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Milton AAP, Das S, Momin KM, Prasad MCB, Khan S, Priya GB, Ghatak S, Sen A, Baruah KK. Development of a novel sensitive single-tube nested PCR assay for the detection of African swine fever virus. Arch Virol 2024; 169:107. [PMID: 38647708 DOI: 10.1007/s00705-024-06037-z] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2023] [Accepted: 02/26/2024] [Indexed: 04/25/2024]
Abstract
African swine fever (ASF) is a highly fatal and contagious viral disease caused by African swine fever virus (ASFV). It has caused significant economic losses to the swine industry and poses a serious threat to food security worldwide. Diagnostic tests with high sensitivity are essential for the effective management of ASF. Here, we describe a single-tube nested PCR (STN-PCR) assay for the detection of ASFV in which two consecutive amplification steps are carried out within a single tube. Two pairs of primers (outer and inner) were designed to target the p72 gene of ASFV. The primer concentrations, annealing temperatures, and number of amplification cycles were optimized to ensure the consecutive utilization of outer and inner primer pairs during amplification while minimizing the likelihood of amplicon contamination. In comparison with two conventional endpoint PCR assays (one of which is recommended by the World Organization for Animal Health), the newly developed STN-PCR assay demonstrated a 100-fold improvement in the limit of detection (LOD), detecting 100 copies of ASFV genomic DNA, whereas the endpoint PCR assays could detect no fewer than 10,000 copies. The clinical performance of the STN-PCR assay was validated using 95 tissue samples suspected of being positive for ASFV, and the assay showed 100% specificity. A Cohen's kappa value of 0.91 indicated perfect agreement between the assays. This new STN-PCR assay is a potentially valuable tool that will facilitate the control of ASF.
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Affiliation(s)
| | - Samir Das
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | | | - M C B Prasad
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Sabia Khan
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G Bhuvana Priya
- College of Agriculture (CAU, Imphal), Kyrdemkulai, Meghalaya, India
| | - Sandeep Ghatak
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Arnab Sen
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K K Baruah
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Das S, Ghatak S, Srinivas K, Priya GB, Angappan M, Prasad MCB, Wahlang L, Sailo B, Lalhruaipuii L, Singh M, Garam GB, Sen A. Seroepidemological investigation of Toxoplasma gondii and Trichinella spp. in pigs reared by tribal communities and small-holder livestock farmers in Northeastern India. PLoS One 2024; 19:e0298357. [PMID: 38377066 PMCID: PMC10878514 DOI: 10.1371/journal.pone.0298357] [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: 11/06/2023] [Accepted: 01/22/2024] [Indexed: 02/22/2024] Open
Abstract
Toxoplasma gondii and Trichinella spp. are critical tissue-dwelling foodborne zoonotic parasites associated with pork consumption and pig rearing. Despite being a major pig-rearing region in the country, Northeastern India has not undergone any investigation regarding the presence of T. gondii and Trichinella spp. in pigs. Therefore, this study aims to determine the seroprevalence of T. gondii and Trichinella spp. and identify associated risk factors in pigs reared by tribal communities and small-holder livestock farmers in the northeastern region of India. In a cross-sectional serological survey, 400 pigs from 400 households across five northeastern states of India underwent testing for the seroprevalence of porcine toxoplasmosis and trichinellosis. Serum samples (80 from each state) were analyzed using commercially available ELISA assays. Data on backyard farm characteristics and various management aspects were collected, and risk factors linked with prevalence were analyzed through univariate and multivariate logistic regression analysis. The findings revealed that the apparent and true prevalence of anti-T. gondii antibodies were 45% (40.12-49.88, 95% CI) and 45.7% (40.7-50.69, 95% CI), respectively. As for anti- Trichinella antibodies, both the apparent and true prevalence were 0.75% (-0.1-1.6, 95% CI). The univariate and multivariate analyses indicated that age above 24 months (OR 7.20, 95% CI 2.45-23.71), exposure to cats (OR = 5.87, 95% CI 2.55-14.05), and farms operating for breeding purposes (OR = 5.60, 95% CI 3.01-11.04) were significant risk factors associated with the seroprevalence of T. gondii. This study marks the initial documentation of the seroprevalence of T. gondii and Trichinella spp. in pigs reared by tribal communities in Northeastern India. The results emphasize the significance of these parasites as foodborne zoonotic threats in the region, potentially posing substantial public health risks, especially within tribal and rural communities. The insights derived from this research could be valuable in formulating targeted preventive and control strategies against T. gondii and Trichinella spp. in pigs, not only in this region but also in areas with similar rearing practices.
