PUBLICATIONS

Dynamics of the nasopharyngeal microbiome of apparently healthy calves and those with clinical symptoms of BRD from disease diagnosis to recovery

Ruth Eunice Centeno-Martinez, Rebecca N Klopp, Jennifer Koziol, Jacquelyn Boerman and Timothy A. Johnson

Meta-analysis reveals the predictable dynamic development of the gut microbiota in commercial pigs

 Wenxuan Dong, Nicole Ricker, Devin Holman, and Timothy A. Johnson 

The bovine nasal fungal community and associations with bovine respiratory disease

Ruth Eunice Centeno-Martinez, Suraj Mohan, Josiah Levi Davidson, Jon Schoonmaker, Aaron Ault, Mohit S Verma, Timothy A. Johnson

Persistence of antibiotic resistance from animal agricultural effluents to surface water revealed by genome-centric metagenomics

Jin Ju Kim, Hoon Je Seong, Timothy A. Johnson, Chang-Jun Cha, Woo Jun Sul, Jong-Chan Chae

Cecal microbiota transplantation: unique influence of cecal microbiota from divergently selected inbred donor lines on cecal microbial profile, serotonergic activity, and aggressive behavior of recipient chickens

Yuechi Fu, Jiaying Hu, Marisa Erasmus, Huanmin Zhang, Timothy A. Johnson,  Hengwei Cheng

Effects of feeding Saccharomyces cerevisiae fermentation postbiotic on the fecal microbial community of Holstein dairy calves

Ruth Eunice Centeno‑Martinez, Wenxuan Dong, Becca Klopp, Ilkyu Yoon, Jackie Boerman, Timothy A Johnson

Impact of ileal indigestible protein on nitrogen excretion and fecal microbiota may be greater compared with total protein concentration of diets in growing pig

Jung Sung, Timothy A Johnson, Darryl Ragland, Layi Adeola

Eimeria infection-related intestinal dynamics and microbiome, growth performance, and nutrient utilization in broiler chickens fed diets supplemented with multienzyme

Jing Yuan, Timothy A Johnson, Kola Ajuwon, Layi Adeola

Ileal and cecal microbiota response to Salmonella Typhimurium challenge in conventional and slow-growing broilers

Tessa R Sheets, Carmen L Wickware, Ashlyn M Snyder, Shawna L Weimer, Timothy A Johnson 

Elucidation of flavor precursor and liberation mechanisms related to dry-aging process using multiple chemical, metabolomics and microbiome approaches 

Derico Setyabrata, Kelly Vierck, Tessa Sheets, Jerrad Legako, Bruce Cooper, Timothy A Johnson, Brad Kim

The microbiota-gut-brain axis: Gut microbiota modulates conspecific aggression in diversely selected laying hens

Jiaying Hu, Timothy A Johnson *, Huanmin Zhang, Heng-wei Cheng

Biological units of antimicrobial resistance and strategies for their containment in animal production

Johanna Muurinen, Johannes Cairns, John Eddie Ekakoro, Carmen Wickware, Audrey Ruple, Timothy A Johnson

Effects of early-life cecal microbiota transplantation from divergently selected inbred chicken lines on growth, gut serotonin release, and immune parameters in recipient chickens 

Yuechi Fu, Jiaying Hu, Marisa Erasmus, Timothy A Johnson, Heng-Wei Cheng

Behavior and immune response of conventional and slow-growing broilers to Salmonella Typhimurium

Ashlyn Snyder, S Riley, Cara Robison, Darrin Karcher, Carmen Wickware, Timothy A Johnson, Shawna Weimer

Effects of feeding Saccharomyces cerevisiae fermentation products on the health and growth performance of Holstein dairy calves

Becca Klopp, Ruth Eunice Centeno-Martinez, Ilkyu Yoon, Timothy A Johnson, Jacquelyn Boerman

Identification of Bovine Respiratory Disease through the Nasal Microbiome

Ruth Eunice Centeno-Martinez, Natalie Glidden, Suraj Mohan, Josiah Davidson, Esteban Fernandez-Juricic, Jacquelyn Boerman, Jon Schoonmaker, Deepti Pillai, Jennifer Koziol, Aaron Ault, Mohit Verma, Timothy A Johnson

Composition and diversity of the seminal microbiota in bulls and its association with semen parameter

Jennifer Koziol, Tessa Sheets, Carmen Wickware, Timothy A Johnson

Research Note: Orange corn altered the cecal microbiome in laying hens   

Tiffany Chang , Jenn Ngo , Isaac Patino , Evan Rocheford, Torbert Rocheford , Darwin Ortiz , Darrin Karcher, Timothy A Johnson

