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Thieulent CJ, Carossino M, Peak L, Wolfson W, Balasuriya UBR. Development and validation of multiplex one-step qPCR/RT-qPCR assays for simultaneous detection of SARS-CoV-2 and pathogens associated with feline respiratory disease complex. PLoS One 2024; 19:e0297796. [PMID: 38517847 PMCID: PMC10959388 DOI: 10.1371/journal.pone.0297796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2023] [Accepted: 01/12/2024] [Indexed: 03/24/2024] Open
Abstract
Feline respiratory disease complex (FRDC) is caused by a wide range of viral and bacterial pathogens. Both Influenza A virus (IAV) and Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) also induce respiratory diseases in cats. Two one-step multiplex qPCR/RT-qPCR assays were developed and validated: FRA_1 (Feline respiratory assay 1) for the detection of four viral targets and FRA_2 for the detection of three bacteria associated with FRDC. Both multiplex assays demonstrated high specificity, efficiency (93.51%-107.8%), linearity (> 0.998), analytical sensitivity (≤ 15 genome copies/μl), repeatability (coefficient of variation [CV] < 5%), and reproducibility (CV < 6%). Among the 63 clinical specimens collected from FRDC-suspected cats, 92.1% were positive for at least one pathogen and co-infection was detected in 57.1% of samples. Mycoplasma felis (61.9%) was the most found pathogen, followed by feline herpesvirus-1 (30.2%), Chlamydia felis (28.7%) and feline calicivirus (27.0%). SARS-CoV-2 was detected in two specimens. In summary, this new panel of qPCR/RT-qPCR assays constitutes a useful and reliable tool for the rapid detection of SARS-CoV-2 and viral and bacterial pathogens associated with FRDC in cats.
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Affiliation(s)
- Côme J. Thieulent
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
| | - Mariano Carossino
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
| | - Laura Peak
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
| | - Wendy Wolfson
- Department of Veterinary Clinical Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
| | - Udeni B. R. Balasuriya
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, United States of America
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Thieulent CJ, Carossino M, Peak L, Wolfson W, Li G, Balasuriya UBR. Coding-complete genome sequences of two strains of canine pneumovirus derived from dogs with upper respiratory disease in the United States. Microbiol Resour Announc 2024; 13:e0105723. [PMID: 38289056 PMCID: PMC10868281 DOI: 10.1128/mra.01057-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Accepted: 01/09/2024] [Indexed: 02/16/2024] Open
Abstract
Canine pneumovirus was detected by RT-qPCR in 2022 from nasal swabs collected from two dogs with upper respiratory disease in a shelter in Louisiana, United States. The genomes from the designated strains CPnV USA/LA/2022/124423 and USA/LA/2022/123696 were sequenced and show the closest similarity to the pneumonia virus of mice J3666.
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Affiliation(s)
- Côme J. Thieulent
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
| | - Mariano Carossino
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
| | - Laura Peak
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
| | - Wendy Wolfson
- Department of Veterinary Clinical Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
| | - Ganwu Li
- Department of Veterinary Diagnostic and Production Animal Medicine, College of Veterinary Medicine, Iowa State University, Ames, Iowa, USA
| | - Udeni B. R. Balasuriya
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, Louisiana, USA
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Thieulent CJ, Carossino M, Peak L, Wolfson W, Balasuriya UBR. Multiplex One-Step RT-qPCR Assays for Simultaneous Detection of SARS-CoV-2 and Other Enteric Viruses of Dogs and Cats. Viruses 2023; 15:1890. [PMID: 37766296 PMCID: PMC10534472 DOI: 10.3390/v15091890] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Revised: 09/03/2023] [Accepted: 09/05/2023] [Indexed: 09/29/2023] Open
Abstract
The severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) was transmitted from humans to dogs and cats (reverse zoonosis) during the COVID-19 pandemic. SARS-CoV-2 has been detected in fecal samples of infected dogs and cats, indicating potential fecal-oral transmission, environmental contamination, and zoonotic transmission (i.e., spillback). Additionally, gastrointestinal viral infections are prevalent in dogs and cats. In this study, we developed and validated a panel of multiplex one-step reverse transcription-quantitative polymerase chain reaction (RT-qPCR) assays for the simultaneous detection of SARS-CoV-2 and common canine enteric viruses: Canine Enteric Assay_1 (CEA_1) for the detection of canine adenovirus-1, canine enteric coronavirus, canine distemper virus, and canine parvovirus, and CEA_2 for the detection of rotavirus A (RVA), and SARS-CoV-2); or common feline enteric viruses (Feline Enteric Assay_1 (FEA_1) for the detection of feline enteric coronavirus, feline panleukopenia virus, RVA, and SARS-CoV-2). All assays demonstrated high analytical sensitivity, detecting as few as 5-35 genome copies/µL in multiplex format. The repeatability and reproducibility of the multiplex assays were excellent, with coefficient of variation <4%. Among the 58 clinical samples tested, 34.5% were positive for at least one of these viruses, and SARS-CoV-2 was detected in two samples collected from one dog and one cat, respectively. In conclusion, these newly developed one-step multiplex RT-qPCR assays allow for rapid diagnosis of enteric viral infections, including SARS-CoV-2, in dogs and cats.
