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Siddhartha "Sid" Thakur, Associate Professor

Siddhartha Thakur



Core Leader: Emerging, Infectious and Zoonotic Diseases, CCMTR

Concentration Leader: Population Medicine, Comparative Biomedical Sciences



Office: Research Building, Room # 490

Phone #: 919-513-0729 Fax #: 919-515-304

Lab Website:



Dr. Sid Thakur is an Associate Professor in the College of Veterinary Medicine at NC State University.  He received his Bachelor of Veterinary Science and Animal Husbandry from Gobind Ballabh Pant University of Agriculture and Technology (Udham Singh Nagar, India) and   Master of Veterinary Science in Veterinary Public Health at the Indian Veterinary Research Institute (Izatnagar, India).  He earned his Ph.D. in Population Medicine at the College of Veterinary Medicine, NC State University where his research focus was on comparing multidrug resistant Campylobacter isolated from swine raised in commercial and antimicrobial free production systems.  Prior to joining the faculty at NC State University, he was an Oakridge Research Associated Universities Postdoctoral Fellow at Center for Veterinary Medicine, Food and Drug Administration, Laurel, Maryland. At FDA, Dr. Thakur was involved in developing a DNA Microarray for the analysis of multi-drug resistant enteric pathogens isolated from retail meat.

Dr. Thakur`s research at NC State focuses on the molecular epidemiology of multi-drug resistant bacterial Salmonella and Campylobacter in the realms of pre-harvest food safety.  His recent research focus has been studying the transmission of foodborne pathogens from food animals to fresh produce farms. Dr. Thakur has authored or co-authored 30 peer reviewed publications and is currently editing a book on Pre Harvest Food Safety for the American Society for Microbiology. He is the chair of the International Association for Food Protection (IAFP) Pre Harvest Food Safety professional development group (PDG), and serves on the Journal of Food Protection management committee. He was awarded the Larry Beuchat Young Researcher Award at the 2012 IAFP annual meeting in Providence, RI.


Honors and Awards


The major focus of Dr. Thakur research is to fill critical knowledge gaps that exist in the complex chain of events that lead to the development of antimicrobial resistance in bacterial pathogens that affect animal and human health. I espouse the concepts of “One Health” and use its principals to study the impact of interplay between animals, humans and their environment on the dissemination and persistence of antimicrobial resistant (AR) bacterial strains.  My research work is based on two predominant themes which are centered on food safety and public health.  The first revolves around understanding the phenotypic and genotypic similarity and/or diversity of AR bacterial strains reported in animals and humans.  This involves characterizing and elucidating the mechanisms of antimicrobial resistance at the molecular level, analyzing the DNA fingerprint patterns and determining the risk factors that predispose the animals and humans to infections by these strains.  The second theme is focused on using phylogenetics to study the evolution of AR bacterial strains at the population level. In this, we use molecular methods to study pathogen evolution on an evolutionary scale.

Research in Dr. Thakur lab is focused on understanding the molecular epidemiology of important multidrug resistant (MDR) food borne pathogens at the pre-harvest and post-harvest food safety levels. Our specific goal is to determine the dynamics of Salmonella, Campylobacter and Clostridium in food animals, retail meat, humans and the environment. With this information, we plan to achieve our long term goal of reducing the burden of infections caused by bacterial pathogens in food animals and humans by:

  1. Determining the risk factors and understanding the dissemination of antimicrobial resistant strains in animals, humans and their environment,
  2. Characterizing and elucidating the mechanisms of antimicrobial resistance at the molecular level,
  3. Understanding the genotypic diversity and population dynamics of these bacterial populations through phylogenetic analysis,
  4. Developing diagnostic methods that will aid in the rapid identification and characterization of bacterial pathogens and,
  5. Conveying the results of these studies to the stakeholders and developing new curricula aimed at providing education and training of veterinary, animal and food science students.

Select Publications (2009-2012)

