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Pegu SR, Sonowal J, Rajkhowa S, Jyoti Das P, Sengar GS, Deb R, Choudhury M, Deka NJ, Paul S, Doley J, Sarma DK, Das S, Mohan NH, Thomas R, Gupta VK. Incidences of Helicobacter infection in pigs and tracing occupational hazard in pig farmers. Comp Immunol Microbiol Infect Dis 2024; 106:102128. [PMID: 38309206 DOI: 10.1016/j.cimid.2024.102128] [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: 09/07/2023] [Revised: 12/30/2023] [Accepted: 01/12/2024] [Indexed: 02/05/2024]
Abstract
Helicobacter species (spp.) is a gram-negative spiral-shaped motile bacterium that causes gastritis in pigs and also colonizes in the human stomach. The present study assessed the prevalence of Helicobacter spp. in pig gastric mucosa and the stool of pig farmers in Assam, India. A total of 403 stomach samples from pig slaughter points, 74 necropsy samples of pigs from pig farms, and 97 stool samples from pig farmers were collected. Among the pig stomach samples, 43 (20.09%) of those with gastritis showed the presence of Gram-negative, spiral-shaped organisms, while only 3.04% of stomach samples without lesions had these organisms. Scanning Electron Microscopy (SEM) of urease-positive stomach samples revealed tightly coiled Helicobacter bacteria in the mucus lining. Histopathological examination showed chronic gastritis with hemorrhagic necrosis, leucocytic infiltration, and lymphoid aggregates. PCR confirmed the presence of Helicobacter suis in 19.63% of pig stomach samples and 2.08% of pig farmer stool samples. Additionally, 3.12% of the stool samples from pig farmers were positive for Helicobacter pylori. Phylogenetic analysis revealed distinct clusters of Helicobacter suis with other Helicobacter spp. These findings highlight the prevalence of Helicobacter in both pig gastric mucosa and pig farmer stool. The findings highlight the need for improved sanitation and hygiene practices among pig farmers to minimize the risk of Helicobacter infection in humans.
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Affiliation(s)
- Seema Rani Pegu
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India.
| | - Joyshikh Sonowal
- Multidisciplinary Research Unit, Jorhat Medical College and Hospital, Jorhat 785001, Assam, India.
| | - Swaraj Rajkhowa
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Pranab Jyoti Das
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India.
| | | | - Rajib Deb
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Manjisa Choudhury
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Naba Jyoti Deka
- College of Veterinary Science, AAU, Khanapara, Guwahati 781022, Assam, India
| | - Souvik Paul
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Juwar Doley
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Dilip Kumar Sarma
- College of Veterinary Science, AAU, Khanapara, Guwahati 781022, Assam, India
| | - Samir Das
- ICAR Research Complex for NEH Region, Umiam 793103, Meghalaya, India
| | - N H Mohan
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Rajendran Thomas
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
| | - Vivek Kumar Gupta
- ICAR, National Research Centre on Pig, Rani, Guwahati 781131, Assam, India
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Deb R, Sengar GS, Sonowal J, Pegu SR, Das PJ, Singh I, Chakravarti S, Selvaradjou A, Attupurum N, Rajkhowa S, Gupta VK. Transcriptome signatures of host tissue infected with African swine fever virus reveal differential expression of associated oncogenes. Arch Virol 2024; 169:54. [PMID: 38381218 DOI: 10.1007/s00705-023-05959-4] [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: 07/12/2023] [Accepted: 11/27/2023] [Indexed: 02/22/2024]
Abstract
African swine fever (ASF) has emerged as a threat to swine production worldwide. Evasion of host immunity by ASF virus (ASFV) is well understood. However, the role of ASFV in triggering oncogenesis is still unclear. In the present study, ASFV-infected kidney tissue samples were subjected to Illumina-based transcriptome analysis. A total of 2463 upregulated and 825 downregulated genes were differentially expressed (p < 0.05). A literature review revealed that the majority of the differentially expressed host genes were key molecules in signaling pathways involved in oncogenesis. Bioinformatic analysis indicated the activation of certain oncogenic KEGG pathways, including basal cell carcinoma, breast cancer, transcriptional deregulation in cancer, and hepatocellular carcinoma. Analysis of host-virus interactions revealed that the upregulated oncogenic RELA (p65 transcription factor) protein of Sus scrofa can interact with the A238L (hypothetical protein of unknown function) of ASFV. Differential expression of oncogenes was confirmed by qRT-PCR, using the H3 histone family 3A gene (H3F3A) as an internal control to confirm the RNA-Seq data. The levels of gene expression indicated by qRT-PCR matched closely to those determined through RNA-Seq. These findings open up new possibilities for investigation of the mechanisms underlying ASFV infection and offer insights into the dynamic interaction between viral infection and oncogenic processes. However, as these investigations were conducted on pigs that died from natural ASFV infection, the role of ASFV in oncogenesis still needs to be investigated in controlled experimental studies.
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Affiliation(s)
- Rajib Deb
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India.
| | | | - Joyshikh Sonowal
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India
- Multidisciplinary Research Unit, Jorhat Medical College and Hospital, Jorhat, Assam, 785001, India
| | - Seema Rani Pegu
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India
| | - Pranab Jyoti Das
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India.
| | | | - Soumendu Chakravarti
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP, 243122, India
- Pirbright Institute, Ash Road, Pirbright, Surrey, United Kingdom
| | | | - Nitin Attupurum
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India
| | - Swaraj Rajkhowa
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India
| | - Vivek Kumar Gupta
- ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India.
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Niharika J, Thakur P, Sengar GS, Deb R, Parihar R, Sonowal J, Chaudhary P, Pegu SR, Das PJ, Rajkhowa S, Gupta VK. Whole genome sequencing-based cataloguing of antibiotic resistant genes in piggery waste borne samples. Gene 2023; 887:147786. [PMID: 37689220 DOI: 10.1016/j.gene.2023.147786] [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: 07/19/2023] [Revised: 08/25/2023] [Accepted: 09/06/2023] [Indexed: 09/11/2023]
Abstract
The growing use of antibiotics in livestock is one of the main causes of the rapid global spread of antimicrobial resistance (AMR). However, extensive research on AMR in animals is currently absent. In this article, we provide the bacterial antibiotic resistance genes (ARGs) from piggery waste samples in West Bengal, India, based on whole genome sequencing (WGS). According to the study, there are alarmingly high levels of Enterobacteriaceae in piggery waste, especially slaughterhouse waste, that are resistant to beta-lactam, aminoglycoside, sulphonamide, and tetracycline. We found several plasmids carrying multidrug-resistant Enterobacteriaceae including resistant to last-resort medications like colistin and carbapenems. Our findings will serve as a guide for developing AMR management policies for livestock in India and aid in understanding the current AMR profiles of pigs. To grasp the actual situation with AMR in the pig sector, large scale sample screening must be done.