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Affiliation(s)
- Côme J. Thieulent
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.)
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA
| | - Mariano Carossino
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.)
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA
| | - Laura Peak
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.)
| | - Wendy Wolfson
- Department of Veterinary Clinical Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA;
| | - Udeni B. R. Balasuriya
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.)
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA
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Thieulent CJ, Carossino M, Peak L, Strother K, Wolfson W, Balasuriya UBR. Development and Validation of a Panel of One-Step Four-Plex qPCR/RT-qPCR Assays for Simultaneous Detection of SARS-CoV-2 and Other Pathogens Associated with Canine Infectious Respiratory Disease Complex. Viruses 2023; 15:1881. [PMID: 37766287 PMCID: PMC10535912 DOI: 10.3390/v15091881] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2023] [Revised: 08/28/2023] [Accepted: 09/04/2023] [Indexed: 09/29/2023] Open
Abstract
Canine infectious respiratory disease complex (CIRDC) is the primary cause of respiratory disease in the canine population and is caused by a wide array of viruses and bacterial pathogens with coinfections being common. Since its recognition in late 2019, Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) has been reported to cause respiratory disease in dogs. Therefore, the rapid detection and differentiation of SARS-CoV-2 from other common viral and bacterial agents is critical from a public health standpoint. Here, we developed and validated a panel of four one-step multiplex qPCR/RT-qPCR assays for the detection and identification of twelve pathogens associated with CIRDC (canine adenovirus-2, canine distemper virus, canine herpesvirus-1, canine influenza A virus, canine parainfluenza virus, canine pneumovirus, canine respiratory coronavirus, SARS-CoV-2, Bordetella bronchiseptica, Streptococcus equi subsp. zooepidemicus, Mycoplasma cynos, and M. canis), as well as the identification of three main CIV subtypes (i.e., H3N2, H3N8, and H1N1). All developed assays demonstrated high specificity and analytical sensitivity. This panel was used to test clinical specimens (n = 76) from CIRDC-suspected dogs. M. canis, M. cynos, and CRCoV were the most frequently identified pathogens (30.3%, 25.0%, and 19.7% of samples, respectively). The newly emerging pathogens CPnV and SARS-CoV-2 were detected in 5.3% of samples and coinfections were identified in 30.3%. This new multiplex qPCR/RT-qPCR panel is the most comprehensive panel developed thus far for identifying CIRDC pathogens, along with SARS-CoV-2.
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Affiliation(s)
- Côme J. Thieulent
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.); (K.S.)
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA
| | - Mariano Carossino
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.); (K.S.)
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA
| | - Laura Peak
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.); (K.S.)
| | - Keith Strother
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.); (K.S.)
| | - Wendy Wolfson
- Department of Veterinary Clinical Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA;
| | - Udeni B. R. Balasuriya
- Louisiana Animal Disease Diagnostic Laboratory, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA; (C.J.T.); (M.C.); (L.P.); (K.S.)
