Siddhartha Thakur

Draft Genome Sequences of Escherichia coli and Enterococcus faecalis Coisolated from Polymicrobial Extraintestinal Infections of Chickens and Turkeys

Walker, G. K., Harden, L., Suyemoto, M. M., Thakur, S., Jacob, M., & Borst, L. B. (2023, February 21). MICROBIOLOGY RESOURCE ANNOUNCEMENTS, Vol. 2.

Characterization of Salmonella enterica Contamination in Pork and Poultry Meat from Sao Paulo/Brazil: Serotypes, Genotypes and Antimicrobial Resistance Profiles

PATHOGENS, 11(3).

Evidence of sheep and abattoir environment as important reservoirs of multidrug-resistant Salmonella and extended-spectrum beta-lactamase Escherichia coli

International Journal of Food Microbiology, 363, 109516.

Genomic Screening of Antimicrobial Resistance Markers in UK and US Campylobacter Isolates Highlights Stability of Resistance over an 18-Year Period

Vliet, A. H. M., Thakur, S., Prada, J. M., Mehat, J. W., & La Ragione, R. M. (2022, April 11). ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, Vol. 4.

Genomics of human and chicken Salmonella isolates in Senegal: Broilers as a source of antimicrobial resistance and potentially invasive nontyphoidal salmonellosis infections

PLOS ONE, 17(3).

Molecular characterization of multi drug resistant Escherichia coli isolates at a tertiary hospital in Abuja, Nigeria

Scientific Reports, 12(1).

Multidrug resistance and virulence genes carried by mobile genomic elements in Salmonella enterica isolated from live food animals, processed, and retail meat in North Carolina, 2018-2019

INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY, 378.

Tracking the Transmission of Antimicrobial-Resistant Non-O157 Escherichia coli and Salmonella Isolates at the Interface of Food Animals and Fresh Produce from Agriculture Operations Using Whole-Genome Sequencing

Glaize, A., Hull, D., Raymond, L., Vliet, A. H. M., Gutierrez-Rodriguez, E., & Thakur, S. (2022, August 4). FOODBORNE PATHOGENS AND DISEASE, Vol. 8.

Antimicrobial resistance and interspecies gene transfer in Campylobacter coli and Campylobacter jejuni isolated from food animals, poultry processing, and retail meat in North Carolina, 2018-2019

PLOS ONE, 16(2).

Association between dietary vitamin D and calcium intakes and bone health outcomes in UK African-Caribbean women

PROCEEDINGS OF THE NUTRITION SOCIETY, Vol. 80.

Colonization with multidrug-resistant Enterobacteriaceae among infants: an observational study in southern Sri Lanka

ANTIMICROBIAL RESISTANCE AND INFECTION CONTROL, 10(1).

Does Irrigation with Treated and Untreated Wastewater Increase Antimicrobial Resistance in Soil and Water: A Systematic Review

INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH.

Genetic relatedness of multidrug resistant Escherichia coli isolated from humans, chickens and poultry environments

Antimicrobial Resistance & Infection Control, 10(1).

Genomic Characterization of a Nalidixic Acid-Resistant Salmonella Enteritidis Strain Causing Persistent Infections in Broiler Chickens

FRONTIERS IN VETERINARY SCIENCE, 8.

Global Perspective of the Vitamin D Status of African-Caribbean Populations: A Systematic Review and Meta-analysis

Vearing, R. M., Hart, K. H., Darling, A. L., Probst, Y., Olayinka, A. S., Mendis, J., … Lanham-New, S. A. (2021, July 19). EUROPEAN JOURNAL OF CLINICAL NUTRITION, Vol. 7.

Identification of CTX-M type ESBL E. coli from sheep and their abattoir environment using whole-genome sequencing

Pathogens, 10(11), 1480.

Impact of the COVID-19 pandemic on the surveillance, prevention and control of antimicrobial resistance: a global survey

JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 76(11), 3045–3058.

Resistome of a carbapenemase-producing novel ST232 Klebsiella michiganensis isolate from urban hospital effluent in South Africa

JOURNAL OF GLOBAL ANTIMICROBIAL RESISTANCE, 24, 321–324.

The effect of vegetation barriers at reducing the transmission of Salmonella and Escherichia coli from animal operations to fresh produce

INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY, 347.

Ultra-accurate microbial amplicon sequencing with synthetic long reads

MICROBIOME, 9(1).