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Affiliation(s)
- Jagana Niharika
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India; All India Institute of Hygiene and Public Health, Government of India, Kolkata, West Bengal, India
| | - Priyanka Thakur
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India; All India Institute of Hygiene and Public Health, Government of India, Kolkata, West Bengal, India
| | | | - Rajib Deb
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India.
| | - Ranjeet Parihar
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India
| | - Joyshikh Sonowal
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India
| | - Parul Chaudhary
- School of Agriculture, Graphic Era Hill University, Dehradun 248002, Uttarakhand, India
| | - Seema Rani Pegu
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India
| | - Pranab Jyoti Das
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India
| | - Swaraj Rajkhowa
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India
| | - Vivek Kumar Gupta
- ICAR-National Research Centre on Pig, Guwahati 781131, Assam, India.
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Pegu SR, Deb R, Das PJ, Sengar GS, Yadav AK, Rajkhowa S, Paul S, Gupta VK. Development of multiplex PCR assay for simultaneous detection of African swine fever, porcine circo and porcine parvo viral infection from clinical samples. Anim Biotechnol 2023; 34:1883-1890. [PMID: 35343866 DOI: 10.1080/10495398.2022.2053698] [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] [Indexed: 11/01/2022]
Abstract
A diagnostic method for simultaneously detecting and distinguishing African Swine Fever (ASF), porcine circovirus type 2 (PCV2), and porcine parvovirus (PPV) in clinical specimens is critical for differential diagnosis, monitoring, and control in the field. Three primer pairs were designed and used to create a multiplex PCR assay. In addition, 356 porcine post mortem tissue samples from various parts of India's North Eastern region were tested by the developed multiplex PCR assay to demonstrate its accuracy. Using the designed primers, each of the ASF, PCV2 and PPV target genes was amplified, but no other porcine virus genes were detected. The assay's limit of detection was 102 copies/µl of PCV2, PPV, or ASFV. The detection of PCV2, PPV, and ASF in postmortem tissue samples revealed that they are co-circulating in India's North-Eastern region. The percentage positivity (PP) for PCV2, PPV and ASF single infection were 7.02% (25/356), 3.93% (14/356), and 3.37% (12/356), respectively, while the PP for PCV2& PPV co-infection was 2.80% (10/356), ASF & PCV2 co infection was 1.4% (5/356) and the ASF, PPV& PCV2 co-infection was1.40% (5/356). The results also indicate that the ASF can infect pigs alongside PCV and PPV.
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Affiliation(s)
| | - Rajib Deb
- ICAR-National Research Centre on Pig, Guwahati, Assam
| | | | | | | | | | - Souvik Paul
- ICAR-National Research Centre on Pig, Guwahati, Assam
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Rajkhowa S, Sonowal J, Borthakur U, Pegu SR, Deb R, Das PJ, Sengar GS, Gupta VK. Meta-Analysis of the Prevalence of Porcine Zoonotic Bacterial Pathogens in India: A 13-Year (2010-2023) Study. Pathogens 2023; 12:1266. [PMID: 37887783 PMCID: PMC10610365 DOI: 10.3390/pathogens12101266] [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: 09/20/2023] [Revised: 10/19/2023] [Accepted: 10/19/2023] [Indexed: 10/28/2023] Open
Abstract
The presence of bacterial pathogens such as Brucella spp., Clostridium spp., E. coli, Listeria monocytogenes, Salmonella spp., Staphylococcus spp., and Streptococcus suis not only hampers pig production but also carries significant zoonotic implications. The present study aims to conduct a comprehensive meta-analysis spanning over 13 years (2010-2023) to ascertain the prevalence of these zoonotic bacterial pathogens in Indian pig populations. The study seeks to synthesize data from diverse geographic regions within India and underscores the relevance of the One Health framework. A systematic search of electronic databases was meticulously performed. Inclusion criteria encompassed studies detailing zoonotic bacterial pathogen prevalence in pigs within India during the specified timeframe. Pertinent information including authors, publication year, geographical location, sampling techniques, sample sizes, and pathogen-positive case counts were meticulously extracted. The meta-analysis of zoonotic bacterial pathogens in Indian pig populations (2010-2023) unveiled varying prevalence rates: 9% Brucella spp., 22% Clostridium spp., 19% E. coli, 12% Listeria monocytogenes, 10% Salmonella spp. and Streptococcus suis, and 24% Staphylococcus spp. The application of random effects further revealed additional variability: 6% Brucella spp., 23% Clostridium spp., 24% E. coli, 14% Listeria monocytogenes, 10% Salmonella spp. and Streptococcus suis, and 35% Staphylococcus spp. Notably, the observed heterogeneity (I2) varied significantly from 87% to 99%. The meta-analysis findings underscore the pervasive nature of these diseases throughout India's pig populations, accentuating the substantial impact of these pathogens on pig health and the potential for zoonotic transmission. The present study reinforces the importance of the adoption of a comprehensive One Health approach that acknowledges the intricate interplay between animal, human and environmental health.
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Affiliation(s)
- Swaraj Rajkhowa
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
| | - Joyshikh Sonowal
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
| | - Udipta Borthakur
- Animal Husbandry and Veterinary Department, Guwahati 781003, Assam, India;
| | - Seema Rani Pegu
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
| | - Rajib Deb
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
| | - Pranab Jyoti Das
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
| | - Gyanendra Singh Sengar
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
| | - Vivek Kumar Gupta
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, Assam, India; (J.S.); (S.R.P.); (R.D.); (P.J.D.); (G.S.S.); (V.K.G.)
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Thakur PK, Deb R, Pegu SR, Parihar R, Niharika J, Jyoti Das P, Sengar GS, Sonowal J, Chaudhary P, Selvaradjou A, Raj A, Gupta VK. Characterization of piggery farm waste-borne bacterial transposable elements associated with antimicrobial resistance phenotypes. Comp Immunol Microbiol Infect Dis 2023; 98:102005. [PMID: 37352625 DOI: 10.1016/j.cimid.2023.102005] [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: 03/14/2023] [Revised: 06/01/2023] [Accepted: 06/12/2023] [Indexed: 06/25/2023]
Abstract
Even though there is a link between antibiotic resistance and the presence of transposable elements few research has looked at the prevalence and distribution of transposable elements/ integrons in piggery farm samples. Present study identified the presence of six transposable elements namely Tn6763 (Accession number: OQ565300), Tn6764, (Accession number: OQ565299), Tn6765 (Accession number: OQ409902), Tn2003 (Accession number: OQ503494), Tn6072 (Accession number: OQ565298) and Tn6020 (Accession number: OQ503493) in piggery farm waste from India which are belongs to Enterobacteriaceae family. In a conjugative experiment, Klebsiella isolates carrying Tn6020 having the resistant phenotypes for nalidixic acid was used as donor cells while Escherichia coli DH5α Cells carrying chloramphenicol resistant plasmid was employed as recipient cells. Transconjugant bacterial colonies were shown to carry the Tn6020 transposable elements with both nalidixic acid (donor cell origin) and chloramphenicol (recipient cell origin) resistant antibiotic phenotypes. Given the presence of transposable elements in 21.4% of resistant Enterobacteriaceae strains, preventative measures are vital for avoiding the spread of mobile genetic resistance determinants in the piggery sector and to monitor their emergence.
