul 7.


The Molecular Determinants of Antibody Recognition and Antigenic Drift in the H3 Hemagglutinin of Swine Influenza A Virus.

Abente EJ, Santos J, Lewis NS, Gauger PC, Stratton J, Skepner E, Anderson TK, Rajao DS, Perez DR, Vincent AL.

J Virol. 2016 Aug 26;90(18):8266-80. doi: 10.1128/JVI.01002-16. Print 2016 Sep 15.


Neuraminidase inhibiting antibody responses in pigs differ between influenza A virus N2 lineages and by vaccine type.

Sandbulte MR, Gauger PC, Kitikoon P, Chen H, Perez DR, Roth JA, Vincent AL.

Vaccine. 2016 Jul 19;34(33):3773-9. doi: 10.1016/j.vaccine.2016.06.001. Epub 2016 Jun 17.


Novel Senecavirus A in Swine with Vesicular Disease, United States, July 2015.

Guo B, Piñeyro PE, Rademacher CJ, Zheng Y, Li G, Yuan J, Hoang H, Gauger PC, Madson DM, Schwartz KJ, Canning PE, Arruda BL, Cooper VL, Baum DH, Linhares DC, Main RG, Yoon KJ.

Emerg Infect Dis. 2016 Jul;22(7):1325-7. doi: 10.3201/eid2207.151758. No abstract available.


The avian-origin H3N2 canine influenza virus that recently emerged in the United States has limited replication in swine.

Abente EJ, Anderson TK, Rajao DS, Swenson S, Gauger PC, Vincent AL.

Influenza Other Respir Viruses. 2016 Sep;10(5):429-32. doi: 10.1111/irv.12395. Epub 2016 May 18.


Evaluation of two singleplex reverse transcription-Insulated isothermal PCR tests and a duplex real-time RT-PCR test for the detection of porcine epidemic diarrhea virus and porcine deltacoronavirus.

Zhang J, Tsai YL, Lee PY, Chen Q, Zhang Y, Chiang CJ, Shen YH, Li FC, Chang HF, Gauger PC, Harmon KM, Wang HT.

J Virol Methods. 2016 Aug;234:34-42. doi: 10.1016/j.jviromet.2016.03.016. Epub 2016 Apr 6.


Evaluation of serological cross-reactivity and cross-neutralization between the United States porcine epidemic diarrhea virus prototype and S-INDEL-variant strains.

Chen Q, Thomas JT, Giménez-Lirola LG, Hardham JM, Gao Q, Gerber PF, Opriessnig T, Zheng Y, Li G, Gauger PC, Madson DM, Magstadt DR, Zhang J.

BMC Vet Res. 2016 Apr 5;12:70. doi: 10.1186/s12917-016-0697-5.


Vaccine-associated enhanced respiratory disease is influenced by haemagglutinin and neuraminidase in whole inactivated influenza virus vaccines.

Rajão DS, Chen H, Perez DR, Sandbulte MR, Gauger PC, Loving CL, Shanks GD, Vincent A.

J Gen Virol. 2016 Jul;97(7):1489-99. doi: 10.1099/jgv.0.000468. Epub 2016 Mar 31.


Age at Vaccination and Timing of Infection Do Not Alter Vaccine-Associated Enhanced Respiratory Disease in Influenza A Virus-Infected Pigs.

Souza CK, Rajão DS, Loving CL, Gauger PC, Pérez DR, Vincent AL.

Clin Vaccine Immunol. 2016 Jun 6;23(6):470-482. doi: 10.1128/CVI.00563-15. Print 2016 Jun.


Heterologous challenge in the presence of maternally-derived antibodies results in vaccine-associated enhanced respiratory disease in weaned piglets.

Rajao DS, Sandbulte MR, Gauger PC, Kitikoon P, Platt R, Roth JA, Perez DR, Loving CL, Vincent AL.

Virology. 2016 Apr;491:79-88. doi: 10.1016/j.virol.2016.01.015. Epub 2016 Feb 11.


Pathogenesis comparison between the United States porcine epidemic diarrhoea virus prototype and S-INDEL-variant strains in conventional neonatal piglets.

Chen Q, Gauger PC, Stafne MR, Thomas JT, Madson DM, Huang H, Zheng Y, Li G, Zhang J.

J Gen Virol. 2016 May;97(5):1107-21. doi: 10.1099/jgv.0.000419. Epub 2016 Feb 3.


Whole-Genome Sequences of Novel Porcine Circovirus Type 2 Viruses Detected in Swine from Mexico and the United States.

Harmon KM, Gauger PC, Zhang J, Piñeyro PE, Dunn DD, Chriswell AJ.

Genome Announc. 2015 Dec 17;3(6). pii: e01315-15. doi: 10.1128/genomeA.01315-15.


Widespread detection and characterization of porcine parainfluenza virus 1 in pigs in the USA.

Palinski RM, Chen Z, Henningson JN, Lang Y, Rowland RR, Fang Y, Prickett J, Gauger PC, Hause BM.

J Gen Virol. 2016 Feb;97(2):281-6. doi: 10.1099/jgv.0.000343. Epub 2015 Nov 17.


Effect of Porcine Epidemic Diarrhea Virus Infectious Doses on Infection Outcomes in Naïve Conventional Neonatal and Weaned Pigs.

Thomas JT, Chen Q, Gauger PC, Giménez-Lirola LG, Sinha A, Harmon KM, Madson DM, Burrough ER, Magstadt DR, Salzbrenner HM, Welch MW, Yoon KJ, Zimmerman JJ, Zhang J.

PLoS One. 2015 Oct 6;10(10):e0139266. doi: 10.1371/journal.pone.0139266. eCollection 2015.


Novel Reassortant Human-Like H3N2 and H3N1 Influenza A Viruses Detected in Pigs Are Virulent and Antigenically Distinct from Swine Viruses Endemic to the United States.

Rajão DS, Gauger PC, Anderson TK, Lewis NS, Abente EJ, Killian ML, Perez DR, Sutton TC, Zhang J, Vincent AL.

J Virol. 2015 Nov;89(22):11213-22. doi: 10.1128/JVI.01675-15. Epub 2015 Aug 26.


Oral Fluids as a Live-Animal Sample Source for Evaluating Cross-Reactivity and Cross-Protection following Intranasal Influenza A Virus Vaccination in Pigs.

Hughes HR, Vincent AL, Brockmeier SL, Gauger PC, Pena L, Santos J, Braucher DR, Perez DR, Loving CL.

Clin Vaccine Immunol. 2015 Oct;22(10):1109-20. doi: 10.1128/CVI.00358-15. Epub 2015 Aug 19.


Discovery of a novel putative atypical porcine pestivirus in pigs in the USA.

Hause BM, Collin EA, Peddireddi L, Yuan F, Chen Z, Hesse RA, Gauger PC, Clement T, Fang Y, Anderson G.

J Gen Virol. 2015 Oct;96(10):2994-8. doi: 10.1099/jgv.0.000251. Epub 2015 Jul 24.


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