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Affiliation(s)
- A. A. P. Milton
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Samir Das
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - S. Ghatak
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K. Srinivas
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G. Bhuvana Priya
- College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - M. Angappan
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - M. C. B. Prasad
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - L. Wahlang
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Blessa Sailo
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | | | - Mahak Singh
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G. B. Garam
- Department of Animal Husbandry, Veterinary & Dairy Development, Nirjuli, Arunachal Pradesh, India
| | - A. Sen
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Das S, Ghatak S, Srinivas K, Angappan M, Prasad MCB, Wahlang L, Priya GB, Khan S, Sailo B, Lalhruaipuii, Singh M, Garam GB, Sen A. First Seroepidemiological Investigation of Hepatitis E Virus Infection in Backyard Pigs from Northeastern India: Prevalence and Associated Risk Factors. Food Environ Virol 2023; 15:307-317. [PMID: 37682460 DOI: 10.1007/s12560-023-09564-1] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/01/2023] [Accepted: 08/23/2023] [Indexed: 09/09/2023]
Abstract
Hepatitis E virus (HEV) is the leading cause of acute viral hepatitis globally, with zoonotic potential, and pigs are considered the major reservoir. To determine the seroprevalence of HEV infection in pigs reared in backyard conditions in the northeastern region of India, blood samples were collected from 400 pigs from five northeastern states (80 samples from each state) and tested for IgG antibodies against HEV using an ELISA assay. Questionnaires on farm characteristics and management practices were completed, and risk factors associated with HEV were studied using univariate and multivariate analysis. The apparent seroprevalence of HEV infection was 51% (46.1-55.9, 95% CI), with a true prevalence of 52.98% (47.22-58.75, 95% CI). The risk factors significantly associated with higher HEV seropositivity were as follows: lack of disinfection (OR 4.65), feeding swill (restaurant and bakery waste) (OR 2.55), failure to follow the all-in-all-out production system (OR 3.47), and medium holding size (OR 9.83), which refers to mixed rearing of younger and older age groups. This study demonstrates that HEV is widespread among pigs reared in northeastern India. The risk factor analysis conducted in this study provides valuable insights into the prevalence of HEV in the region.
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Affiliation(s)
- A A P Milton
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.
| | - Samir Das
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - S Ghatak
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K Srinivas
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - M Angappan
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - M C B Prasad
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - L Wahlang
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G Bhuvana Priya
- College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - Sabia Khan
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Blessa Sailo
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Lalhruaipuii
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Mahak Singh
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G B Garam
- Department of Animal Husbandry, Veterinary & Dairy Development, Nirjuli, Arunachal Pradesh, India
| | - A Sen
- ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Prasad MCB, Priya GB, Momin KM, Lyngdoh V, Srinivas K, Das S, Ghatak S. Novel helix loop-mediated isothermal amplification (HAMP) assay for colorimetric detection of Staphylococcus aureus in milk. World J Microbiol Biotechnol 2023; 40:14. [PMID: 37966568 DOI: 10.1007/s11274-023-03838-3] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Accepted: 11/12/2023] [Indexed: 11/16/2023]
Abstract
Staphylococcus aureus is an important and leading cause of foodborne diseases worldwide. Prompt detection and recall of contaminated foods are crucial to prevent untoward health consequences caused by S. aureus. Helix loop-mediated isothermal amplification (HAMP) is an exciting recent addition to the array of available isothermal-based nucleic acid amplification techniques. This study aimed to develop and evaluate a HAMP assay for detecting S. aureus in milk and milk products. The assay is completed in 75 minutes of isothermal temperature incubation (64 ˚C) and dye-based visual interpretation of results based on colour change. The specificity of the developed assay was ascertained using 27 S. aureus and 17 non S. aureus bacterial strains. The analytical sensitivity of the developed HAMP assay was 9.7 fg/µL of pure S. aureus DNA. The detection limit of the HAMP assay in milk (86 CFU/mL) was 1000x greater than the routinely used endpoint PCR (86 × 103 CFU/mL). The practicality of applying the HAMP assay was also assessed by analysing milk and milk product samples (n = 95) obtained from different dairy farms and retail outlets. The developed test is a more rapid, sensitive, and user-friendly method for the high-throughput screening of S. aureus in food samples and may therefore be suitable for field laboratories. To our knowledge, this is the first study to develop and evaluate the HAMP platform for detecting S. aureus.