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Affiliation(s)
- Priyanka Kumari Thakur
- ICAR-National Research Centre on Pig, Guwahati, Assam, India; All India Institute of Hygiene and Public Health, Government of India, Kolkata, West Bengal, India
| | - Rajib Deb
- ICAR-National Research Centre on Pig, Guwahati, Assam, India.
| | - Seema Rani Pegu
- ICAR-National Research Centre on Pig, Guwahati, Assam, India.
| | - Ranjeet Parihar
- ICAR-National Research Centre on Pig, Guwahati, Assam, India; All India Institute of Hygiene and Public Health, Government of India, Kolkata, West Bengal, India
| | - Jagana Niharika
- ICAR-National Research Centre on Pig, Guwahati, Assam, India; All India Institute of Hygiene and Public Health, Government of India, Kolkata, West Bengal, India
| | | | | | | | - Parul Chaudhary
- School of Agriculture, Graphic Era Hill University, Dehradun, Uttarakhand, India
| | | | - Atul Raj
- All India Institute of Hygiene and Public Health, Government of India, Kolkata, West Bengal, India
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Singh R, Deb R, Sengar GS, Raja TV, Kumar S, Singh U, Das AK, Alex R, Kumar A, Tyagi S, Pal P, Patil NV. Differentially expressed microRNAs in biochemically characterized Frieswal TM crossbred bull semen. Anim Biotechnol 2023; 34:25-38. [PMID: 34106815 DOI: 10.1080/10495398.2021.1932519] [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] [Indexed: 02/09/2023]
Abstract
In addition to the transmission of paternal genome, spermatozoa also carry coding as well as noncoding microRNAs (miRNAs) into the female oocyte during the process of biological fertilization. Based on RNA deep sequencing, a total 28 number of differentially expressed miRNAs were cataloged in categorized FrieswalTM crossbred (Holstein Friesian X Sahiwal) bull semen on the basis of conception rate (CR) in field progeny testing program. Validation of selected miRNAs viz. bta-mir-182, bta-let-7b, bta-mir-34c and bta-mir-20a revealed that, superior bull semen having comparatively (p < .05) lower level of all the miRNAs in contrast to inferior bull semen. Additionally, it was illustrated that, bta-mir-20a and bta-mir-34c miRNAs are negatively (p < .01) correlated with seminal plasma catalase (CAT) activity and glutathione peroxidase (GPx) level. Interactome studies identified that bta-mir-140, bta-mir-342, bta-mir-1306 and bta-mir-217 can target few of the important solute carrier (SLC) proteins viz. SLC30A3, SLC39A9, SLC31A1 and SLC38A2, respectively. Interestingly, it was noticed that all the SLCs were significantly (p < .05) expressed at higher level in superior quality bull semen and they are negatively correlated (p < .01) with their corresponding miRNAs as mentioned. This study may reflect the role of miRNAs in regulating few of the candidate genes and thus may influence the bull semen quality traits.
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Affiliation(s)
- Rani Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Sushil Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - A K Das
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Rani Alex
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Amod Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Shrikant Tyagi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Prasanna Pal
- Animal Physiology Division, ICAR-National Dairy Research Institute, Karnal, India
| | - N V Patil
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, India
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Pegu SR, Das PJ, Sonowal J, Sengar GS, Deb R, Yadav AK, Rajkhowa S, Choudhury M, Gulati BR, Gupta VK. Japanese Encephalitis Virus Genotype III Strains Detection and Genome Sequencing from Indian Pig and Mosquito Vector. Vaccines (Basel) 2023; 11:vaccines11010150. [PMID: 36679995 PMCID: PMC9862938 DOI: 10.3390/vaccines11010150] [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: 11/22/2022] [Revised: 01/04/2023] [Accepted: 01/05/2023] [Indexed: 01/12/2023] Open
Abstract
Japanese encephalitis viruses (JEVs) are globally prevalent as deadly pathogens in humans and animals, including pig, horse and cattle. Japanese encephalitis (JE) still remains an important cause of epidemic encephalitis worldwide and exists in a zoonotic transmission cycle. Assam is one of the highly endemic states for JE in India. In the present study, to understand the epidemiological status of JE circulating in pigs and mosquito, particularly in Assam, India, molecular detection of JEV and the genome sequencing of JEV isolates from pigs and mosquitoes was conducted. The genome analysis of two JEV isolates from pigs and mosquitoes revealed 7 and 20 numbers of unique points of polymorphism of nucleotide during alignment of the sequences with other available sequences, respectively. Phylogenetic analysis revealed that the isolates of the present investigation belong to genotype III and are closely related with the strains of neighboring country China. This study highlights the transboundary nature of the JEV genotype III circulation, which maintained the same genotype through mosquito-swine transmission cycles.
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Affiliation(s)
- Seema R. Pegu
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, India
| | - Pranab Jyoti Das
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, India
- Correspondence:
| | - Joyshikh Sonowal
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, India
| | | | - Rajib Deb
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, India
| | - Ajay Kumar Yadav
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly 243122, India
| | - Swaraj Rajkhowa
- ICAR-National Research Centre on Pig, Rani, Guwahati 781131, India
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Deb R, Yadav AK, Sengar GS, Sonowal J, Lalita D, Pegu SR, Singh I, Linda N, Das PJ, Kumar S, Pal P, Paul S, Rajkhowa S, Gupta VK. Development of CD163 receptor-based enzyme-linked immunosorbent assay for diagnosis of porcine reproductive and respiratory syndrome virus. 3 Biotech 2022; 12:325. [PMID: 36276438 PMCID: PMC9569409 DOI: 10.1007/s13205-022-03376-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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 09/16/2022] [Indexed: 11/26/2022] Open
Abstract
Porcine reproductive and respiratory syndrome (PRRS) is an important economical disease in the global swine industry. The accurate detection of the PRRS virus (PRRSV) antigen is essential for the disease control and prevention programme. In this study, an indirect enzyme-linked immunosorbent test (PRRSVCD163-iELISA) was developed for the detection of the PRRSV antigen in samples of post-mortem swine tissue using the recombinant pig CD163 receptor protein as the capture ligand. The test was found to be specific for PRRSV, with no cross-reactions with other prevalent pig viral pathogens. The assay was validated by testing 217 post-mortem porcine tissue samples and the results were found to be satisfactory with a relative accuracy of 88.88%. Our assay is also quite precise, with intra- and inter-assay CVs of 6% and 10%, respectively. These findings imply that the PRRSVCD163-iELISA developed is capable of detecting the PRRSV antigen in swine post-mortem tissue samples. This research showed that porcine CD163, the PRRSV cellular receptor, can be exploited to build a diagnostic technique for the detection of PRRSV antigen. Supplementary Information The online version contains supplementary material available at 10.1007/s13205-022-03376-z.