Antimicrobial resistance and virulence factors profile of Salmonella spp. and Escherichia coli isolated from different environments exposed to anthropogenic activity

JOURNAL OF GLOBAL ANTIMICROBIAL RESISTANCE, 22, 578–583.

Class 1 integron-borne cassettes harboring blaCARB-2 gene in multidrug-resistant and virulent Salmonella Typhimurium ST19 strains recovered from clinical human stool samples, United States

PLOS ONE, 15(10), e0240978.

Future perspectives in addressing the global issue of vitamin D deficiency

Mendes, M. M., Charlton, K., Thakur, S., Ribeiro, H., & Lanham-New, S. A. (2020, May). PROCEEDINGS OF THE NUTRITION SOCIETY, Vol. 79, pp. 246–251.

International lineages of Salmonella enterica serovars isolated from chicken farms, Wakiso District, Uganda

PLOS ONE, 15(1).

Molecular Epidemiology of Infectious Zoonotic and Livestock Diseases

MICROBIOLOGY SPECTRUM, 8(2).

The role ofEnterococcus faecalisduring co-infection with avian pathogenicEscherichia coliin avian colibacillosis

AVIAN PATHOLOGY, 49(6), 589–599.

Transmission of antimicrobial resistant non-O157 Escherichia coli at the interface of animal-fresh produce in sustainable farming environments

International Journal of Food Microbiology, 319, 108472.

Endemic fluoroquinolone-resistant Salmonella enterica serovar Kentucky ST198 in northern India

MICROBIAL GENOMICS, 5(7).

First Genome Sequence of Brucella abortus Biovar 3 Strain BAU21/S4023, Isolated from a Dairy Cow in Bangladesh

MICROBIOLOGY RESOURCE ANNOUNCEMENTS, 8(24).

First Genome Sequence of Brucella abortus Biovar 3 Strain BAU21/S4023, Isolated from a Dairy Cow in Bangladesh (vol 8, e00446-19, 2019)

Islam, M. S., El Zowalaty, M. E., Vliet, A. H. M., Thakur, S., Khatun, M. M., Saha, S., … Islam, M. A. (2019, July). MICROBIOLOGY RESOURCE ANNOUNCEMENTS, Vol. 8.

Food safety in Poultry meat production

(1st ed.). Springer US.

Genomic Features of High-Priority Salmonella enterica Serovars Circulating in the Food Production Chain, Brazil, 2000-2016

SCIENTIFIC REPORTS, 9.

Multidrug- and colistin-resistant Salmonella enterica 4,[5],12:i:- sequence type 34 carrying the mcr-3.1 gene on the IncHI2 plasmid recovered from a human

Journal of Medical Microbiology, 68(7), 986–990.

Multidrug- and colistin-resistant Salmonella enterica 4,[5],12:i:- sequence type 34 carrying the mcr-3.1 gene on the IncHI2 plasmid recovered from a human (vol 68, pg 986, 2019)

Monte, D. F., Nelson, V., Cerdeira, L., Keelara, S., Greene, S., Griffin, D., … Thakur, S. (2019, November). JOURNAL OF MEDICAL MICROBIOLOGY, Vol. 68, pp. 1694–1694.

Phenotypic and Genotypic Characterization of Escherichia coli and Salmonella enterica from Dairy Cattle Farms in the Wakiso District, Uganda: A Cross-Sectional Study

Foodborne Pathogens and Disease, 16(1), 54–59.

Prevalence and risk factors for multi-drug resistant Escherichia coli among poultry workers in the Federal Capital Territory, Abuja, Nigeria

PLOS ONE, 14(11), e0225379.

The Mandate for a Global “One Health” Approach to Antimicrobial Resistance Surveillance

The American Journal of Tropical Medicine and Hygiene, 1.

Antibiotic Usage in Poultry Production and Antimicrobial Resistant Salmonella in Poultry

In K. Venkitanarayanan, S. Thakur, & S. C. Ricke (Eds.), Food safety in Poultry meat production (p. 301). Publisher: Springer US.

Environmental Dissemination of Multidrug Methicillin-Resistant Staphylococcus sciuri After Application of Manure from Commercial Swine Production Systems

FOODBORNE PATHOGENS AND DISEASE, 15(4), 210–217.

First report of mcr-1-harboring Salmonella enterica serovar Schwarzengrund isolated from poultry meat in Brazil

Diagnostic Microbiology and Infectious Disease, 11.

Molecular Characterization of Salmonella spp. from Cattle and Chicken Farms in Uganda

Online Journal of Public Health Informatics, 10(1), 148.