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Affiliation(s)
- A Arun Prince Milton
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.
| | - M C B Prasad
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G Bhuvana Priya
- College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India.
| | - K M Momin
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Vanita Lyngdoh
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K Srinivas
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Samir Das
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Sandeep Ghatak
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Srinivas K, Lyngdoh V, Momin AG, Lapang N, Priya GB, Ghatak S, Sanjukta R, Sen A, Das S. Biofilm-forming antimicrobial-resistant pathogenic Escherichia coli: A one health challenge in Northeast India. Heliyon 2023; 9:e20059. [PMID: 37809422 PMCID: PMC10559811 DOI: 10.1016/j.heliyon.2023.e20059] [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] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2023] [Revised: 08/25/2023] [Accepted: 09/10/2023] [Indexed: 10/10/2023] Open
Abstract
This study aimed to investigate the prevalence of Shiga toxin-producing Escherichia coli (STEC), Enteropathogenic E. coli (EPEC), and Enterotoxigenic E. coli (ETEC) in common food animals (cattle, goats, and pigs) reared by tribal communities and smallholder farmers in Northeast India. The isolates were characterized for the presence of virulence genes, extended-spectrum beta-lactamases (ESBL) production, antimicrobial resistance, and biofilm production, and the results were statistically interpreted. In pathotyping 141 E. coli isolates, 10 (7.09%, 95% CI: 3.45%-12.66%) were identified as STEC, 2 (1.42%, 95% CI: 0.17%-5.03%) as atypical-EPEC, and 1 (0.71%, 95% CI: 0.02%-3.89%) as typical-EPEC. None of the isolates were classified as ETEC. Additionally, using the phenotypic combination disc method (ceftazidime with and without clavulanic acid), six isolates (46.1%, 95% CI: 19.22%-74.87%) were determined to be ESBL producers. Among the STEC/EPEC strains, eleven (84.6%, 95% CI: 54.55%-98.08%) and one (7.7%, 95% CI: 0.19%-36.03%) strains were capable of producing strong or moderate biofilms, respectively. PFGE analysis revealed indistinguishable patterns for certain isolates, suggesting clonal relationships. These findings highlight the potential role of food animals reared by tribal communities and smallholder farmers as reservoirs of virulent biofilm-forming E. coli pathotypes, with implications for food contamination and zoonotic infections. Therefore, monitoring these pathogens in food animals is crucial for optimizing public health through one health strategy.
