Molecular characterization and phylogenetic analysis of a variant of highly infectious cotton leaf curl Burewala virus associated with CLCuD from Pakistan

Australian Journal of Crop Science

Volumn 7, Issue 8, 2013, Pages 1113-1122

  Ashraf, Muhammad Aleem ^a   Shahid, Ahmad Ali ^a   Mohamed, Bahaeldeen Babiker ^a,c   Dahab, Abdelhafiz Adam ^a,c   Bajwa, Kamran Shehzad ^a   Rao, Abdul Qayyum ^a   Khan, Muhammad Azmat Ullah ^a   Ilyas, Muhammad ^a,b   Haider, Muhammad Saleem ^a   Husnain, Tayyab ^a  

^a UNIVERSITY OF THE PUNJAB   (Pakistan)

^b DONALD DANFORTH PLANT SCIENCE CENTER   (United States)

^c National Center for Research Sudan   (Sudan)

Author keywords

Begomovirus; Bemisia tabaci; Cotton leaf curl disease; Geminivirus; Recombination; Rolling circle amplification

Indexed keywords

EID: 84881524961     PISSN: 18352693     EISSN: 18352707     Source Type: Journal    
DOI: None     Document Type: Article

References (36)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol. 215:403-410.
2. Amrao L, Akhter S, Tahir MN, Amin I, Briddon RW, Mansoor S (2010a) Cotton leaf curl disease in Sindh province of Pakistan is associated with recombinant begomovirus components. Virus Res. 153:161-165.
3. Amrao L, Amin I, Shahid MS, Briddon RW, Mansoor S (2010b) Cotton leaf curl disease in resistant cotton is associated with a single begomovirus that lacks an intact transcriptional activator protein. Virus Res. 152:153-163.
4. Asad S, Haris WAA, Bashir A, Zafar Y, Malik KA, Malik NN, Lichtenstein CP (2003) Transgenic tobacco expressing geminiviral RNAs are resistant to the serious viral pathogen causing cotton leaf curl disease. Arch Virol. 148:2341-2352
5. Chatterji A, Padidam M, Beachy RN, Fauquet CM (1999) Identification of replication specificity determinants in two strains of tomato leaf curl virus from New Delhi. J Virol. 73:5481-5489
6. Doyle JJ, Doyle JL (1990) Isolation of plant DNA from fresh tissue. Focus. 12:13-15
7. Fauquet C, Briddon R, Brown J, Moriones E, Stanley J, Zerbini M, Zhou X (2008) Geminivirus strain demarcation and nomenclature. Arch Virol. 153:783-821
8. Felsenstein J (1985) Confidence limits on phylogenies: An approach using the bootstrap. Evolution. 39:783-791
9. Haible D, Kober S, Jeske H (2006) Rolling circle amplification revolutionizes diagnosis and genomics of geminiviruses. J Virol Methods. 135:9-16
10. Hanley-Bowdoin L, Settlage SB, Orozco BM, Nagar S, Robertson D (2000) Geminiviruses: models for plant DNA replication, transcription, and cell cycle regulation. Crit Rev Biochem Mol Biol. 35:105-140
11. Hussnain T, Ali M (1975) A review of cotton diseases of Pakistan. Pak Cott. 19:77-78
12. Inoue-Nagata AK, Albuquerque LC, Rocha WB, Nagata T (2004) A simple method for cloning the complete begomovirus genome using the bacteriophage φ29 DNA polymerase. J Virol Methods. 116:209-211
13. Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Computer applications in the biosciences: CABIOS. 8:275-282
14. Kumar A, Kumar JKhan JA (2010) Sequence characterization of cotton leaf curl virus from Rajasthan: phylogenetic relationship with other members of geminiviruses and detection of recombination. Virus Genes. 40:282-289
15. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG (2007) Clustal W and Clustal X version 2.0. Bioinformatics. 23:2947-2948
16. Laufs J, Jupin I, David C, Schumacher S, Heyraud-Nitschke F, Gronenborn B (1995) Geminivirus replication: Genetic and biochemical characterization of rep protein function, a review. Biochimie. 77:765-773
