High genetic variability and recombination in a begomovirus population infecting the ubiquitous weed Cleome affinis in northeastern Brazil

Archives of Virology

Volumn 156, Issue 12, 2011, Pages 2205-2213

  da Silva, Sarah J C ^a,c   Castillo Urquiza, Gloria P ^a   Hora Júnior, Braz T ^a   Assunção, Iraildes P ^b   Lima, Gaus S A ^b,c   Pio Ribeiro, Gilvan ^c   Mizubuti, Eduardo S G ^a   Zerbini, F Murilo ^a  

^a FEDERAL UNIVERSITY OF VIÇOSA   (Brazil)

^b FEDERAL UNIVERSITY OF ALAGOAS   (Brazil)

^c UNIVERSIDADE FEDERAL RURAL DE PERNAMBUCO   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS DNA;

ANIMAL; ARTICLE; BEGOMOVIRUS; BRAZIL; CLASSIFICATION; CLEOME; DISEASE CARRIER; GENETIC RECOMBINATION; GENETIC VARIABILITY; GENETICS; HEMIPTERA; PATHOGENICITY; PHYLOGENY; PLANT DISEASE; VIROLOGY;

ANIMALS; BEGOMOVIRUS; BRAZIL; CLEOME; DNA, VIRAL; GENETIC VARIATION; HEMIPTERA; INSECT VECTORS; PHYLOGENY; PLANT DISEASES; RECOMBINATION, GENETIC;

ALEYRODIDAE; BEGOMOVIRUS; CAPPARACEAE; CLEOME; DNA VIRUSES;

EID: 82455188006     PISSN: 03048608     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00705-011-1119-4     Document Type: Article

References (44)