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Affiliation(s)
- A. Arun Prince Milton
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - K. Srinivas
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - Vanita Lyngdoh
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - Aleimo G. Momin
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - Naphisabet Lapang
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - G. Bhuvana Priya
- College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - Sandeep Ghatak
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - R.K. Sanjukta
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - Arnab Sen
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
| | - Samir Das
- Division of Animal and Fisheries Sciences, ICAR Research Complex for Northeastern Hill Region, Umiam, Meghalaya, India
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Milton AAP, Momin KM, Srinivas K, Priya GB, Ghatak S, Das S, Shakuntala I, Sen A, Baruah KK. Development of a novel visual isothermal amplification assay for rapid detection of Brucella spp. J Microbiol Methods 2023; 207:106695. [PMID: 36889600 DOI: 10.1016/j.mimet.2023.106695] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2022] [Revised: 03/03/2023] [Accepted: 03/03/2023] [Indexed: 03/08/2023]
Abstract
Brucellosis is an economically important livestock disease worldwide besides having a noteworthy impact on human health. In this study, a rapid, simple, and ultra-sensitive nuclei-acid diagnostic technique was developed for the detection of brucellosis harnessing saltatory rolling circle amplification (SRCA). The diagnostic method was developed using World Organization for Animal Health (WOAH) approved primers targeting the bcsp31 gene of the Brucella genome. The assay can be accomplished within 90 min at a temperature of 65 °C without the requirement of sophisticated instrumentation. The result interpretation can be done with the naked eye with the aid of SYBR green dye. The developed technique displayed 100% specificity by amplifying only 10 reference and field strains of Brucella spp. and there was no cross-reactivity with the other tested pathogens. The lower limit of detections of SRCA and end-point PCR assays were 9.7 fg/μL (2.7 genome copies of Brucella) and 970 fg/μL, respectively. Thus, the developed SRCA assay was found to be 100× more sensitive than the end-point PCR assay. To the best of our knowledge, our study is the first one to develop an SRCA-based assay for the detection of brucellosis and it can be a diagnostic tool for resource-constrained laboratories and veterinary hospitals.
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Affiliation(s)
- A Arun Prince Milton
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.
| | - K M Momin
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K Srinivas
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G Bhuvana Priya
- College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - Sandeep Ghatak
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.
| | - Samir Das
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - I Shakuntala
- College of Veterinary Science and Animal Husbandry, Central Agricultural University (Imphal), Jalukie, Nagaland, India
| | - Arnab Sen
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K K Baruah
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Prince Milton AA, Momin AG, Gandhale PN, Das S, Ghatak S, Priya GB, Firake DM, Srinivas K, Momin KM, Hussain Z, Sen A. Prevalence, toxinotyping, antimicrobial susceptibility and biofilm-forming ability of Clostridium perfringens isolated from free-living rodents and shrews. Anaerobe 2022; 77:102618. [PMID: 35933078 DOI: 10.1016/j.anaerobe.2022.102618] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Revised: 07/04/2022] [Accepted: 07/23/2022] [Indexed: 11/01/2022]
Abstract
BACKGROUND AND OBJECTIVES Clostridium perfringens (C. perfringens), is a spore-forming and toxin-producing pathogenic anaerobic Gram-positive rod-shaped bacterium with immense public health/zoonotic concern. Rodents are well-known reservoirs and vectors for a large number of zoonoses and strong links have been recognized between synanthropic rodents and foodborne disease outbreaks throughout the world. To date, no study has been conducted for studying the prevalence of C. perfringens in rodents and shrews. In this study, we investigated faecal samples from free-living rodents and shrews trapped in Meghalaya, a North-eastern hill state of India for the presence of virulent and antimicrobial-resistant C. perfringens. METHODS A total of 122 animals comprising six species of rodents and one species of shrews were trapped: Mus musculus (n = 15), Mus booduga (n = 7), Rattus rattus (n = 9), Rattus norvegicus (n = 3), Bandicota indica (n = 30), Bandicota bengalensis (n = 32) and Suncus murinus (n = 26). The faecal swabs were collected and processed for the isolation of C. perfringens. Toxinotyping was done using PCR. Antimicrobial susceptibility testing and biofilm forming ability testing were done using Kirby Bauer disc diffusion method and crystal violet assay. RESULTS C. perfringens was isolated from 27 of the 122 faecal swabs (22.1%), from six species of rodents and shrews. Five of the host species were rodents, Bandicota bengalensis (25%), Bandicota indica (16.7%), Rattus norvegicus (33.3%), Mus musculus (13.3%), Mus booduga (42.8%) and Suncus murinus (29.6%). The common toxinotype was type A (59.2%) followed by Type A with beta2 toxin (33.3%), Type C (3.7%) and Type C with beta2 toxin (3.7%). None of the isolates harboured cpe, etx, iap, and NetB genes and therefore none was typed as either B, D, E, F, or G. Nine isolates (33.3%) turned out to be multi-drug resistant (MDR), displaying resistance to three or more categories of antibiotics tested. Twenty-three out of twenty-seven isolates (85.2%) were forming biofilms. CONCLUSION Globally, this is the first study to report the prevalence of C. perfringens and its virulence profile and antimicrobial resistance in free-living rodents and shrews. The rodents and shrews can potentially contaminate the food and environment and can infect humans and livestock with multi-drug resistant/virulent Type A and Type C C. perfringens.