17. Lazarowitz SG, Shepherd RJ (1992) Geminiviruses: Genome structure and gene function. Crit Rev Plant Sci. 11:327-349
18. Mansoor S, Amin I, Iram S, Hussain M, Zafar Y, Malik KA, Briddon RW (2003a) Breakdown of resistance in cotton to cotton leaf curl disease in Pakistan. Plant Pathol. 52:784-784
19. Mansoor S, Briddon RW, 2007. Cotton leaf curl disease. In: Proceedings of the world cotton research conferences-4, Texas, pp. 10-14 september 2007 http://www.icac.org/ meetings/wcrc/wcrc2004/presentations/start.htm
20. Mansoor S, Briddon RW, Bull SE, Bedford ID, Bashir A, Hussain M, Saeed M, Zafar Y, Malik KA, Fauquet C, Markham PG (2003b) Cotton leaf curl disease is associated with multiple monopartite begomoviruses supported by single DNA ß. Arch Virol. 148:1969-1986
21. Mansoor S, Briddon RW, Zafar Y, Stanley J (2003c) Geminivirus disease complexes: an emerging threat. Trends Plant Sci. 8:128-134
22. Mansoor S, Zafar Y, Briddon RW (2006) Geminivirus disease complexes: the threat is spreading. Trends Plant Sci. 11:209-212
23. Martin D, Rybicki E (2000) RDP: detection of recombination amongst aligned sequences. Bioinformatics. 16:562-563
24. Mubin M, Mansoor S, Hussain M, Zafar Y (2007) Silencing of the AV2 gene by antisense RNA protects transgenic plants against a bipartite begomovirus. Virol J. 4:10-10
25. Nawaz-ul-Rehman MS, Briddon RW, Fauquet CM (2012) A melting pot of old world begomoviruses and their satellites infecting a collection of Gossypium species in Pakistan. PLoS One. 7:e40050
26. Nawaz-ul-Rehman MS, Fauquet CM (2009) Evolution of geminiviruses and their satellites. FEBS Letters. 583:1825-1832
27. Padidam M, Sawyer S, Fauquet CM (1999) Possible emergence of new geminiviruses by frequent recombination. Virology. 265:218-225
28. Rajagopalan P, Naik A, Katturi P, Kurulekar M, Kankanallu R, Anandalakshmi R (2012) Dominance of resistance-breaking cotton leaf curl Burewala virus (CLCuBuV) in northwestern India. Arch Virol. 157:855-868
29. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 4:406-425
30. Saunders K, Salim N, Mali VR, Malathi VG, Briddon R, Markham PG, Stanley J (2002) Characterisation of Sri Lankan cassava mosaic virus and Indian cassava mosaic virus: Evidence for acquisition of a DNA B component by a monopartite begomovirus. Virology. 293:63-74
31. Seal SE, vandenBosch F, Jeger MJ (2006) Factors influencing begomovirus evolution and their increasing global significance: Implications for sustainable control. Crit Rev Plant Sci. 25:23-46
32. Stanley J BDM, Briddon RW, Brown JK, Fauquet CM (2005) Geminiviridae. In: Fauquet CM, Mayo MA, Maniloff J, Desselberger U, Ball LA, Editors., Virus Taxonomy, VIIth Report of the ICTV. Elsevier/Academic Press, London, pp. 301-326
33. Tahir MN, Amin I, Briddon RW, Mansoor S (2011) The merging of two dynasties-identification of an African cotton leaf curl disease-associated begomovirus with cotton in Pakistan. PLoS ONE. 6:e20366-e20366
34. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 28:2731-2739
35. Zhou X, Liu Y, Calvert L, Munoz C, Otim-Nape GW, Robinson DJ, Harrison BD (1997) Evidence that DNA-A of a geminivirus associated with severe cassava mosaic disease in Uganda has arisen by interspecific recombination. J General Virol. 78:2101-2111
36. Zhou X, Liu Y, Robinson DJ, Harrison BD (1998) Four DNA-A variants among Pakistani isolates of cotton leaf curl virus and their affinities to DNA-A of geminivirus isolates from okra. J General Virol. 79:915-923