- Department of Pathobiological Sciences, School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA 70803, USA
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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; 254:109006. [PMID: 33581494 DOI: 10.1016/j.vetmic.2021.109006] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Accepted: 01/28/2021] [Indexed: 02/07/2023]
Abstract
Whole-genome sequencing (WGS) has changed our understanding of bacterial pathogens, aiding outbreak investigations and advancing our knowledge of their genetic features. However, there has been limited use of genomics to understand antimicrobial resistance of veterinary pathogens, which would help identify emerging resistance mechanisms and track their spread. The objectives of this study were to evaluate the correlation between resistance genotypes and phenotypes for Staphylococcus pseudintermedius, a major pathogen of companion animals, by comparing broth microdilution antimicrobial susceptibility testing and WGS. From 2017-2019, we conducted antimicrobial susceptibility testing and WGS on S. pseudintermedius isolates collected from dogs in the United States as a part of the Veterinary Laboratory Investigation and Response Network (Vet-LIRN) antimicrobial resistance monitoring program. Across thirteen antimicrobials in nine classes, resistance genotypes correlated with clinical resistance phenotypes 98.4 % of the time among a collection of 592 isolates. Our findings represent isolates from diverse lineages based on phylogenetic analyses, and these strong correlations are comparable to those from studies of several human pathogens such as Staphylococcus aureus and Salmonella enterica. We uncovered some important findings, including that 32.3 % of isolates had the mecA gene, which correlated with oxacillin resistance 97.0 % of the time. We also identified a novel rpoB mutation likely encoding rifampin resistance. These results show the value in using WGS to assess antimicrobial resistance in veterinary pathogens and to reveal putative new mechanisms of resistance.
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Affiliation(s)
- Gregory H Tyson
- U.S. Food and Drug Administration, Center for Veterinary Medicine, Office of Research, United States.
| | - Olgica Ceric
- U.S. Food and Drug Administration, Center for Veterinary Medicine, Office of Research, United States
| | - Jake Guag
- U.S. Food and Drug Administration, Center for Veterinary Medicine, Office of Research, United States
| | - Sarah Nemser
- U.S. Food and Drug Administration, Center for Veterinary Medicine, Office of Research, United States
| | - Stacey Borenstein
- U.S. Food and Drug Administration, Center for Veterinary Medicine, Office of Research, United States
| | - Durda Slavic
- University of Guelph - Animal Health Laboratory, Canada
| | - Sarah Lippert
- University of Guelph - Animal Health Laboratory, Canada
| | | | | | - Shannon Korosec
- Manitoba Agriculture and Resource Development - Veterinary Diagnostic Services, Canada
| | - Cheryl Friday
- Manitoba Agriculture and Resource Development - Veterinary Diagnostic Services, Canada
| | - Neil Pople
- Manitoba Agriculture and Resource Development - Veterinary Diagnostic Services, Canada
| | - Matthew E Saab
- Diagnostic Services, Atlantic Veterinary College, University of Prince Edward Island, Canada
| | | | - Isabelle Janelle
- Complexe de diagnostic et d'épidémiosurveillance vétérinaires du Québec, Canada
| | - Deanna McMillan
- University of Saskatchewan - Prairie Diagnostic Services Inc, Canada
| | | | - David Simon
- Bronson Animal Disease Diagnostic Laboratory, United States
| | - Shipra Mohan
- Bronson Animal Disease Diagnostic Laboratory, United States
| | - Susan Sanchez
- Athens Veterinary Diagnostic Laboratory, College of Veterinary Medicine, The University of Georgia, United States
| | - Ashley Phillips
- Athens Veterinary Diagnostic Laboratory, College of Veterinary Medicine, The University of Georgia, United States
| | - Paula Bartlett
- Athens Veterinary Diagnostic Laboratory, College of Veterinary Medicine, The University of Georgia, United States
| | - Hemant Naikare
- University of Georgia - Tifton Veterinary Diagnostic & Investigational Laboratory, United States
| | - Cynthia Watson
- University of Georgia - Tifton Veterinary Diagnostic & Investigational Laboratory, United States
| | | | | | - Leyi Wang
- University of Illinois Veterinary Diagnostic Laboratory - College of Veterinary Medicine, United States
| | - Carol Maddox
- University of Illinois Veterinary Diagnostic Laboratory - College of Veterinary Medicine, United States
| | - Vanessa DeShambo
- University of Illinois Veterinary Diagnostic Laboratory - College of Veterinary Medicine, United States
| | | | - Debra Lubelski
- Indiana Animal Disease Diagnostic Laboratory, United States
| | | | | | - Debbie Reed