On-farm colorimetric detection of Pasteurella multocida, Mannheimia haemolytica, and Histophilus somni in crude bovine nasal samples

Ana Pascual-Garrigos, Murali Kannan Maruthamuthu, Aaron Ault, Josiah Davidson, Grigorii Rudakov, Deepti Pillai, Jennifer Koziol, Jon Schoonmaker, Timothy A Johnson, Mohit S Verma

Effect of a Carbohydrase Admixture in Growing Pigs Fed Wheat-Based Diets in Thermoneutral and Heat Stress Conditions

Paul Oladele, Enkai Li, Hang Lu, Pierre Cozannet, Cindy Nakatsu, Timothy A Johnson, Olayiwola Adeola, Kolapo M. Ajuwon

Dietary fiber hierarchical specificity – the missing link for predictable and strong shifts in gut bacterial communities

Thaisa Cantu-Jungles, Nusebye Bulut, Eponine Chambry, Andrea Ruthes, Marcello Iacomini, Ali Keshavarzian, Timothy A Johnson, and Bruce Hamaker

Replacing dietary antibiotics with 0.20% L-glutamine in swine nursery diets: impact on intestinal physiology and the microbiome following weaning and transport 

Alan Duttlinger, Ruth Eunice Centeno Martinez, Betty McConn, Kouassi Kpodo, Donald Lay, Brian Richert, Timothy A Johnson, Jay Johnson

Swine growth promotion with antibiotics or alternatives can increase antibiotic resistance gene mobility potential

Johanna Muurinen, Jacob Richert, Carmen L Wickware, Brian Richert, Timothy A Johnson

Orange corn diets associated with lower severity of footpad dermatitis in broilers

Meagan Abraham, Shawna Weimer, K Scoles, Isaac Vargas, Timothy A Johnson, Cara Robison, L Hoverman, Evan Rocheford, Torbert Rocheford, Darwin Ortiz, Darrin Karcher

Loop-mediated isothermal amplification for the detection of Pasteurella multocida, Mannheimia haemolytica, and Histophilus somni in bovine nasal samples

Suraj Mohan, Ana Pascual-Garrigos, Haley Brouwer, Deepti Pillai, Jennifer Koziol, Aaron Ault, Jon Schoonmaker, Timothy A Johnson, and Mohit S. Verma

The acute host-response of turkeys colonized with Campylobacter coli

Matthew Sylte, Sathesh Sivasankaran, Julian Trachsel, Yuko Sato, Zuowei Wu, Timothy A Johnson, Lawrance  Chandra, Qijing Zhang and Torey Looft

Resistance-guided discovery of elfamycin antibiotic producers with antigonococcal activity

Venkateswarlu Yarlagadda, Ricardo Medina, Timothy A Johnson, Kalinka Koteva, Georgina Cox, Maulik Thaker, and Gerard D. Wright

Composition and diversity of the preputial microbiota in healthy bulls

Carmen L Wickware, Timothy A Johnson, Jennifer H Koziol

In-feed bacitracin methylene disalicylate modulates the turkey microbiota and metabolome in a dose-dependent manner

Timothy A Johnson, Matthew Sylte & Torey Looft

CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database

Baofeng Jia, Amogelang Raphenya, Brian Alcock, Nicholas Waglechner, Peiyao Guo, Kara Tsang, Briony Lago, Biren Dave, Sheldon Pereira, Arjun Sharma, Sachin Doshi, Mélanie Courtot, Raymond Lo, Laura Williams, Jonathan Frye, Tariq Elsayegh, Daim Sardar, Erin Westman, Andrew Pawlowski, Timothy A Johnson, Fiona Brinkman, Gerard Wright, Andrew McArthur

Clusters of antibiotic resistance genes enriched together stay together in swine agriculture

Timothy A Johnson, Robert Stedtfeld, Qiong Wang, James Cole, Syed Hashsham, Torey Looft, Yong-Guan Zhu, James Tiedje

Diverse and abundant antibiotic resistance genes in Chinese swine farms

Yong-Guan Zhu, Timothy A Johnson, Jian-Qiang Su, Min Qiao, Guang-Xia Guo, Robert Stedtfeld, Syed Hashsham, James Tiedje

In-feed antibiotic effects on the swine intestinal microbiome

Torey Looft, Timothy A Johnson, Heather Allen, Darrell Bayles, David Alt, Robert Stedtfeld, Woo Jun Sul, Tiffany Stedtfeld, Benli Chai, James Cole, Syed Hashsham, James Tiedje, Thad Stanton