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Timothy Johnson

Animal Sciences 

  • Assistant Professor of Animal Sciences
765.494.8019
765.494.9346
CRTN Room 2020
270 S Russell Street
West Lafayette, IN 47907-2041

Area of Expertise: Food Animal Microbiome, Microbial Ecology
Education: B.S., Brigham Young University; Ph.D., Michigan State University; 
Post-doctoral Training: McMaster University, Canada (2013-2015); National Animal Disease Center, ARS, USDA (2015-2017)


Teaching Program
ANSC 66000 Intestinal Microbiology and Immunology
Discussion and critique of recent journal articles related to intestinal microbiology/immunology. The specific areas covered under this forum are: (i) Intestinal microbiology and microbiome, (ii) Food microbiology as it related to gastrointestinal diseases and persistence, (iii) Probiotics and prebiotics - related to intestinal health or pathogen control, and (iv) Mucosal immunity with major emphasis on intestinal immunology and gut health. 

We are discovering key processes and interactions in the animal microbiome, finding alternative growth promoters to antibiotics, and working to maintain food safety in meat products to the public. Our lab has two research goals: 1) to understand the diverse impacts of antimicrobial use in agriculture on microbial communities and antibiotic resistant genes, and the sustainability of these impacts; and 2) to manipulate the microbiome to improve nutrition and health in food animals, largely poultry and swine.

Full list of Dr. Tim Johnson's publications

News Releases

Selected Publications

Jia, B., Raphenya, A. R., Alcock, B., Waglechner, N., Guo, P., Tsang, K. K., . . . Others (2017). CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database. Nucleic acids research, 45(D1), D566–D573.

Johnson, T., Looft, T., Severin, A. J., Bayles, D. O., Nasko, D. J., Wommack, K. E., . . . Allen, H. K. (2017). The In-Feed Antibiotic Carbadox Induces Phage Gene Transcription in the Swine Gut Microbiome. mBio, 8(4), e00709–17.

Sylte, M. J., Looft, T., Johnson, T., Wu, Z., & Zhang, Q. (2017). Development of an experimental model of Campylobacter jejuni intestinal colonization in commercial turkeys. American Association of Immunologists.

Stedtfeld, R. D., Williams, M. R., Fakher, U., Johnson, T., Stedtfeld, T. M., Wang, F., . . . Others (2016). Antimicrobial resistance dashboard application for mapping environmental occurrence and resistant pathogens. FEMS microbiology ecology, 92(3).

Muziasari, W. I., Pärnänen, K., Johnson, T., Lyra, C., Karkman, A., Stedtfeld, R. D., . . . Virta, M. (2016). Aquaculture changes the profile of antibiotic resistance and mobile genetic element associated genes in Baltic Sea sediments. FEMS microbiology ecology, 92(4), fiw052.

Johnson, T., Stedtfeld, R. D., Wang, Q., Cole, J. R., Hashsham, S. A., Looft, T., . . . Tiedje, J. M. (2016). Clusters of antibiotic resistance genes enriched together stay together in swine agriculture. MBio, 7(2), e02214–15.

Karkman, A., Johnson, T., Lyra, C., Stedtfeld, R. D., Tamminen, M., Tiedje, J. M., & Virta, M. (2016). High-throughput quantification of antibiotic resistance genes from an urban wastewater treatment plant. FEMS microbiology ecology, 92(3).

Chai, B., Tsoi, T. V., Iwai, S., Liu, C., Fish, J. A., Gu, C., . . . Others (2016). Sphingomonas wittichii Strain RW1 Genome-Wide Gene Expression Shifts in Response to Dioxins and Clay. PloS one, 11(6), e0157008.

Zhu, Y., Johnson, T., Su, J., Qiao, M., Guo, G., Stedtfeld, R. D., . . . Tiedje, J. M. (2013). Diverse and abundant antibiotic resistance genes in Chinese swine farms. Proceedings of the National Academy of Sciences, 110(9), 3435–3440.

Penton, C. R., Johnson, T., Quensen, III, J. F., Iwai, S., Cole, J. R., & Tiedje, J. M. (2013). Functional genes to assess nitrogen cycling and aromatic hydrocarbon degradation: primers and processing matter. Frontiers in microbiology, 4.

Department of Animal Sciences, 270 S Russell Street, West Lafayette, IN 47907 USA, (765) 494-4808

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