- Murray State University Breathitt Veterinary Center, United States
| | - Tracie Jenkins
- Murray State University Breathitt Veterinary Center, United States
| | | | | | | | | | - Laura Peak
- Louisiana State University, United States
| | | | | | | | - Karen Olsen
- University of Minnesota Veterinary Diagnostic Lab, United States
| | - Shuping Zhang
- University of Missouri Veterinary Medical Diagnostic Laboratory, United States
| | - Zhenyu Shen
- University of Missouri Veterinary Medical Diagnostic Laboratory, United States
| | - Martha Pulido Landinez
- Mississippi State University, Veterinary Research and Diagnostic Lab System, United States
| | - Jay Kay Thornton
- Mississippi State University, Veterinary Research and Diagnostic Lab System, United States
| | - Anil Thachil
- North Carolina Veterinary Diagnostic Lab System, United States
| | | | - Megan Jacob
- North Carolina State University, United States
| | - Darlene Krogh
- North Dakota State University Veterinary Diagnostic Laboratory, United States
| | - Brett Webb
- North Dakota State University Veterinary Diagnostic Laboratory, United States
| | - Lynn Schaan
- North Dakota State University Veterinary Diagnostic Laboratory, United States
| | - Amar Patil
- New Jersey Department of Agriculture, Animal Health Diagnostic Laboratory, United States
| | - Sarmila Dasgupta
- New Jersey Department of Agriculture, Animal Health Diagnostic Laboratory, United States
| | - Shannon Mann
- New Jersey Department of Agriculture, Animal Health Diagnostic Laboratory, United States
| | - Laura B Goodman
- Cornell University, College of Veterinary Medicine, United States
| | | | - Renee R Anderson
- Cornell University, College of Veterinary Medicine, United States
| | | | - Brittany D Cronk
- Cornell University, College of Veterinary Medicine, United States
| | - Missy Aprea
- Cornell University, College of Veterinary Medicine, United States
| | - Jing Cui
- Ohio Animal Disease Diagnostic Lab, United States
| | | | | | - Yan Zhang
- Ohio Animal Disease Diagnostic Lab, United States
| | | | - Dubra Diaz Campos
- Department of Veterinary Clinical Sciences, College of Veterinary Medicine, The Ohio State University, United States
| | - Joany Van Balen Rubio
- Department of Veterinary Clinical Sciences, College of Veterinary Medicine, The Ohio State University, United States
| | - Akhilesh Ramanchandran
- Oklahoma Animal Disease Diagnostic Laboraotry, College of Veterinary Medicine, Oklahoma State University, United States
| | - Scott Talent
- Oklahoma Animal Disease Diagnostic Laboraotry, College of Veterinary Medicine, Oklahoma State University, United States
| | - Deepanker Tewari
- PA Veterinary Laboratory, Pennsylvania Department of Agriculture, United States
| | | | - Donna Kelly
- University of Pennsylvania, New Bolton Center, United States
| | - Denise Barnhart
- University of Pennsylvania, New Bolton Center, United States
| | - Lacey Hall
- University of Pennsylvania, New Bolton Center, United States
| | - Shelley Rankin
- University of Pennsylvania, Ryan Veterinary Hospital, United States
| | - Jaclyn Dietrich
- University of Pennsylvania, Ryan Veterinary Hospital, United States
| | - Stephen Cole
- University of Pennsylvania, Ryan Veterinary Hospital, United States
| | - Joy Scaria
- Animal Disease Research and Diagnostic Laboratory, South Dakota State University, United States
| | - Linto Antony
- Animal Disease Research and Diagnostic Laboratory, South Dakota State University, United States
| | - Sara D Lawhon
- Texas A&M University, College of Veterinary Medicine & Biomedical Sciences, Department of Veterinary Pathobiology, United States
| | - Jing Wu
- Texas A&M University, College of Veterinary Medicine & Biomedical Sciences, Department of Veterinary Pathobiology, United States
| | - Christine McCoy
- Virginia Department of Agriculture and Consumer Services- Lynchburg Regional Animal Health Laboratory, United States
| | - Kelly Dietz
- Virginia Department of Agriculture and Consumer Services- Lynchburg Regional Animal Health Laboratory, United States
| | | | | | | | - Renate Reimschuessel
- U.S. Food and Drug Administration, Center for Veterinary Medicine, Office of Research, United States
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Cole SD, Peak L, Tyson GH, Reimschuessel R, Ceric O, Rankin SC. New Delhi Metallo-β-Lactamase-5-Producing Escherichia coli in Companion Animals, United States. Emerg Infect Dis 2021; 26:381-383. [PMID: 31961309 PMCID: PMC6986821 DOI: 10.3201/eid2602.191221] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
We report isolation of a New Delhi metallo-β-lactamase-5-producing carbapenem-resistant Escherichia coli sequence type 167 from companion animals in the United States. Reports of carbapenem-resistant Enterobacteriaceae in companion animals are rare. We describe a unique cluster of blaNDM-5-producing E. coli in a veterinary hospital.