Molecular Tools To Study Preharvest Food Safety Challenges

Microbiology Spectrum, 6(1).

Molecular Tools To Study Preharvest Food Safety Challenges

In S. Thakur & K. Kniel (Eds.), Preharvest Food Safety (Vol. 6, pp. 361–382).

Preharvest Food Safety

(T. & K., Eds.).

Preharvest Food Safety

American Society for Microbiology.

Preharvest food safety

Washington, DC: ASM Press.

The role of citizen science in addressing grand challenges in food and agriculture research

Proceedings of the Royal Society B: Biological Sciences, 285(1891), 20181977.

Understanding the Complexities of Food Safety Using a “One Health” Approach

Microbiology Spectrum, 6(1).

Whole genome sequencing analysis of multiple Salmonella serovars provides insights into phylogenetic relatedness, antimicrobial resistance, and virulence markers across humans, food animals and agriculture environmental sources

BMC GENOMICS, 19.

Horizontal Dissemination of Antimicrobial Resistance Determinants in Multiple Salmonella Serotypes following Isolation from the Commercial Swine Operation Environment after Manure Application

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 83(20).

Molecular epidemiology of zoonotic and livestock diseases

In L. W. Riley (Ed.), Molecular Epidemiology of Infectious Diseases, Principles and Practices (2nd ed.). ASM Publications.

Multilaboratory Survey To Evaluate Salmonella Prevalence in Diarrheic and Nondiarrheic Dogs and Cats in the United States between 2012 and 2014

Journal of Clinical Microbiology, 55(5), 1350–1368.

Assessing the Impact of Manure Application in Commercial Swine Farms on the Transmission of Antimicrobial Resistant Salmonella in the Environment

PLOS ONE, 11(10).

Biofilm Formation by Environmental Isolates of Salmonella and Their Sensitivity to Natural Antimicrobials

FOODBORNE PATHOGENS AND DISEASE, 13(9), 509–516.

Cronobacter sakazakii - An unrecognised food borne pathogen, India

International Journal of Infectious Diseases, 45, 182.

Phenotypic Sub typing of Foodborne Pathogens

In S. Brul, P. M. Fratamico, & T. A. McMeekin (Eds.), Tracking Pathogens in the Food Chain. Woodhead Publishing Limited.

Early-life dietary spray-dried plasma influences immunological and intestinal injury responses to later-life Salmonella typhimurium challenge

BRITISH JOURNAL OF NUTRITION, 113(5), 783–793.

Comparative phenotypic and genotypic characterization of temporally related nontyphoidal salmonella isolated from human clinical cases, pigs, and the environment in North Carolina

Foodborne Pathogens and Disease, 11(2), 156–164.

Dissemination of plasmid-encoded AmpC beta-lactamases in antimicrobial resistant Salmonella serotypes originating from humans, pigs and the swine environment

VETERINARY MICROBIOLOGY, 173(1-2), 76–83.

Co-occurrence and Environmental Distribution of Campylobacter and Salmonella in Broiler Flocks

Research in Veterinary Science, 94, 33–42.

Farm and environmental distribution of Campylobacter and Salmonella in broiler flocks

RESEARCH IN VETERINARY SCIENCE, 94(1), 33–42.

Longitudinal Study of Distributions of Similar Antimicrobial-Resistant Salmonella Serovars in Pigs and Their Environment in Two Distinct Swine Production Systems

Applied and Environmental Microbiology, 79(17), 5167–5178.

Methicillin-Resistant Staphylococcus aureus in Pigs and Farm Workers on Conventional and Antibiotic-Free Swine Farms in the USA

PLOS ONE, 8(5).

Yersinia enterocolitica of Porcine Origin: Carriage of Virulence Genes and Genotypic Diversity

FOODBORNE PATHOGENS AND DISEASE, 10(1), 80–86.

Antimicrobial resistance, toxinotype, and genotypic profiling of clostridium difficile isolates of swine origin

Journal of Clinical Microbiology, 50(7), 2366–2372.

Longitudinal Study of the Persistence of Antimicrobial-Resistant Campylobacter Strains in Distinct Swine Production Systems on Farms, at Slaughter, and in the Environment

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 78(8), 2698–2705.

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.

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.

Phylogenetic Analysis Reveals Common Antimicrobial Resistant Campylobacter coli Population in Antimicrobial-Free (ABF) and Commercial Swine Systems

PLOS ONE, 7(9).

Unilateral Epididymitis Associated with Salmonella Bacteremia in a Dog

Clinical Theriogenology, 4(1), 61–65.