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Affiliation(s)
- Rajib Deb
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | - Ajay Kumar Yadav
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP India
| | | | - Joyshikh Sonowal
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | - D. Lalita
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, UP India
| | - Seema Rani Pegu
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | | | | | - Pranab Jyoti Das
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | - Satish Kumar
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | - Prasanna Pal
- ICAR-National Dairy Research Institute, Karnal, Haryana India
| | - Souvik Paul
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | - Swaraj Rajkhowa
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
| | - Vivek Kumar Gupta
- ICAR-National Research Center on Pig, Rani, Guwahati, Assam 781131 India
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Rathod BS, Nakhashi HC, Sengar GS, Raja TV, Singh U, Deb R. Profiling of key heat shock proteins and their relationship with male sexual behavior and seminal characteristics in Kankrej (Bos indicus) breeding bulls during different seasons. Trop Anim Health Prod 2022; 54:348. [PMID: 36260154 DOI: 10.1007/s11250-022-03359-5] [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: 02/18/2022] [Accepted: 10/12/2022] [Indexed: 11/30/2022]
Abstract
The goal of this study is to use indirect ELISA to determine the concentration of major heat shock proteins (Hsps) in Kankrej (Bos indicus) breeding bulls and their relationship with certain male phenotypic traits including sexual behavior, sperm quality, and bull fertility in different seasons. The seasonal fluctuation in the concentration of three major Hsps (60, 70, and 90) was determined using an indirect enzyme-linked immunosorbent assay (ELISA). According to the findings, Hsps levels are significantly higher during the summer season and are associated with both fresh and post-thawed semen quality traits in Kankrej breeding bulls. The better sexual behavior of bulls and seminal parameters of fresh or thawed semen was observed in the winter season together with the lower concentrations of HSPs. These could suggest negative association between HSPs with bull sexual behavior and seminal parameters. As a result, the concentration of Hsps in breeding bulls may be a useful indicator for determining fertility traits.
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Affiliation(s)
- Bharat Singh Rathod
- Livestock Research Station, S. D. Agricultural University, Sardarkrushinagar, Dhanera, Gujarat, India
| | - H C Nakhashi
- Livestock Research Station, S. D. Agricultural University, Sardarkrushinagar, Dhanera, Gujarat, India
| | | | - T V Raja
- Livestock Research Station, S. D. Agricultural University, Sardarkrushinagar, Dhanera, Gujarat, India
| | - Umesh Singh
- Livestock Research Station, S. D. Agricultural University, Sardarkrushinagar, Dhanera, Gujarat, India
| | - Rajib Deb
- ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, India.
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Alyethodi RR, Singh U, Kumar S, Alex R, Sengar GS, Raja TV, Deb R, Prakash B. Designing, optimization, and validation of whole blood direct T-ARMS PCR for precise and rapid genotyping of complex vertebral malformation in cattle. BMC Biotechnol 2021; 21:36. [PMID: 34022869 PMCID: PMC8141239 DOI: 10.1186/s12896-021-00696-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 05/05/2020] [Accepted: 05/11/2021] [Indexed: 12/04/2022] Open
Abstract
Background DNA testing in the cattle industry undergoes multiple hurdles. Successful genotyping involves the transportation of samples from the field to the laboratory in a chilled environment followed by DNA extraction, and finally, a specific genotyping protocol is followed. Various researches are focused on overcoming these issues. Microcards offer blood transportation at ambient temperature. Direct PCR methods can save the time of DNA extraction but available only for simplex PCR. Tetra Primer-Amplification Refractory Mutation System based Polymerase Chain Reaction (T-ARMS PCR) can make DNA testing faster in a low-cost setting. The present study was aimed to design, optimize, and validate a T-ARMS PCR for faster DNA testing of SNP responsible for Complex Vertebral Malformation (CVM)-an important genetic disease of the cattle industry. Further, a direct T-ARMS PCR from whole blood was developed to avoid the DNA extraction steps. Lastly, using the optimized protocol, genotyping of blood spotted on Microcard eliminates the need for cold chain maintenance in the transportation of samples. Results The present study demonstrated a novel T-ARMS PCR-based genotyping of the SNP rs438228855, which is responsible for CVM. Here, wild genotypes were recognized by 389 bp and 199 bp bands in agarose gel, while the carrier genotype showed an additional 241 bp band. The developed protocol was validated using PCR-Primer Introduced Restriction Analysis (PCR-PIRA) and sequencing. The present study further established a direct T-ARMS PCR for this SNP from whole blood. Different conditions such as heparin and EDTA treated blood, the need for pre-treatment, and two different DNA Polymerases for the direct PCR were optimized. Finally, our optimized protocol successfully genotyped the whole blood samples dried on Insta™DNA cards. Conclusions The present study reported the usefulness of primer modified T-ARMS PCR for detecting CVM for the first time. To the best of our knowledge, direct PCR in T-ARMS PCR has never been reported. Lastly, the use of microcards in the developed protocol can make the assay useful in the DNA testing of field samples. Supplementary Information The online version contains supplementary material available at 10.1186/s12896-021-00696-5.
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Affiliation(s)
- R R Alyethodi
- Animal Science Division, ICAR-Central Island Agricultural Research Institute, Garacharma, Andaman and Nicobar Islands, 744101, India.