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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; 15:130. [PMID: 31060608 PMCID: PMC6501310 DOI: 10.1186/s12917-019-1864-2] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Accepted: 04/05/2019] [Indexed: 01/16/2023] Open
Abstract
BACKGROUND Antimicrobial resistance (AMR) of bacterial pathogens is an emerging public health threat. This threat extends to pets as it also compromises our ability to treat their infections. Surveillance programs in the United States have traditionally focused on collecting data from food animals, foods, and people. The Veterinary Laboratory Investigation and Response Network (Vet-LIRN), a national network of 45 veterinary diagnostic laboratories, tested the antimicrobial susceptibility of clinically relevant bacterial isolates from animals, with companion animal species represented for the first time in a monitoring program. During 2017, we systematically collected and tested 1968 isolates. To identify genetic determinants associated with AMR and the potential genetic relatedness of animal and human strains, whole genome sequencing (WGS) was performed on 192 isolates: 69 Salmonella enterica (all animal sources), 63 Escherichia coli (dogs), and 60 Staphylococcus pseudintermedius (dogs). RESULTS We found that most Salmonella isolates (46/69, 67%) had no known resistance genes. Several isolates from both food and companion animals, however, showed genetic relatedness to isolates from humans. For pathogenic E. coli, no resistance genes were identified in 60% (38/63) of the isolates. Diverse resistance patterns were observed, and one of the isolates had predicted resistance to fluoroquinolones and cephalosporins, important antibiotics in human and veterinary medicine. For S. pseudintermedius, we observed a bimodal distribution of resistance genes, with some isolates having a diverse array of resistance mechanisms, including the mecA gene (19/60, 32%). CONCLUSION The findings from this study highlight the critical importance of veterinary diagnostic laboratory data as part of any national antimicrobial resistance surveillance program. The finding of some highly resistant bacteria from companion animals, and the observation of isolates related to those isolated from humans demonstrates the public health significance of incorporating companion animal data into surveillance systems. Vet-LIRN will continue to build the infrastructure to collect the data necessary to perform surveillance of resistant bacteria as part of fulfilling its mission to advance human and animal health. A One Health approach to AMR surveillance programs is crucial and must include data from humans, animals, and environmental sources to be effective.
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Affiliation(s)
- Olgica Ceric
- Veterinary Laboratory Investigation and Response Network (Vet-LIRN), Center for Veterinary Medicine, United States Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, 20708, USA.
| | - Gregory H Tyson
- Veterinary Laboratory Investigation and Response Network (Vet-LIRN), Center for Veterinary Medicine, United States Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, 20708, USA
| | - Laura B Goodman
- Population Medicine & Diagnostic Sciences, Cornell University, Ithaca, New York, USA
| | - Patrick K Mitchell
- Population Medicine & Diagnostic Sciences, Cornell University, Ithaca, New York, USA
| | - Yan Zhang
- Ohio Department of Agriculture, Ohio Animal Disease Diagnostic Laboratory, Reynoldsburg, OH, USA
| | - Melanie Prarat
- Ohio Department of Agriculture, Ohio Animal Disease Diagnostic Laboratory, Reynoldsburg, OH, USA
| | - Jing Cui
- Ohio Department of Agriculture, Ohio Animal Disease Diagnostic Laboratory, Reynoldsburg, OH, USA
| | - Laura Peak
- School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA, USA
| | - Joy Scaria
- Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, USA
| | - Linto Antony
- Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, USA
| | - Milton Thomas
- Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, USA
| | - Sarah M Nemser
- Veterinary Laboratory Investigation and Response Network (Vet-LIRN), Center for Veterinary Medicine, United States Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, 20708, USA
| | - Renee Anderson
