Please use this identifier to cite or link to this item: http://krishikosh.egranth.ac.in/handle/1/73049
Authors: Hassan, Mir Nadeem
Advisor: Wani, Shakil Ahmad
Title: G and P typing and sequence analysis of group A rotavirus in calves and lambs in Kashmir
Publisher: SKUAST
Language: en
Type: Thesis
Agrotags: Bovine, Ovine group A rotavirus, G genotype, P genotype, PCR, RNA-Page
Abstract: The present study was carried out on the distribution, relative frequency of G and P genotypes of bovine, ovine and human group A rotaviruses and to determine variation if any within these G & P types. A total of 580 samples from 290 diarrhoeic calves, 145 diarrhoeic lambs and 145 diarrhoeic children were collected and screened for the presence of rotavirus. Out of 290, 145 and 145 diarrhoeic stool samples from calves, lambs and children, 37, 12 and 39 were found positive for Group A rotavirus, respectively by latex agglutination test. Electropherotyping by ribonucleic acid-polyacrylamide gel electrophoresis revealed the typical group A rotavirus 4-2-3-2 migration pattern in 31, 7 and 34 diarrhoeic stool samples from calves, lambs and children, respectively. Out of 37, 12 and 39 latex aggultination test positive samples from calves, lambs and children, 34, 8 and 37, respectively were further processed for G and P genotyping. The G10 genotype was the most predominant G genotype in bovines accounting for 35.3% of the samples; G6, G3 and G8 genotypes were found in 29.4, 17.6 and 5.9% of the bovines samples, respectively. One sample (2.9%) revealed a mixed infection with G6 and G8 genotypes, whereas six (8.9%) of bovine samples could not be characterised with 10 G genotype-specific primers used. Determination of P genotype specificities in bovines revealed P[11] genotype in 67.6% of samples. P[1] and P[5] genotypes were found in 5.9 and 17.6% of bovine samples, respectively. G10P[11] (26.5%) was the most frequent G and P genotype combination in bovines, while G6P[11], G3P[11], G10P[5], G3P[5], G6P[1] and G6P[5] were found in 20.6, 11.8, 8.8, 5.9, 5.9 and 2.9% of the the bovine rotavirus samples, respectively. One (2.9%) sample showed a mixed infection with G6+G8P[11] specificities. The present study in ovines revealed G6 to be the most predominant (62.5%) G genotype followed by G10 (37.5%). Among P genotype in ovines, all (100%) revealed P[11] genotype. The most predominant G and P combination in ovines was G6P[11] (62.5%) followed by G10P[11] (37.5%). The investigation in human revealed G1 to be the most predominant G genotype with a frequency of 46.9%. G2 and G9 were found in 13.5 and 8.1% of the human rotavirus positive samples, respectively. Among P genotypes in humans, P[4] was the predominant one with a frequency of 45.9% followed by P[6] (29.7%). G genotype could not be ascertained in five (13.5%) human samples and P genotype in other 9 (24.3%) samples. Among humans, most predominant G and P combination was G1P[4] (35%), while G1P[6], G2P[4], G2P[6], G9P[4], G9P[6], G1P[UT], G2P[UT] and P[6]G(UT) were found in 10.8, 5.4, 2.7, 5.4, 2.7 ,18.9, 5.4 and 13.5% of the rotavirus samples, respectively. Phylogenetic analysis of JKBRVP7-1/Bovine/2013/India, JKBRVP4/2013/ India and JKBR/India/ 2013/P[11] detected in this study indicated that these genotypes were genetically distant from other so far reported rotavirus genotypes suggesting possible emergence of new genotypes.
Issue Date: 2014
Appears in Collections:Thesis

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