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Affiliation(s)
| | - Aleimo G Momin
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | | | - Samir Das
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.
| | - Sandeep Ghatak
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G Bhuvana Priya
- College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - Dnyaneshwar Madhukar Firake
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India; ICAR-Directorate of Floricultural Research, Pune, Maharashtra, India
| | - Kandhan Srinivas
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Kasanchi M Momin
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Zakir Hussain
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Arnab Sen
- Division of Animal and Fisheries Sciences, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Momin KM, Priya GB, Das S, Angappan M, Sen A, Sinha D, Ghatak S. Novel saltatory rolling circle amplification assay for rapid and visual detection of Campylobacter jejuni in chicken meat. Lebensm Wiss Technol 2021. [DOI: 10.1016/j.lwt.2021.111807] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Milton AAP, Momin KM, Priya GB, Ghatak S, Das S, Gandhale PN, Angappan M, Sen A. Development of novel visual detection methodology for Salmonella in meat using saltatory rolling circle amplification. J Appl Microbiol 2021; 131:2361-2371. [PMID: 33811443 DOI: 10.1111/jam.15099] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2020] [Revised: 02/06/2021] [Accepted: 03/28/2021] [Indexed: 12/12/2022]
Abstract
AIM The aim of this study was to develop a saltatory rolling circle amplification (SRCA) assay for rapid, simple and visual detection of Salmonella in meat. METHODS AND RESULTS Saltatory rolling circle amplification assay was established using simple PCR primers targeting the invA gene of Salmonella enterica. The specificity of the SRCA assay was determined using 28 Salmonella and 15 non-Salmonella strains. The analytical sensitivity of the developed SRCA, conventional and real-time PCR assays were 70 fg, 7 pg and 700 fg S. enterica DNA per tube, respectively. The limit of detection (LoD) of the SRCA assay was 40 CFU per gram of meat without enrichment and 4 CFU per gram after including 6 h brief enrichment step. The detection limits of 40 CFU per gram and 4 CFU per gram of meat were achieved within 165 min and 9 h, respectively (including DNA extraction). To assess the real-world relevance of the SRCA assay, it was used to screen Salmonella from the field pork samples (n = 82). The same samples were also tested with culture (ISO 6579: 2002) method, conventional and real-time PCR assays. Using the developed assay with 6-h enrichment step, it could give accurate results as that of the culture method. CONCLUSIONS The results of this study showed that the SRCA assay is a rapid, simple, sophisticated equipment-free and user-friendly method for accurate detection of Salmonella in meat foods. To our information, this is the first study to deploy SRCA assay for screening foods for Salmonella. SIGNIFICANCE AND IMPACT OF THE STUDY The developed SRCA assay is cost-effective, easy-to-perform and equipment-free; therefore, it has the potential to replace other molecular detection methods for regular screening of Salmonella in foods in field laboratories.