7 - Phenotypic subtyping of foodborne pathogens

In S. Brul, P. M. Fratamico, & T. A. McMeekin (Eds.), Tracing Pathogens in the Food Chain (pp. 141–156). http://www.sciencedirect.com/science/article/pii/B9781845694968500077

Detection of Clostridium difficile and Salmonella in Feral Swine Population in North Carolina

JOURNAL OF WILDLIFE DISEASES, 47(3), 774–776.

Prevalence and Antimicrobial Resistance Profile of Campylobacter Spp. Isolated from Conventional and Antimicrobial-Free Swine Production Systems from Different U.S. Regions

FOODBORNE PATHOGENS AND DISEASE, 8(3), 367–374.

Antimicrobial Resistance, Virulence, and Genotypic Profile Comparison of Campylobacter jejuni and Campylobacter coli Isolated from Humans and Retail Meats

FOODBORNE PATHOGENS AND DISEASE, 7(7), 835–844.

Phenotypic and Genotypic Heterogeneity of Campylobacter coli Within Individual Pigs at Farm and Slaughter in the US

ZOONOSES AND PUBLIC HEALTH, 57, 100–106.

Prevalence and Distribution of Salmonella in Organic and Conventional Broiler Poultry Farms

FOODBORNE PATHOGENS AND DISEASE, 7(11), 1363–1371.

Prevalence of antimicrobial resistance and association with toxin genes in Clostridium difficile in commercial swine

AMERICAN JOURNAL OF VETERINARY RESEARCH, 71(10), 1189–1194.

Genotyping of Campylobacter coli isolated from humans and retail meats using multilocus sequence typing and pulsed-field gel electrophoresis

JOURNAL OF APPLIED MICROBIOLOGY, 106(5), 1722–1733.

Longitudinal Study of Salmonella Dispersion and the Role of Environmental Contamination in Commercial Swine Production Systems

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 75(6), 1478–1486.

Occurrence of spvA Virulence Gene and Clinical Significance for Multidrug-Resistant Salmonella Strains

JOURNAL OF CLINICAL MICROBIOLOGY, 47(3), 777–780.

Molecular epidemiologic investigation of Campylobacter coli in swine production systems, using multilocus sequence typing (vol 72, pg 5666, 2006)

Thakur, S., Morrow, W. E. M., Funk, J. A., Bahnson, P. B., & Gebreyes, W. A. (2008, January). APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Vol. 74, pp. 342–342.

Occurrence of multidrug resistant Salmonella in antimicrobial-free (ABF) swine production systems

VETERINARY MICROBIOLOGY, 125(3-4), 362–367.

Comparison of prevalence, antimicrobial resistance, and occurrence of multidrug-resistant Salmonella in antimicrobial-free and conventional pig production

JOURNAL OF FOOD PROTECTION, 69(4), 743–748.

Genetics of Antimicrobial Resistance

Animal Biotechnology, 17(2), 111–124.

Molecular epidemiologic investigation of Campylobacter coli in swine production systems, using multilocus sequence typing

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 72(8), 5666–5669.

Molecular epidemiology and diversity of Salmonella serovar Typhimurium in pigs using phenotypic and genotypic approaches

EPIDEMIOLOGY AND INFECTION, 134(1), 187–198.

Campylobacter coli in swine production: Antimicrobial resistance mechanisms and molecular epidemiology

JOURNAL OF CLINICAL MICROBIOLOGY, 43(11), 5705–5714.

Campylobacter coli: prevalence and antimicrobial resistance in antimicrobial-free (ABF) swine production systems

JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 56(4), 765–768.

Multidrug-resistant Salmonella enterica serovar Muenchen from pigs and humans and potential interserovar transfer of antimicrobial resistance

ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 49(2), 503–511.

Prevalence and antimicrobial resistance of Campylobacter in antimicrobial-free and conventional pig production systems

JOURNAL OF FOOD PROTECTION, 68(11), 2402–2410.

Characterization of Antimicrobial-Resistant Phenotypes and Genotypes among Salmonella enterica Recovered from Pigs on Farms, from Transport Trucks, and from Pigs after Slaughter

Journal of Food Protection, 67(4), 698–705.

Trends in antimicrobial resistance, phage types and integrons among Salmonella serotypes from pigs, 1997-2000

Journal of Antimicrobial Chemotherapy, 53(6), 997–1003.

Molecular Epidemiology of Multi-drug resistant Salmonella enterica serovar Typhimurium isolated from Swine and Humans

Infection, Genetics and Evolution, 2, 277.