- Population Medicine & Diagnostic Sciences, Cornell University, Ithaca, New York, USA
| | - Anil J Thachil
- Population Medicine & Diagnostic Sciences, Cornell University, Ithaca, New York, USA
| | | | - Durda Slavic
- Animal Health Laboratory, University of Guelph, Guelph, Canada
| | - Yugendar R Bommineni
- Florida Department of Agriculture and Consumer Services, Bronson Animal Disease Diagnostic Laboratory, Kissimmee, FL, USA
| | - Shipra Mohan
- Florida Department of Agriculture and Consumer Services, Bronson Animal Disease Diagnostic Laboratory, Kissimmee, FL, USA
| | - Susan Sanchez
- Athens Veterinary Diagnostic Laboratory, Department of Infectious Diseases, College of Veterinary Medicine, The University of Georgia, Athens, GA, USA
| | - Rebecca Wilkes
- Tifton Veterinary Diagnostic and Investigational Laboratory, The University of Georgia, Tifton, GA, USA
| | - Orhan Sahin
- Department of Veterinary Diagnostic and Production Animal Medicine, Iowa State University, Ames, IA, USA
| | - G Kenitra Hendrix
- Animal Disease Diagnostic Laboratory, Purdue University, West Lafayette, IN, USA
| | - Brian Lubbers
- Veterinary Diagnostic Laboratory, Kansas State University, Manhattan, KS, USA
| | - Deborah Reed
- Breathitt Veterinary Center, Murray State University, Murray, KY, USA
| | - Tracie Jenkins
- Breathitt Veterinary Center, Murray State University, Murray, KY, USA
| | - Alma Roy
- School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA, USA
| | - Daniel Paulsen
- School of Veterinary Medicine, Louisiana State University, Baton Rouge, LA, USA
| | - Rinosh Mani
- Veterinary Diagnostic Laboratory, Michigan State University, East Lansing, MI, USA
| | - Karen Olsen
- Veterinary Diagnostic Laboratory, University of Minnesota, St. Paul, MN, USA
| | - Lanny Pace
- Veterinary Research and Diagnostic Lab System, Mississippi State University, Starkville, MS, USA
| | - Martha Pulido
- Veterinary Research and Diagnostic Lab System, Mississippi State University, Starkville, MS, USA
| | - Megan Jacob
- North Carolina State University College of Veterinary Medicine, Raleigh, NC, USA
| | - Brett T Webb
- Veterinary Diagnostic Laboratory, North Dakota State University, Fargo, ND, USA
| | - Sarmila Dasgupta
- New Jersey Department of Agriculture, Animal Health Diagnostic Laboratory, Ewing Township, NJ, USA
| | - Amar Patil
- New Jersey Department of Agriculture, Animal Health Diagnostic Laboratory, Ewing Township, NJ, USA
| | - Akhilesh Ramachandran
- Oklahoma Animal Disease Diagnostic Laboratory, Oklahoma State University, Stillwater, OK, USA
| | - Deepanker Tewari
- Pennsylvania Department of Agriculture, Pennsylvania Veterinary Laboratory, Harrisburg, PA, USA
| | - Nagaraja Thirumalapura
- Pennsylvania Department of Agriculture, Pennsylvania Veterinary Laboratory, Harrisburg, PA, USA
| | - Donna J Kelly
- Pennsylvania Animal Diagnostic Laboratory, New Bolton Center, University of Pennsylvania, Kenneth Square, PA, USA
| | - Shelley C Rankin
- School of Veterinary Medicine, The Ryan Veterinary Hospital Clinical Microbiology Laboratory, University of Pennsylvania, Philadelphia, PA, USA
| | | | - Jing Wu
- Texas A&M University, College Station, TX, USA
| | - Claire R Burbick
- College of Veterinary Medicine, Washington Animal Disease Diagnostic Laboratory, Washington State University, Pullman, WA, USA
| | - Renate Reimschuessel
- Veterinary Laboratory Investigation and Response Network (Vet-LIRN), Center for Veterinary Medicine, United States Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, 20708, USA
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Batusov Y, Bunyatov S, Kuznetsov O, Lyukov V, Tretyak V, Egorov O, Goritchev P, Kolganova E, Makhlyueva I, Pozharova E, Shamanov V, Smirnitsky V, Ammosov V, Baranov V, Gapienko V, Klukhin V, Koreshev V, Pitukhin P, Sirotenko V, Jurak A, Olszewski A, Wilczynska B, Wilczynski H, Wolter W, Wosiek B, Tchernev H, Ivanova M, Smart W, Voyvodic L, Rubin H, Ammar R, Coppage D, Davis R, Grees J, Kwak N, Riemer R, Stump R, Burnett T, Krzywdzinski S, Lord J, Rosenbladt R, Wilkes R, Bakich A, Peak L. Neutrino production of charmed particles in a hybrid experiment E-564. ACTA ACUST UNITED AC 1990. [DOI: 10.1007/bf01556268] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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