| | - U Singh
- Animal genetics & Breeding Division, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - S Kumar
- Animal genetics & Breeding Division, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - R Alex
- Animal genetics & Breeding Division, ICAR-National Dairy Research Institute, Karnal, Haryana, India
| | - G S Sengar
- Animal genetics & Breeding Division, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - T V Raja
- Animal genetics & Breeding Division, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - R Deb
- ICAR-National Research centre on Pig, Guwahati, Assam, India
| | - B Prakash
- Animal genetics & Breeding Division, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
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12
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Deb R, Sengar GS. Expression pattern of bta-mir-2898 miRNA and their correlation with heat shock proteins during summer heat stress among native vs crossbred cattle. J Therm Biol 2020; 94:102771. [DOI: 10.1016/j.jtherbio.2020.102771] [Citation(s) in RCA: 4] [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] [Received: 09/16/2020] [Revised: 10/07/2020] [Accepted: 10/16/2020] [Indexed: 12/14/2022]
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Deb R, Sengar GS, Junghare V, Hazra S, Singh U, Alex R, Kumar A. Characterization of a putative ribosome binding site at the 5' untranslated region of bovine heat shock protein 90. Mol Biol Rep 2020; 47:7061-7071. [PMID: 32888122 DOI: 10.1007/s11033-020-05768-x] [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: 06/17/2020] [Accepted: 08/28/2020] [Indexed: 11/28/2022]
Abstract
Untranslated regions (UTRs) of the transcripts play significant roles in translation regulation and continue to raise many intriguing questions in our understanding of cellular stress physiology. Internal ribosome entry site (IRES) mediated alternative translation initiations are emerging as unique mechanisms. Present study is aimed to indentify a functional short 92 base pair length putative sequence located at the 5' untranslated region of bovine heat shock protein 90 AA1 (Hsp90AA1) may interact with ribosomal as well as eukaryotic initiation factor binding site. Here we have predicted both the two and three dimensional structures of bovine Hsp90AA1 IRES (MF400854) element with their respective free energy. Molecular interactions between bovine RPS5 and IRES have been determined after the preparation of docking complex of IRES bound RPS5. Structure of bovine ribosomal translational initiation factor (TIF) has also been determined and docked with IRES. Molecular interaction between bovine TIF and IRES was analyzed from the complex structure. We further detected the relative expression efficiency of the viral (original) in relation with Hsp90AA1 IRES-driven GFP expression, which revealed that efficiency under the control of identified bovine Hsp90AA1 IRES was slightly lower than viral origin. It was also noted that identified bovine HSP90 IRES may increase the expression level of GFP under in vitro heat stressed condition.
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Affiliation(s)
- Rajib Deb
- ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerutcantt, Meerut, UP, 250 001, India.
| | - Gyanendra Singh Sengar
- ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerutcantt, Meerut, UP, 250 001, India
| | - Vivek Junghare
- Department of Biotechnology, Center of Nanotechnology, Indian Institute of Technology, Roorkee, India
| | - Saugata Hazra
- Department of Biotechnology, Center of Nanotechnology, Indian Institute of Technology, Roorkee, India.,Center of Nanotechnology, Indian Institute of Technology, Roorkee, India
| | - Umesh Singh
- ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerutcantt, Meerut, UP, 250 001, India
| | - Rani Alex
- ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerutcantt, Meerut, UP, 250 001, India
| | - Asish Kumar
- ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerutcantt, Meerut, UP, 250 001, India
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Singh U, Alex R, Kumar S, Deb R, Venkatesan Raja T, Singhal S, Sengar GS, Singh Rathod B, Srirama Murthy K, Vasant Rao Patil N. Association of bovine KISS1 single nucleotide polymorphisms with reproductive traits in Indian Cattle. Reprod Domest Anim 2020; 55:922-930. [PMID: 32428317 DOI: 10.1111/rda.13704] [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: 03/03/2020] [Accepted: 05/12/2020] [Indexed: 11/29/2022]
Abstract
Kisspeptins, a family of neuropeptide encoded by the Kiss1 gene, have emerged as crucial regulator of fertility and reproduction by regulating the hypothalamic-pituitary-gonadal axis. The present study was aimed to identify and associate SNPs in the KISS1 gene with reproductive traits in cattle of Indian origin. DNA samples collected from 300 individual cows of three Indian dairy breeds (Gir, Kankrej and Frieswal) of cattle were used in the study. The SNPs of KISS1 gene were identified with PCR-RFLP and sequence analysis using two sets of primer pairs. A total of 5 SNPs were identified in the targeted region of which, two were selected for screening the population and association studies. The analysis revealed that genotypes of rs442633552G>A and rs42022871C>T had a significant association with dry period. The SNP rs42022871C>T also established significant role in milk production traits, and selection of TT-genotyped animals will improve the reproduction and production potential of the animals.
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Affiliation(s)
- Umesh Singh
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Rani Alex
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Sushil Kumar
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | - Rajib Deb
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | | | - Shaily Singhal
- ICAR-Central Institute for Research on Cattle, Meerut, India
| | | | - Bharat Singh Rathod
- Livestock Research Station, Sardarkrushinagar Dantiwada Agricultural University, Banaskatha, India
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Singh R, Junghare V, Hazra S, Singh U, Sengar GS, Raja TV, Kumar S, Tyagi S, Das AK, Kumar A, Koringa P, Jakhesara S, Joshi CJ, Deb R. Database on spermatozoa transcriptogram of catagorised Frieswal crossbred (Holstein Friesian X Sahiwal) bulls. Theriogenology 2019; 129:130-145. [PMID: 30844654 DOI: 10.1016/j.theriogenology.2019.01.025] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [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: 08/23/2018] [Revised: 01/11/2019] [Accepted: 01/31/2019] [Indexed: 12/22/2022]
Abstract
Bull spermatozoa contain different functional genes and many of them plays important roles in different stages of spermatogenesis, spermatozoa kinetics, fertilization as well as embryonic development. RNA deep sequencing is one of the preferred tools for absolute quantification of messenger RNA. The intention of the current study was to investigate the abundance of spermatozoal transcripts in categorized Frieswal (Holstein-Friesian X Sahiwal) crossbred bull semen through RNA deep sequencing. A total 1546561 and 1019308 numbers of reads were identified among good and poor quality bull spermatozoa based on their conception rate. Post mapping with Bos taurus reference genome identified 1,321,236 and 842,022 number of transcripts among good and poor quality RNA libraries, respectively. However, a total number of 3510 and 6759 functional transcripts were identified among good and poor quality bull spermatozoa, respectively. Most of the identified transcripts were related to spermatozoa functions, embryonic development and other functional aspects of fertilization. Wet laboratory validation of the top five selected transcripts (AKAP4, PRM1, ATP2B4, TRIM71 and SLC9B2) illustrated the significant (p < 0.01) level of expression in the good quality crossbred bull semen than the poor quality counterparts. The present study with comprehensive profiling of spermatozoal transcripts provides a useful non-invasive tool to understand the causes of as well as an effective way to predict male infertility in crossbred bulls.
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Affiliation(s)
- Rani Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India.
| | - Vivek Junghare
- Department of Biotechnology, Center of Nanotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, India
| | - Saugata Hazra
- Department of Biotechnology, Center of Nanotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, India
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Sushil Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Shrikant Tyagi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - A K Das
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Ashish Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Prakash Koringa
- Ome Research Laboratory, Anand Agricultural University, Anand, Gujarat, India
| | - Subhash Jakhesara
- Ome Research Laboratory, Anand Agricultural University, Anand, Gujarat, India
| | - C J Joshi
- Ome Research Laboratory, Anand Agricultural University, Anand, Gujarat, India
| | - Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India.