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Affiliation(s)
- A A P Milton
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K M Momin
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G B Priya
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.,College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - S Ghatak
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - S Das
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - P N Gandhale
- ICAR-National Institute of High Security Animal Diseases, Bhopal, Madhya Pradesh, India
| | - M Angappan
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - A Sen
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Momin KM, Ghatak S, Priya GB, Angappan M, Das S, Puro K, Sanjukta RK, Shakuntala I, Sen A, Kandpal BK. Erratum to "Development of a novel polymerase spiral reaction (PSR) assay for rapid and visual detection of Clostridium perfringens in meat" [Heliyon 7 (1) (January 2021) Article e05941]. Heliyon 2021; 7:e06332. [PMID: 33748454 PMCID: PMC7969901 DOI: 10.1016/j.heliyon.2021.e06332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Accepted: 02/17/2021] [Indexed: 11/13/2022] Open
Affiliation(s)
- A Arun Prince Milton
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Kasanchi M Momin
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Sandeep Ghatak
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - G Bhuvana Priya
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India.,College of Agriculture, Central Agricultural University (Imphal), Kyrdemkulai, Meghalaya, India
| | - M Angappan
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - Samir Das
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - K Puro
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - R K Sanjukta
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - I Shakuntala
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - A Sen
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
| | - B K Kandpal
- Division of Animal Health, ICAR Research Complex for NEH Region, Umiam, Meghalaya, India
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Milton AAP, Momin KM, Ghatak S, Thomas SC, Priya GB, Angappan M, Das S, Sanjukta R, Puro K, Shakuntala I, Sen A, Kandpal B. Development of a novel polymerase spiral reaction (PSR) assay for rapid and visual detection of Staphylococcus aureus in meat. Lebensm Wiss Technol 2021. [DOI: 10.1016/j.lwt.2020.110507] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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Priya GB, Agrawal RK, Prince Milton AA, Mishra M, Mendiratta S, Luke A, Inbaraj S, Singh BR, Kumar D, Kumar GR, Rajkhowa S. Rapid and visual detection of Salmonella in meat using invasin A (invA) gene-based loop-mediated isothermal amplification assay. Lebensm Wiss Technol 2020. [DOI: 10.1016/j.lwt.2020.109262] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Priya GB, Nagaleekar VK, Milton AAP, Saminathan M, Kumar A, Sahoo AR, Wani SA, Kumar A, Gupta SK, Sahoo AP, Tiwari AK, Agarwal RK, Gandham RK. Genome wide host gene expression analysis in mice experimentally infected with Pasteurella multocida. PLoS One 2017; 12:e0179420. [PMID: 28704394 PMCID: PMC5509158 DOI: 10.1371/journal.pone.0179420] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2016] [Accepted: 05/30/2017] [Indexed: 12/25/2022] Open
Abstract
Pasteurella multocida causes acute septicemic and respiratory diseases, including haemorrhagic septicaemia, in cattle and buffalo with case fatality of 100%. In the present study, mice were infected with P. multocida (1.6 × 103 cfu, intraperitoneal) to evaluate host gene expression profile at early and late stages of infection using high throughput microarray transcriptome analyses. Several differentially expressed genes (DEGs) at both the time points were identified in P.multocida infected spleen, liver and lungs. Functional annotation of these DEGs showed enrichment of key pathways such as TLR, NF-κB, MAPK, TNF, JAK-STAT and NOD like receptor signaling pathways. Several DEGs overlapped across different KEGG pathways indicating a crosstalk between them. The predicted protein—protein interaction among these DEGs suggested, that the recognition of P. multocida LPS or outer membrane components by TLR4 and CD14, results in intracellular signaling via MyD88, IRAKs and/or TRAF6 leading to activation of NFκB and MAPK pathways and associated cytokines.
