STUDY OF STRUCTURAL VARIATIONS AND PHYLOGENY OF DQA FROM MHC CLASS II IN CATTLE

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RANJBAR M.M.; ATAEI KACHOEI S.; MATIN M.H.

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Journal: Veterinary Research & Biological Products Year:2017 | Volume:30 | Issue:3 (116) Page(s): 34-42

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Title

STUDY OF STRUCTURAL VARIATIONS AND PHYLOGENY OF DQA FROM MHC CLASS II IN CATTLE

Author(s)

RANJBAR M.M. | ATAEI KACHOEI S. | MATIN M.H. | Issue Writer Certificate

Keywords

BOLA-DQAQ1

CATTLEQ3

MHCQ2

VARIATIONQ2

PHYLOGENYQ1

Abstract

BOLA-DQA protein is a highly polymorphic region in MHC class II and plays a key role in immune responses, resistance and susceptibility to infectious diseases, vaccination and production factors. Compared with other species, there are little data on molecular characteristics, structure, PHYLOGENY and evolution of BOLA-DQA. In the present study, some aspects of these subjects and propose practical points based on findings about VARIATIONs, structure and PHYLOGENY of this locus in CATTLE was studies. Protein sequences of BOLA-DQA alleles were retrieved from databases. VARIATION was evaluated by Shannon entropy plot based on alignment of sequences with ClustalW2 algorithm, and Highly Variable Regions (HVRs) were analyzed. Then, tertiary structure of protein by homology modeling approach under certain circumstances, energy minimization and model validation were achieved. Finally, PHYLOGENY, allelic grouping and estimation of evolutionary divergence were done using Maximum Likelihood method. For heuristic search of initial tree, Neighbor-Joining and BioNJ were used for pairwise distance matrix by JTT model and then, Logs with better Likelihood were appointed. Seven HVRs and some semi-variable regions in VARIATION analysis were obtained. The highest variable region was amino acids 90-93. These HVRs were seen in all substructures after homology modeling of BOLA-DQA protein (with 97.5 validity). Besides, alleles were grouped into five clusters by phylogenetic analysis. Evolutionary analysis of tree showed that more ancient alleles were *2103 and *2602, and probable newer alleles were *1204, *0302 and *2207. Present study helps in designing effective vaccines against infectious diseases and animal breeding in easy prediction of production factors in CATTLE.

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APA: Copy

RANJBAR, M.M., ATAEI KACHOEI, S., & MATIN, M.H.. (2017). STUDY OF STRUCTURAL VARIATIONS AND PHYLOGENY OF DQA FROM MHC CLASS II IN CATTLE. VETERINARY RESEARCHES BIOLOGICAL PRODUCTS (PAJOUHESH-VA-SAZANDEGI), 30(3 (116)), 34-42. SID. https://sid.ir/paper/200866/en

Vancouver: Copy

RANJBAR M.M., ATAEI KACHOEI S., MATIN M.H.. STUDY OF STRUCTURAL VARIATIONS AND PHYLOGENY OF DQA FROM MHC CLASS II IN CATTLE. VETERINARY RESEARCHES BIOLOGICAL PRODUCTS (PAJOUHESH-VA-SAZANDEGI)[Internet]. 2017;30(3 (116)):34-42. Available from: https://sid.ir/paper/200866/en

IEEE: Copy

M.M. RANJBAR, S. ATAEI KACHOEI, and M.H. MATIN, “STUDY OF STRUCTURAL VARIATIONS AND PHYLOGENY OF DQA FROM MHC CLASS II IN CATTLE,” VETERINARY RESEARCHES BIOLOGICAL PRODUCTS (PAJOUHESH-VA-SAZANDEGI), vol. 30, no. 3 (116), pp. 34–42, 2017, [Online]. Available: https://sid.ir/paper/200866/en

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