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Singh I, Deb R, Kumar S, Singh R, Andonissamy J, Smita S, Sengar GS, Kumar R, Ojha KK, Sahoo NR, Murali S, Chandran R, Nair RV, Lal SB, Mishra DC, Rai A. Deciphering foot-and-mouth disease (FMD) virus-host tropism. J Biomol Struct Dyn 2019; 37:4779-4789. [PMID: 30654708 DOI: 10.1080/07391102.2019.1567386] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
The pattern of interactions between foot and mouth disease (FMD) viral protein 1 (VP1) with susceptible and resistant host integrins were deciphered. The putative effect of site-directed mutation on alteration of interaction is illustrated using predicted and validated 3D structures of VP1, mutated VP1 and integrins of Bos taurus, Gallus and Canis. Strong interactions were observed between FMDV-VP1 protein motifs at conserved tripeptide, Arg-Gly-Asp 143RGD145 and at domain 676SIPLQ680 in alpha-integrin of B. taurus. Notably, in-silico site-directed mutation in FMDV-VP1 protein led to complete loss of interaction between FMD-VP1 protein and B. taurus integrin, which confirmed the active role of arginine-glycine-aspartic acid (RGD) domain. Interestingly, in-vitro analysis demonstrates the persistence of the putative tropism site 'SIPLQ' in different cattle breeds undertaken. Thus, the attempt to decipher the tropism of FMDV at host receptor level interaction might be useful for future FMD control strategies through development of mimetic marker vaccines and/or host receptor manipulations. Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Indra Singh
- Centre for Agricultural Bio-Informatics ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - Rajib Deb
- ICAR-Central Institute for Research on Cattle , Meerut , India
| | - Sanjeev Kumar
- Centre for Agricultural Bio-Informatics ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - Rani Singh
- ICAR-Central Institute for Research on Cattle , Meerut , India
| | | | - Shuchi Smita
- Centre for Agricultural Bio-Informatics ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | | | - Rajiv Kumar
- ICAR-Central Sheep and Wool Research Institute , Avikanagar , India
| | | | | | - S Murali
- ICAR-India National Bureau of Fish Genetic Resources , Lucknow , India
| | - Rejani Chandran
- ICAR-Central Institute of Fisheries Technology , Cochin , India
| | | | - S B Lal
- Centre for Agricultural Bio-Informatics ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - Dwijesh Chandra Mishra
- Centre for Agricultural Bio-Informatics ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - Anil Rai
- Centre for Agricultural Bio-Informatics ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
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Sengar GS, Kant R, Deb R, Verma P. Small interfering RNA based knock down of acute heat shock and or GGA inducible bovine heat shock protein 70 may interfere invitro expression pattern of TLR2/4 and NOD1/2. J Therm Biol 2018; 77:75-85. [DOI: 10.1016/j.jtherbio.2018.08.015] [Citation(s) in RCA: 1] [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] [Received: 01/15/2018] [Revised: 05/16/2018] [Accepted: 08/18/2018] [Indexed: 01/08/2023]
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Sengar GS, Deb R, Singh U, Junghare V, Hazra S, Raja TV, Alex R, Kumar A, Alyethodi RR, Kant R, Jakshara S, Joshi CG. Identification of differentially expressed microRNAs in Sahiwal (Bos indicus) breed of cattle during thermal stress. Cell Stress Chaperones 2018; 23:1019-1032. [PMID: 29777484 PMCID: PMC6111087 DOI: 10.1007/s12192-018-0911-4] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [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: 02/26/2018] [Revised: 05/02/2018] [Accepted: 05/03/2018] [Indexed: 10/16/2022] Open
Abstract
microRNAs (miRNAs) are a class of small non-coding RNAs that play key roles in post transcriptional gene regulation that influence various fundamental cellular processes, including the cellular responses during environmental stresses. However, perusal of literatures revealed few reports on the differential expression of miRNA during thermal stress in Indian native (Bos indicus) cattle breeds. The present investigation aimed to identify differentially expressed miRNAs during thermal stress in Sahiwal (Bos indicus) dairy cattle breed of India, adapted with tropical climate over a long period of time. Stress responses of the animals were characterized by determining various physiological as well as biochemical parameters and differential expression profile of major heat shock protein genes. Ion Torrent deep sequencing and CLC-genomic analysis identified a set of differentially expressed miRNAs during summer and winter seasons. Most of the identified differentially expressed miRNAs were found to target heat shock responsive genes especially members of heat shock protein (HSP) family. Real-time quantification-based analysis of selected miRNAs revealed that bta-mir-1248, bta-mir-2332, bta-mir-2478, and bta-mir-1839 were significantly (p < 0.01) over expressed while bta-mir-16a, bta-let-7b, bta-mir-142, and bta-mir-425 were significantly (p < 0.01) under expressed during summer in comparison to winter. The present study enlists differentially expressed miRNAs at different environmental temperatures in Sahiwal (Bos indicus) that may be importance for further understanding the role of miRNAs on thermo-regulatory mechanisms.
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Affiliation(s)
- Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India
- Sam Higginbottom University of Agriculture Technology & Science, Allahabad, India
| | - Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India.
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India
| | - Vivek Junghare
- Department of Biotechnology, Center of Nanotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, India
| | - Saugata Hazra
- Department of Biotechnology, Center of Nanotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, India
- Center of Nanotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, India
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India
| | - Rani Alex
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India
| | - Ashish Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India
| | - R R Alyethodi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, -250 001, Meerut, Uttar Pradesh, India
| | - Rajiv Kant
- Sam Higginbottom University of Agriculture Technology & Science, Allahabad, India
| | - Subhash Jakshara
- Ome Research Laboratory, Anand Agricultural University, Anand, Gujarat, India
| | - C G Joshi
- Ome Research Laboratory, Anand Agricultural University, Anand, Gujarat, India
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Alex R, Ramesha KP, Singh U, Kumar S, Alyethodi RR, Deb R, Sharma S, Sengar GS, Kumar A, Prakash B. Promoter variants of OAS1 gene are associated with reproductive performance and incidence of normal calving in cattle. Theriogenology 2018; 108:255-261. [PMID: 29258042 DOI: 10.1016/j.theriogenology.2017.12.002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [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: 09/18/2017] [Revised: 11/28/2017] [Accepted: 12/01/2017] [Indexed: 12/24/2022]
Abstract
2',5'-oligoadenylate synthetase (OAS) are important components of an interferon-mediated antiviral pathway. But no polymorphisms have yet been identified and associated with reproduction and reproduction traits in the bovine OAS1 gene. The objective of this study was to detect and evaluate the effects of mutations in the promoter region of bovine OAS1 gene with production and reproduction traits in cattle. Two single nuclear polymorphisms were identified, including A to T transversion (rs715937117:A>T) and A to G transition (rs480985443:A>G) and subsequently genotyped in Sahiwal and Frieswal populations. Three haplotypes were constructed including H1 (A-A), H2 (T-A) and H3 (T-G), among them H2 was the most abundant in the Sahiwal (0.677) and Frieswal (0.838) population. The analysis revealed that genotypes of promoter region had significant effect (P ≤ 0.05) on age at first breeding, age at first calving, service period and pregnancy rate. The animals with H1H2 diplotype had higher age at first breeding and age at first calving compared to H2H2 genotyped animals. Further logistic regression analysis also revealed that the probability of normal calving was found more in H2H2 diplotype, as the odds ratios of H1H2 and H2H3 in comparison to H2H2 were 0.516 and 0.486, respectively. H2H2 diplotyped animals also exhibited higher milk production also in terms of total milk yield, 300 day milk yield and peak yield. These results outlined that the bovine OAS1 gene can be used as candidate genes for simultaneous improvement of both production and reproductive performance of cattle.