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Affiliation(s)
- G. Bhuvana Priya
- Division of Bacteriology & Mycology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Viswas Konasagara Nagaleekar
- Division of Bacteriology & Mycology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
- * E-mail: (RKG); (VKN); (RKA)
| | - A. Arun Prince Milton
- Division of Veterinary Public Health, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - M. Saminathan
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Amod Kumar
- Division of Animal Genetics, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Amit Ranjan Sahoo
- Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Sajad Ahmad Wani
- Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Amit Kumar
- Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - S. K. Gupta
- Division of Livestock and Fishery Management, ICAR Research Complex for Eastern Region (ICAR-RCER), Patna, Bihar, India
| | - Aditya P. Sahoo
- Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - A. K. Tiwari
- Division of Biological Standardization, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - R. K. Agarwal
- Division of Bacteriology & Mycology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
- * E-mail: (RKG); (VKN); (RKA)
| | - Ravi Kumar Gandham
- Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
- * E-mail: (RKG); (VKN); (RKA)
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Singh A, Prasad M, Mishra B, Manjunath S, Sahu AR, Bhuvana Priya G, Wani SA, Sahoo AP, Kumar A, Balodi S, Deora A, Saxena S, Gandham RK. Transcriptome analysis reveals common differential and global gene expression profiles in bluetongue virus serotype 16 (BTV-16) infected peripheral blood mononuclear cells (PBMCs) in sheep and goats. Genom Data 2016; 11:62-72. [PMID: 28003963 PMCID: PMC5157708 DOI: 10.1016/j.gdata.2016.12.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Revised: 11/30/2016] [Accepted: 12/07/2016] [Indexed: 11/29/2022]
Abstract
Bluetongue is an economically important infectious, arthropod borne viral disease of domestic and wild ruminants, caused by Bluetongue virus (BTV). Sheep are considered the most susceptible hosts, while cattle, buffalo and goats serve as reservoirs. The viral pathogenesis of BTV resulting in presence or absence of clinical disease among different hosts is not clearly understood. In the present study, transcriptome of sheep and goats peripheral blood mononuclear cells infected with BTV-16 was explored. The differentially expressed genes (DEGs) identified were found to be significantly enriched for immune system processes - NFκB signaling, MAPK signaling, Ras signaling, NOD signaling, RIG signaling, TNF signaling, TLR signaling, JAK-STAT signaling and VEGF signaling pathways. Greater numbers of DEGs were found to be involved in immune system processes in goats than in sheep. Interestingly, the DEHC (differentially expressed highly connected) gene network was found to be dense in goats than in sheep. Majority of the DEHC genes in the network were upregulated in goats but down-regulated in sheep. The network of differentially expressed immune genes with the other genes further confirmed these findings. Interferon stimulated genes - IFIT1 (ISG56), IFIT2 (ISG54) and IFIT3 (ISG60) responsible for antiviral state in the host were found to be upregulated in both the species. STAT2 was the TF commonly identified to co-regulate the DEGs, with its network showing genes that are downregulated in sheep but upregulated in goats. The genes dysregulated and the networks perturbed in the present study indicate host variability with a positive shift in immune response to BTV in goats than in sheep.
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Affiliation(s)
- Anjali Singh
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India; Department of Animal Biotechnology, Lala Lajpat Rai University of Veterinary & Animal Sciences, Hisar, India
| | - Minakshi Prasad
- Department of Animal Biotechnology, Lala Lajpat Rai University of Veterinary & Animal Sciences, Hisar, India
| | - Bina Mishra
- Division of Biological Products, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122
| | - Siddappa Manjunath
- Oomens Lab, Division of Veterinary Pathobiology, CVHS, OSU, Stillwater, OK, USA
| | - Amit Ranjan Sahu
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India
| | - G Bhuvana Priya
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India; Division of Bacteriology and Mycology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly UP-243122, India
| | - Sajad Ahmad Wani
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India
| | - Aditya Prasad Sahoo
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India; Molecular Biology Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India
| | - Amit Kumar
- Division of Animal Genetics, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India
| | - Shweta Balodi
- Department of Animal Biotechnology, Lala Lajpat Rai University of Veterinary & Animal Sciences, Hisar, India
| | - Anupama Deora
- Department of Animal Biotechnology, Lala Lajpat Rai University of Veterinary & Animal Sciences, Hisar, India
| | - Shikha Saxena
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India
| | - Ravi Kumar Gandham
- Computational Biology and Genomics Facility Lab, Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP-243122, India
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