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Whole Genome Sequencing at ADDL

The use of next generation sequencing is a powerful tool to help state and federal agencies more quickly identify zoonotic outbreaks associated with food, feed, animals and people. The ADDL is a member of the FDA GenomeTrakr Network and the FDA Vet-LIRN, allowing the lab to collect and share genomic and geographic data from foodborne pathogens.

Publications

Tyson GH, Ceric O, Guag J, Nemser S, Borenstein S, Slavic D, Lippert S, McDowell R, Krishnamurthy A, Korosec S, Friday C, Pople N, Saab ME, Fairbrother JH, Janelle I, McMillan D, Bommineni YR, Simon D, Mohan S, Sanchez S, Phillips A, Bartlett P, Naikare H, Watson C, Sahin O, Stinman C, Wang L, Maddox C, DeShambo V, Hendrix K, Lubelski D, Burklund A, Lubbers B, Reed D, Jenkins T, Erol E, Patel M, Locke S, Fortner J, Peak L, Balasuriya U, Mani R, Kettler N, Olsen K, Zhang S, Shen Z, Landinez MP, Thornton JK, Thachil A, Byrd M, Jacob M, Krogh D, Webb B, Schaan L, Patil A, Dasgupta S, Mann S, Goodman LB, Franklin-Guild RJ, Anderson RR, Mitchell PK, Cronk BD, Aprea M, Cui J, Jurkovic D, Prarat M, Zhang Y, Shiplett K, Campos DD, Rubio JVB, Ramanchandran A, Talent S, Tewari D, Thirumalapura N, Kelly D, Barnhart D, Hall L, Rankin S, Dietrich J, Cole S, Scaria J, Antony L, Lawhon SD, Wu J, McCoy C, Dietz K, Wolking R, Alexander T, Burbick C, Reimschuessel R. Genomics accurately predicts antimicrobial resistance in Staphylococcus pseudintermedius collected as part of Vet-LIRN resistance monitoring. Vet Microbiol. 2021 Mar;254:109006. doi: 10.1016/j.vetmic.2021.109006. Epub 2021 Feb 4. PMID: 33581494.

Gangiredla J, Rand H, Benisatto D, Payne J, Strittmatter C, Sanders J, Wolfgang WJ, Libuit K, Herrick JB, Prarat M, Toro M, Farrell T, Strain E. GalaxyTrakr: a distributed analysis tool for public health whole genome sequence data accessible to non-bioinformaticians. BMC Genomics. 2021 Feb 10;22(1):114. doi: 10.1186/s12864-021-07405-8. PMID: 33568057; PMCID: PMC7877046.

Harris B, Hicks J, Prarat M, Sanchez S, Crossley B. Next-generation sequencing capacity and capabilities within the National Animal Health Laboratory Network. J Vet Diagn Invest. 2021 Mar;33(2):248-252. doi: 10.1177/1040638720937015. Epub 2020 Jul 1. PMID: 32608345; PMCID: PMC7953108.

Ceric O, Tyson GH, Goodman LB, Mitchell PK, Zhang Y, Prarat M, Cui J, Peak L, Scaria J, Antony L, Thomas M, Nemser SM, Anderson R, Thachil AJ, Franklin-Guild RJ, Slavic D, Bommineni YR, Mohan S, Sanchez S, Wilkes R, Sahin O, Hendrix GK, Lubbers B, Reed D, Jenkins T, Roy A, Paulsen D, Mani R, Olsen K, Pace L, Pulido M, Jacob M, Webb BT, Dasgupta S, Patil A, Ramachandran A, Tewari D, Thirumalapura N, Kelly DJ, Rankin SC, Lawhon SD, Wu J, Burbick CR, Reimschuessel R. Enhancing the one health initiative by using whole genome sequencing to monitor antimicrobial resistance of animal pathogens: Vet-LIRN collaborative project with veterinary diagnostic laboratories in United States and Canada. BMC Vet Res. 2019 May 6;15(1):130. doi: 10.1186/s12917-019-1864-2. PMID: 31060608; PMCID: PMC6501310.

Montgomery MP, Robertson S, Koski L, Salehi E, Stevenson LM, Silver R, Sundararaman P, Singh A, Joseph LA, Weisner MB, Brandt E, Prarat M, Bokanyi R, Chen JC, Folster JP, Bennett CT, Francois Watkins LK, Aubert RD, Chu A, Jackson J, Blanton J, Ginn A, Ramadugu K, Stanek D, DeMent J, Cui J, Zhang Y, Basler C, Friedman CR, Geissler AL, Crowe SJ, Dowell N, Dixon S, Whitlock L, Williams I, Jhung MA, Nichols MC, de Fijter S, Laughlin ME. Multidrug-Resistant Campylobacter jejuni Outbreak Linked to Puppy Exposure - United States, 2016-2018. MMWR Morb Mortal Wkly Rep. 2018 Sep 21;67(37):1032-1035. doi: 10.15585/mmwr.mm6737a3. PMID: 30235182; PMCID: PMC6147421.

Reimschuessel R, Grabenstein M, Guag J, Nemser SM, Song K, Qiu J, Clothier KA, Byrne BA, Marks SL, Cadmus K, Pabilonia K, Sanchez S, Rajeev S, Ensley S, Frana TS, Jergens AE, Chappell KH, Thakur S, Byrum B, Cui J, Zhang Y, Erdman MM, Rankin SC, Daly R, Das S, Ruesch L, Lawhon SD, Zhang S, Baszler T, Diaz-Campos D, Hartmann F, Okwumabua O. Multilaboratory Survey To Evaluate Salmonella Prevalence in Diarrheic and Nondiarrheic Dogs and Cats in the United States between 2012 and 2014. J Clin Microbiol. 2017 May;55(5):1350-1368. doi: 10.1128/JCM.02137-16. Epub 2017 Feb 15. PMID: 28202802; PMCID: PMC5405253.

Whole Genome Sequencing at the ADDL - Who to Contact

Yan.Zhang@agri.ohio.gov - Virology Section Head

Melanie.Prarat@agri.ohio.gov - WGS Coordinator