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Affiliation(s)
- Rani Alex
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India.
| | - K P Ramesha
- Dairy Production, SRS, ICAR-National Dairy Research Institute, Bangalore, 560030, Karnataka, India
| | - Umesh Singh
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - Sushil Kumar
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - Rafeeque R Alyethodi
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - Rajib Deb
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - Sheetal Sharma
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - Gyanendra Singh Sengar
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - Ashish Kumar
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
| | - B Prakash
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Grass Farm Road, P. O. Box 17, Meerut Cantt., Meerut 250 001, Uttar Pradesh, India
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Singh R, Sengar GS, Singh U, Deb R, Junghare V, Hazra S, Kumar S, Tyagi S, Das AK, Raja TV, Kumar A. Functional proteomic analysis of crossbred (Holstein Friesian × Sahiwal) bull spermatozoa. Reprod Domest Anim 2018; 53:588-608. [DOI: 10.1111/rda.13146] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2017] [Accepted: 01/10/2018] [Indexed: 12/15/2022]
Affiliation(s)
- R Singh
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - GS Sengar
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - U Singh
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - R Deb
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - V Junghare
- Department of Biotechnology; Indian Institute of Technology; Roorkee Uttarakhand India
| | - S Hazra
- Department of Biotechnology; Indian Institute of Technology; Roorkee Uttarakhand India
- Center of Nanotechnology; Indian Institute of Technology; Roorkee Uttarakhand India
| | - S Kumar
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - S Tyagi
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - AK Das
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - TV Raja
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
| | - A Kumar
- Molecular Genetics Laboratory; ICAR-Central Institute for Research on Cattle; Meerut Uttar Pradesh India
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21
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Sengar GS, Deb R, Singh U, Raja TV, Kant R, Sajjanar B, Alex R, Alyethodi RR, Kumar A, Kumar S, Singh R, Jakhesara SJ, Joshi CG. Differential expression of microRNAs associated with thermal stress in Frieswal (Bos taurus x Bos indicus) crossbred dairy cattle. Cell Stress Chaperones 2018; 23:155-170. [PMID: 28776223 PMCID: PMC5741590 DOI: 10.1007/s12192-017-0833-6] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [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: 05/24/2017] [Revised: 07/15/2017] [Accepted: 07/19/2017] [Indexed: 12/13/2022] Open
Abstract
Environmental temperature is one of the important abiotic factors that influence the normal physiological function and productive performance of dairy cattle. Temperature stress evokes complex responses that are essential for safeguarding of cellular integrity and animal health. Post-transcriptional regulation of gene expression by miRNA plays a key role cellular stress responses. The present study investigated the differential expression of miRNA in Frieswal (Holstein Friesian × Sahiwal) crossbred dairy cattle that are distinctly adapted to environmental temperature stress as they were evolved by using the temperate dairy breed Holstein Friesian. The results indicated that there was a significant variation in the physiological and biochemical indicators estimated under summer stress. The differential expression of miRNA was observed under heat stress when compared to the normal winter season. Out of the total 420 miRNAs, 65 were differentially expressed during peak summer temperatures. Most of these miRNAs were found to target heat shock responsive genes especially members of heat shock protein (HSP) family, and network analysis revealed most of them having stress-mediated effects on signaling mechanisms. Being greater in their expression profile during peak summer, bta-miR-2898 was chosen for reporter assay to identify its effect on the target HSPB8 (heat shock protein 22) gene in stressed bovine PBMC cell cultured model. Comprehensive understanding of the biological regulation of stress responsive mechanism is critical for developing approaches to reduce the production losses due to environmental heat stress in dairy cattle.
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Affiliation(s)
- Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India.
- Sam Higginbottom University of Agriculture Technology and Science, Allahabad, India.
| | - Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India.
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - Rajiv Kant
- Sam Higginbottom University of Agriculture Technology and Science, Allahabad, India
| | - Basavraj Sajjanar
- School of Atmospheric Stress Management, National Institute of Abiotic Stress Management, Baramati, Maharashtra, India
| | - Rani Alex
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - R R Alyethodi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - Ashish Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - Sushil Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - Rani Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250 001, India
| | - Subhash J Jakhesara
- Department of Animal Biotechnology, Anand Agricultural University, Anand, Gujarat, India
| | - C G Joshi
- Department of Animal Biotechnology, Anand Agricultural University, Anand, Gujarat, India
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22
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Alex R, Ramesha KP, Singh U, Kumar S, Alyethodi RR, Deb R, Rai S, Sharma S, Sengar GS, Kumar A, Prakash B. Association analysis of novel polymorphisms in 2', 5'-oligoadenylate synthetase gene with reproductive traits in indigenous and cross-bred cattle of Indian Origin. Reprod Domest Anim 2017; 53:442-449. [PMID: 29277982 DOI: 10.1111/rda.13129] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [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: 08/30/2017] [Accepted: 11/28/2017] [Indexed: 12/17/2022]
Abstract
2', 5'-Oligoadenylate synthetases (OAS) are important components of an interferon-mediated antiviral pathway. No polymorphisms in exonic regions of bovine OAS1 gene have been identified and associated with reproduction traits. The objective of the study was to detect and evaluate the effects of mutations in exonic region of bovine OAS1 gene with reproduction traits in cattle. DNA samples collected from 250 individual cows of two Indian dairy breeds (Sahiwal and Frieswal) of cattle were used in the study. The genetic variants of the OAS1 gene were identified with polymerase chain reaction-single-strand conformation polymorphism (PCR-SSCP) and sequence analysis using seven set of primer pairs. The PCR-SSCP analysis revealed polymorphism in the fragments comprising of exon 2, exon 5 and first fragment of exon 6 while the fragments of exons 1, 3, 4 and second fragment of exon 6 were monomorphic in Sahiwal and Frieswal cattle. The mutations in the amplified region comprising of exon 2 were found to have significant association with age at first breeding and calving, service period, dry period and pregnancy rate. Significant associations were found between SNPs in the exon 5 and service and dry periods of the animal, whereas the genetic variants in the first fragment of the exon 6 showed significant association with age at first breeding and calving. To our knowledge, this study demonstrated for the first time that the polymorphisms in OAS1 gene were associated with reproductive traits and it can be chosen as a candidate gene for improvement of reproductive performance of cattle.