  1. Keelara S , Scott HSM , Morrow WM , Hartley C, Denise Griffin, Gebreyes WA, Thakur S. (2013).  Comparative phenotypic and genotypic characterization of temporally and spatially related non-typhoidal Salmonella isolated from human clinical cases, pigs and the environment. Foodborne Pathogens and Disease. (Accepted).
  2. Keelara S , Scott HSM , Morrow WM , Gebreyes WA , Correa M , Nayak R , Stefanova R, Thakur S. (2013). Longitudinal study comparing the distribution of phenotypic and genotypic similar antimicrobial resistant Salmonella serovars between pigs and their environment in two distinct swine production systems. Applied Environmental Microbiology. 79 (14) 5167-5178.
  3. Keelara S. and Thakur S. (2013). Dissemination of plasmid-encoded AmpC β-lactamases in antimicrobial resistant Salmonella serotypes originating from humans, pigs and environment. Journal of Applied Microbiology. (Submitted).
  4. Thakur S, Brake J, Keelara S, Zou M, and Susick E. (2013). Co-occurrence and Environmental Distribution of Campylobacter and Salmonella in Broiler Flocks. Research in Veterinary Science.  94:33-42.
  5. Smith TC,  Gebreyes WA, Abley MJ, Bayleyegn M, Harper A,  Forshey BM, Male MJ, Martin HW, Sreevatsan S, Thakur S, Thiruvengadam M,  Davies PR. (2013). Methicillin-resistant Staphylococcus aureus in pigs and farm workers on conventional and antibiotic-free swine farms in the USA. PLOS ONE. 8:XX-XX.
  6. Tadesse D, Bahnson P, Funk J, Thakur S, Morrow WEM, Wittum T, DeGraves F, Paivi Rajala-Schultz PJ, and Gebreyes WA. (2013). Yersinia enterocolitica of porcine origin, carriage of virulence genes and genotypic diversity. Foodborne Pathogens and Disease. 10 (1):80-86.
  7. Quintana M. and Thakur S. (2012). Phylogenetic Analysis Reveals Common Antimicrobial Resistant Campylobacter coli Population in Antimicrobial-Free (ABF) and Commercial Swine Systems. PLOS ONE. 7(9):e44662.
  8. Harbottle H, Thakur S, Sabo J, Vaughn V, McDermott S, Kroft B, Gebreyes W, Abbott J, Friedman S, and Zhao S. (2012). DNA Microarray Analysis of Multi-Drug Resistant Enteric Pathogens from Retail Meat. Foodborne Pathogens and Disease. (Submitted).
  9. Fry P, Thakur S, and Gebreyes WA. (2012). Antimicrobial Resistance, Toxinotype and Genotypic Profiling of Clostridium difficile of swine origin. Journal of Clinical Microbiology. 50(7):2366-2372.
  10. Quintana M, and Thakur, S. (2012). A Longitudinal Study on Persistence of Antimicrobial Resistant Campylobacter in Distinct Swine Production Systems at Farm, Slaughter and Environment. Applied Environmental Microbiology. 78(8):2698-2705.
  11. Susick E, Putnam M, Bermudez D, and Thakur S. (2012). Longitudinal study comparing the dynamics of Clostridium difficile in conventional and antimicrobial free pigs at farm and slaughter.  Veterinary Microbiology. 157(1-2):172-178.
  12. Zou M, Keelara S, and Thakur S. (2012). Molecular characterization of Salmonella enterica serotype Enteritidis isolates from humans by Antimicrobial Resistance, Virulence genes and Pulsed-field gel electrophoresis. Foodborne Pathogens and Disease. 9(3):232-238.
  13. Perez C, Whitacre MD, Thakur S, Keelara S, Fauls M, and Breitschwerdt EB. (2012). Unilateral Epididymitis Associated with Salmonella Bacteremia in a Dog. Clinical Theriogenology. 4(1):61-65.
  14. Thakur S, Sanford M, Stoskopf SK, and DePerno C. (2011). Detection of Clostridium difficile and Salmonella in feral swine population in North Carolina. Journal of Wildlife Diseases. 47(3):774-776.
  15. Tadesse D, Bahnson P, Funk J, Thakur S, Morrow WEM, Wittum T, DeGraves F, Paivi Rajala-Schultz PJ, and Gebreyes WA. (2011). Prevalence and Antimicrobial Resistance Profile of Campylobacter spp. Isolated from Conventional and Antimicrobial Free Production Systems from Different U.S. Regions. Foodborne Pathogens and Disease. 8(3):367-374.
  16. Thakur S, and Gebreyes W. (2010). Phenotypic and Genotypic heterogeneity of Campylobacter coli within individual pigs at farm and slaughter. Zoonoses and Public Health. 57 Suppl 1: 100-106.
  17. Thakur S, Putnam M, Fry P, Abley M. and Gebreyes W. (2010). Prevalence of antimicrobial resistance and association with toxin genes in Clostridium difficile in commercial swine. American Journal of Veterinary Research. 71:1189-1194.
  18. Thakur S, Zhao S, McDermott P, Harbottle H, Abbott J, English L, Gebreyes WA, and White D. (2010). Antimicrobial resistance, virulence, and genotypic profile comparison of Campylobacter jejuni and Campylobacter coli isolated from humans and retail meats. Foodborne Pathogens and Disease. 7:835-844.
  19. Alali WQ, Thakur S, Berghaus RD, Martin MP, and Gebreyes WA. (2010). Prevalence and Distribution of Salmonella in Organic and Conventional Broiler Poultry Farms. Foodborne Pathogens and Disease. 7(11):1363-1371.
  20. Thakur S, Kroft B, White D, Zhao S, McDermott P, Gebreyes W, Abbott J, Cullen P, English L, Carter P, and Harbottle H. (2009).Genotyping of Campylobacter coli isolated from Humans and Retail Meats Using Multi Locus Sequence Typing and Pulsed Field Gel Electrophoresis. Journal of Applied Microbiology. 106:1722-1733.
  21. Gebreyes WA, Thakur S, Dorr P, Tadesse D, Post K, and Wolf L. (2009). Occurrence of virulence gene spvA and role on the clinical significance of multi-drug resistant Salmonella. Journal of Clinical Microbiology. 47 (3):777-780.
  22. Dorr P, Tadesse D, Zewde B, Fry P, Thakur S, and Gebreyes WA. (2009). Longitudinal Study on Salmonella dispersion and the role of environmental contamination in commercial swine production systems. Applied Environmental Microbiology. 75 (6):1478-1486.