Bioinformatics Analysis of UL39 Gene from Duck Plague Virus

Abstract:

The structures and characteristics of the large subunit of ribonucleotide reductase (R1), encoded by UL39 gene from duck plague virus (DPV) were analyzed and predicted by using a series of free bioinformatics software packages and bioinformatics tools. The DPV UL39 gene has a base composition of 681 adenine (27.99%), 503 cytosine (20.67%), 593 guanine (24.37%) and 656 thymine (26.96%). The online analysis of the physico-chemical properties demonstrates that the protein has 40 potential phosphorylation sites and 4 N-glycosylation sites when the threshold of prediction score is above 0.5; without the signal peptide and the transmembrance region. The phylogenetic tree proved that DPV R1 protein had a close evolutionary relationship with the Mardivirus genus of the Alphaherpesviruses. In conclusion, all those results will provide some valuable information for the further research of UL39 gene.

• Periodical: Advanced Materials Research (Volumes 641-642)
• Pages: 645-653
• DOI: https://doi.org/10.4028/www.scientific.net/AMR.641-642.645
• Online since: January 2013
• Authors: Guo Fu Lu, An Chun Cheng, Ming Shu Wang
• Keywords: Bioinformatic Analysis, Duck Plague Virus, UL39 Gene

References

[1] E.C. Burgess, J. Ossa and T.M. Yuill: Avian Dis. Vol. 23 (1979), pp.940-949.

[2] A.J. Davison, R . Eberle, B. Ehlers, G.S. Hayward, D.J. McGeoch, A.C. Minson, P.E. Pellett, B. Roizman, M.J. Studdert and E. Thiry: Arch. Virolo. Vol. 154 (2009), pp.171-177.

DOI: 10.1007/s00705-008-0278-4

[3] C.M. Fauquet, M.A. Mayo, J. Maniloff, U. Desselberger, and L.A. Ball: Virus Taxonomy: Eighth Report of the International Committee on Taxonomy of Viruses (Academic Press, London 2005).

[4] K.A. Converse and G.A. Kidd: J. Wildlife Dis. Vol. 37 (2001), p.347–357.

[5] R. Gardner, J. Wilkerson, J.C. Johnson: Intervirology Vol. 36 (1993), pp.99-112.

[6] C.J. Shen, A.C. Cheng, M.S. Wang, Y.F. Guo, L.C. Zhao, M. Wen, W. Xie, H.Y. Xin and D.K. Zhu: Arch. Virolo. Vol. 154 (2009), pp.1061-1069.

[7] B. Lian, C. Xu, A.C. Cheng, M.S. Wang, D.K. Zhu, Q.H. Luo, R.Y. Jia, F.J. Bi , Z.L. Chen, Y. Zhou, Z.X. Yang and X.Y. Chen: Virol. J. Vol. 349 (2011), pp.1-11.

[8] L.C. Zhao, A.C. Cheng, M.S. Wang, G.P. Yuan, R.Y. Jia, D.C. Zhou, X.F. Qi, H. Ge, and T. Sun: Avian Dis. Vol. 52 (2008), pp.324-331.

[9] J. Conner, H. Marsden and J.B. Clements: Rev. Med. Virol. Vol. 4 (1994), pp.25-34.

[10] J.M. Cameron, I. McDougall, H.S. Marsden, V.G. Preston, D.M. Ryan and J.H. Subak-Sharpe: J. Gen. Virol. Vol. 69 (1988), pp.2607-2612.

[11] J. Furlong, J. Conner, J. McLauchlan, H. Lankinen, C. Galt, H.S. Marsden and J.B. Clements: Virology Vol. 182 (1991), pp.846-851.

DOI: 10.1016/0042-6822(91)90627-n

[12] P. Nordlund and P. Reichard: Annual Review of Biochemistry Vol. 75 (2006), 681-706.

[13] C.K. Mathews: The FASEB Journal Vol. 20 (2006), pp.1300-1314.

[14] E. Torrents, M. Sahlin and B.M. Sjoberg: The ribonucleotide reductase family-genetics and genomics (NovaScience Publishers, New York 2008).

[15] T. Radivoyevitch: BMC Systems Biology Vol. 15 (2008), pp.1-13.

[16] A.C. Cheng, M.S. Wang, M. Wen, W.G. Zhou, Y.F. Guo, R.Y. Jia, C. Xu, G.P. Yuan, Y.C. Liu: High Technol. Lett. Vol. 16 (2006), pp.948-953.

[17] J. Shao, B. Zhou, C. Bernard and Y. Yen: Current Cancer Drug Targets Vol. 6 (2006), pp.409-431.

[18] J. Herrick and B. Sclavi: Mol. Microbiol. Vol. 63 (2007), pp.22-34.

[19] G. Delhon, M.P. Moraes, Z. Lu, C.L. Afonso, E.F. Flores, R. Weiblen, G.F. Kutish and D.L. Rock: Virology Vol. 77 (2003), pp.10339-10347.

DOI: 10.1128/jvi.77.19.10339-10347.2003

[20] S.D. Tyler, G.A. Peters and A. Severini: Virology Vol. 331 (2005), pp.429-440.

[21] V.G. Preston, J.W. Palfreyman and B.M. Dutia: J. Gen. Virol. Vol. 65 (1984), pp.1457-1466.

[22] L.M. Iakoucheva, P. Radivojac1, C.J. Brown, Tr.O. Connor, J.G. Sikes, Z. Obradovic1 and A.K. Dunker: Nucleic Acids Res. Vol. 32 (2004), pp.1037-1049.

[23] N. Blom, S. Gammeltoft and S. Brunak: J. Mo. Biol. Vol. 294 (1999), pp.1351-1362.

[24] H.R. Griffiths: Autoimmun. Rev. Vol. 7 (2008), pp.544-549.

[25] S.M. Chi: Biochem. Bioph. Res. Co. Vol. 399 (2010), pp.402-405.

[26] T. Sun, A.C. Cheng, M.S. Wang, Y.F. Guo, R.Y. Jia and C.J. Shen: Veterinary Science in China Vol. 38 (2008), pp.939-945.

[27] C. Xu, X.R. Li, H.Y. Xin, B. Lian, A.C. Cheng, M.S. Wang, D.K. Zhu, R.Y. Jia, Q.H. Luo and X.Y. Chen: Chinese Veterinary Science Vol. 38 (2008), pp.1038-1044.

[28] D.J. Barlow, M.S. Edwards and J.M. Thornton: Nature Vol. 322 (1986), pp.747-748.

[29] H Chang, A.C. Cheng, M.S. Wang, Y.F. Guo, W. Xie and K.P. Lou: Arch. Virol. Vol. 154 (2009), pp.163-165.

[30] M.S. Cai. A.C. Cheng, M.S. Wang, L.C. Zhao, D.K. Zhu, Q.H. Luo, F. Liu and X.Y. Chen: Intervirology Vol. 52 (2009), pp.266-278.

[31] R.Y. Jia, A.C. Cheng, M.S. Wang, H.Y. Xin, Y.F. Guo, D.K. Zhu, X.F. Qi, L.C. Zhao, H. Ge and X.Y. Chen: Virus Genes Vol. 38 (2008), pp.96-103.

[32] L.C. Zhao, A.C. Cheng, M.S. Wang, G.P. Yuan and M.S. Cai: Prog. Nat. Sci. Vol. 18 (2008), p.1069–1076.