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Affiliation(s)
- R Alex
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - K P Ramesha
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India.,Dairy Production, SRS, ICAR-National Dairy Research Institute, Banglore, India
| | - U Singh
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - S Kumar
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - R R Alyethodi
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - R Deb
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - S Rai
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India.,ERS, ICAR-National Dairy Research Institute, Kalyani, West Bengal, India
| | - S Sharma
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - G S Sengar
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - A Kumar
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
| | - B Prakash
- Animal Genetics and Breeding Section, ICAR-Central Institute for Research on Cattle, Meerut, UP, India
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23
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Sengar GS, Deb R, Raja TV, Singh U, Kant R, Bhanuprakash V, Alyethodi RR, Kumar S, Verma P, Chakraborty S, Alex R, Singh R. RT-LAMP assay: an alternative approach for profiling of bovine heat shock protein 70 gene in PBMC cultured model. Mol Biol Rep 2017; 44:281-287. [PMID: 28551733 DOI: 10.1007/s11033-017-4108-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [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: 06/07/2016] [Accepted: 05/22/2017] [Indexed: 11/29/2022]
Abstract
The purpose of this study is to develop a novel Reverse Transcriptase Loop-mediated isothermal amplification (RT-LAMP) based assay for in vitro profiling of heat shock protein 70 (Hsp70) in bovine peripheral blood mononuclear cell (PBMC) culture model utilizing the absorbance level of magnesium pyrophosphate-a by-product of LAMP reaction. A set of bovine Hsp70 specific RT-LAMP primers were designed to detect the differential absorbance level of magnesium pyrophosphate by-product which signifies the degree of Hsp70 amplification from cDNA of thermally induced cultured cells at different recovery periods. The study revealed significant (P < 0.05) correlation between absorbance level and the fold change of Hsp70 transcripts at different kinetic intervals of heat stress recovery in bovine PBMC cell culture models. RT-LAMP based absorbance assay can be used as an indicator to measure the degree of bovine Hsp70 transcripts produced during thermal stress and can be used as an alternative to the traditional Real time PCR assay. Developed RT-LAMP assay can be used as a cost-effective method for profiling of bovine HSP70 gene.
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Affiliation(s)
- Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India.,Department of Cellular & Molecular Engineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Allahabad, 211007, Uttar Pradesh, India
| | - Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India.
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Rajiv Kant
- Department of Cellular & Molecular Engineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Allahabad, 211007, Uttar Pradesh, India
| | - V Bhanuprakash
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - R R Alyethodi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Sushil Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Preetam Verma
- Department of Cellular & Molecular Engineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Allahabad, 211007, Uttar Pradesh, India
| | - Soumendu Chakraborty
- ICAR-Indian Veterinary Research Institute, Izatnagar, 243122, Uttar Pradesh, India
| | - Rani Alex
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
| | - Rani Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, 250001, Uttar Pradesh, India
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Bhanuprakash V, Singh U, Sengar GS, Raja TV, Sajjanar B, Alex R, Kumar S, Alyethodi RR, Kumar A, Sharma A, Kumar S, Bhusan B, Deb R. Comparative expression profile of NOD1/2 and certain acute inflammatory cytokines in thermal-stressed cell culture model of native and crossbred cattle. Int J Biometeorol 2017; 61:931-941. [PMID: 27853874 DOI: 10.1007/s00484-016-1273-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [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: 07/08/2016] [Revised: 10/23/2016] [Accepted: 11/01/2016] [Indexed: 06/06/2023]
Abstract
Thermotolerance depends mainly on the health and immune status of the animals. The variation in the immune status of the animals may alter the level of tolerance of animals exposed to heat or cold stress. The present study was conducted to investigate the expression profile of two important nucleotide binding and oligomerization domain receptors (NLRs) (NOD1 and NOD2) and their central signalling molecule RIP2 gene during in vitro thermal-stressed bovine peripheral blood mononuclear cells (PBMCs) of native (Sahiwal) and crossbred (Sahiwal X HF) cattle. We also examined the differential expression profile of certain acute inflammatory cytokines in in vitro thermal-stressed PBMC culture among native and its crossbred counterparts. Results revealed that the expression profile of NOD1/2 positively correlates with the thermal stress, signalling molecule and cytokines. Present findings also highlighted that the expression patterns during thermal stress were comparatively superior among indigenous compared to crossbred cattle which may add references regarding the better immune adaptability of Zebu cattle.
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Affiliation(s)
- V Bhanuprakash
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India.
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Basavraj Sajjanar
- School of Abiotic Stress Management, ICAR-National Institute of Abiotic Stress Management, Baramati, India
| | - Rani Alex
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Sushil Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - R R Alyethodi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Ashish Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Ankur Sharma
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Suresh Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India
| | - Bharat Bhusan
- Division of Animal Genetics and Breeding, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, 243122, India
| | - Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Meerut, Uttar Pradesh, 250001, India.
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25
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Deb R, Sengar GS, Singh U, Kumar S, Alyethodi RR, Alex R, Raja TV, Das AK, Prakash B. Application of a Loop-Mediated Isothermal Amplification Assay for Rapid Detection of Cow Components Adulterated in Buffalo Milk/Meat. Mol Biotechnol 2017; 58:850-860. [PMID: 27761701 DOI: 10.1007/s12033-016-9984-4] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Loop-mediated isothermal amplification (LAMP) is a diagnostic method for amplification of DNA with rapid and minimal equipment requirement. In the present study, we applied the LAMP assay for rapid detection of cow components adulteration in buffalo milk/meat samples. The test can be completed within around 1 h 40 min starting from DNA extraction and can be performed in water bath without requirement of thermocycler. The cow DNA in buffalo samples were identified in the developed LAMP assay by either visualizing with SYBR Green I/HNB dyes or observing the typical ladder pattern on gel electrophoresis. The test can detect up to 5 % level of cow milk/meat mixed in buffalo counterparts. Due to the simplicity and specificity, the developed LAMP test can be easily adapted in any laboratory for rapid detection of cow species identification in livestock by products.
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Affiliation(s)
- Rajib Deb
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India.
| | - Gyanendra Singh Sengar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - Umesh Singh
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - Sushil Kumar
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - R R Alyethodi
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - Rani Alex
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - T V Raja
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - A K Das
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
| | - B Prakash
- Molecular Genetics Laboratory, ICAR-Central Institute for Research on Cattle, Grass Farm Road, Meerut, Uttar Pradesh, 250 001, India
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Tanwar GS, Khatri PC, Sengar GS, Kochar A, Kochar SK, Middha S, Tanwar G, Khatri N, Pakalapati D, Garg S, Das A, Kochar DK. Clinical profiles of 13 children withPlasmodium vivaxcerebral malaria. ACTA ACUST UNITED AC 2013; 31:351-6. [DOI: 10.1179/1465328111y.0000000040] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
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Dogra J, Sengar GS, Mathur HC, Misra SN. Serum lipids in neonatal cord blood in families with diabetes mellitus type-I. Indian Pediatr 1988; 25:267-71. [PMID: 3235177] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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