1. Andrade EC, Manhani GG, Alfenas PF, Calegario RF, Fontes EPB, Zerbini FM (2006) Tomato yellow spot virus a tomato-infecting begomovirus from Brazil with a closer relationship to viruses from Sida sp., forms pseudorecombinants with begomoviruses from tomato but not from Sida. J Gen Virol 87: 3687-3696.
2. Castillo-Urquiza GP, Beserra JEA Jr, Bruckner FP, Lima ATM, Varsani A, Alfenas-Zerbini P, Zerbini FM (2008) Six novel begomoviruses infecting tomato and associated weeds in Southeastern Brazil. Arch Virol 153: 1985-1989.
3. Castillo-Urquiza GP, Alfenas-Zerbini P, Beserra-Junior JEA, Mizubuti ESG, Varsani A, Martin DP, Zerbini FM (2010) Genetic structure of tomato-infecting begomovirus populations in two tomato-growing regions of Southeastern Brazil. In: Program and Abstracts, 6th International Geminivirus Symposium and 4th International ssDNA Comparative Virology Workshop, Guanajuato, Mexico.
4. Costa AS (1975) Increase in the populational density of Bemisia tabaci, a threat to widespread virus infection of legume crops in Brazil. In: Bird J, Maramorosch K (eds) Tropical diseases of legumes. Academic Press, New York, p 171.
5. Costa AS (1976) Whitefly-transmitted plant diseases. Annu Rev Phytopathol 14: 429-440.
6. Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small amounts of fresh leaf tissue. Phytochem Bull 19: 11-15.
7. Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3. 0: an integrated software package for population genetics data analysis. Evol Bioinf Online 1: 47-50.
8. Faria JC, Bezerra IC, Zerbini FM, Ribeiro SG, Lima MF (2000) Current status of geminivirus diseases in Brazil (in Portuguese). Fitopatol Bras 25: 125-137.
9. Fauquet CM, Briddon RW, Brown JK, Moriones E, Stanley J, Zerbini FM, Zhou X (2008) Geminivirus strain demarcation and nomenclature. Arch Virol 153: 783-821.
10. Fiallo-Olive E, Martinez-Zubiaur Y, Moriones E, Navas-Castillo J (2010) Complete nucleotide sequence of Sida golden mosaic Florida virus and phylogenetic relationships with other begomoviruses infecting malvaceous weeds in the Caribbean. Arch Virol 155: 1535-1537.
11. Frischmuth T, Engel M, Lauster S, Jeske H (1997) Nucleotide sequence evidence for the occurrence of three distinct whitefly-transmitted, Sida-infecting bipartite geminiviruses in Central America. J Gen Virol 78: 2675-2682.
12. Garcia-Andres S, Monci F, Navas-Castillo J, Moriones E (2006) Begomovirus genetic diversity in the native plant reservoir Solanum nigrum: Evidence for the presence of a new virus species of recombinant nature. Virology 350: 433-442.
13. Graham AP, Martin DP, Roye ME (2010) Molecular characterization and phylogeny of two begomoviruses infecting Malvastrum americanum in Jamaica: Evidence of the contribution of inter-species recombination to the evolution of malvaceous weed-associated begomoviruses from the Northern Caribbean. Virus Genes 40: 256-266.
14. Guo XJ, Zhou XP (2006) Molecular characterization of a new begomovirus infecting Sida cordifolia and its associated satellite DNA molecules. Virus Genes 33: 279-285.
15. Hagen C, Rojas MR, Sudarshana MR, Xoconostle-Cazares B, Natwick ET, Turini TA, Gilbertson RL (2008) Biology and molecular characterization of Cucurbit leaf crumple virus, an emergent cucurbit-infecting begomovirus in the Imperial Valley of California. Plant Dis 92: 781-793.
16. Hanssen IM, Lapidot M, Thomma B (2010) Emerging viral diseases of tomato crops. Mol Plant-Microbe Int 23: 539-548.
17. Hofer P, Engel M, Jeske H, Frischmuth T (1997) Nucleotide sequence of a new bipartite geminivirus isolated from the common weed Sidarhombifolia in Costa Rica. Virology 78: 1785-1790.
18. Huson DH, Bryant D (2006) Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23: 254-267.
19. Ilyas M, Qazi J, Mansoor S, Briddon RW (2010) Genetic diversity and phylogeography of begomoviruses infecting legumes in Pakistan. J Gen Virol 91: 2091-2101.
20. Inoue-Nagata AK, Albuquerque LC, Rocha WB, Nagata T (2004) A simple method for cloning the complete begomovirus genome using the bacteriophage phi 29 DNA polymerase. J Virol Met 116: 209-211.
21. Jones RAC (2009) Plant virus emergence and evolution: Origins, new encounter scenarios, factors driving emergence, effects of changing world conditions, and prospects for control. Virus Res 141: 113-130.
22. Jovel J, Reski G, Rothenstein D, Ringel M, Frischmuth T, Jeske H (2004) Sida micrantha mosaic is associated with a complex infection of begomoviruses different from Abutilon mosaic virus. Arch Virol 149: 829-841.
23. Kaye AC, Moyer JW, Parks EJ, Carbone I, Cubeta MA (2011) Population genetic analysis of Tomato spotted wilt virus on peanut in North Carolina and Virginia. Phytopathology 101: 147-153.
24. Lefeuvre P, Martin DP, Hoareau M, Naze F, Delatte H, Thierry M, Varsani A, Becker N, Reynaud B, Lett JM (2007) Begomovirus 'melting pot' in the south-west Indian Ocean islands: Molecular diversity and evolution through recombination. J Gen Virol 88: 3458-3468.
25. Lefeuvre P, Lett JM, Varsani A, Martin DP (2009) Widely conserved recombination patterns among single-stranded DNA viruses. J Virol 83: 2697-2707.
26. Martin DP, Lemey P, Lott M, Moulton V, Posada D, Lefeuvre P (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26: 2462-2463.
27. Morales FJ, Anderson PK (2001) The emergence and dissemination of whitefly-transmitted geminiviruses in Latin America. Arch Virol 146: 415-441.
28. Paprotka T, Metzler V, Jeske H (2010) The first DNA 1-like alpha satellites in association with New World begomoviruses in natural infections. Virology 404: 148-157.
29. Qazi J, Ilyas M, Mansoor S, Briddon RW (2007) Legume yellow mosaic viruses: genetically isolated begomoviruses. Mol Plant Pathol 8: 343-348.
30. Ribeiro SG, Ávila AC, Bezerra IC, Fernandes JJ, Faria JC, Lima MF, Gilbertson RL, Zambolim EM, Zerbini FM (1998) Widespread occurrence of tomato geminiviruses in Brazil, associated with the new biotype of the whitefly vector. Plant Dis 82: 830.
31. Rojas MR, Gilbertson RL, Russell DR, Maxwell DP (1993) Use of degenerate primers in the polymerase chain reaction to detect whitefly-transmitted geminiviruses. Plant Dis 77: 340-347.
32. Rojas MR, Hagen C, Lucas WJ, Gilbertson RL (2005) Exploiting chinks in the plant's armor: evolution and emergence of geminiviruses. Annu Rev Phytopathol 43: 361-394.
33. Romay G, Chirinos D, Geraud-Pouey F, Desbiez C (2010) Association of an atypical alphasatellite with a bipartite New World begomovirus. Arch Virol 155: 1843-1847.
34. Roye ME, McLaughlin WA, Nakhla MK, Maxwell DP (1997) Genetic diversity among geminiviruses associated with the weed species Sida spp., Macroptilium lathyroides, and Wissadula amplissima from Jamaica. Plant Dis 81: 1251-1258.
35. Roye ME, Spence J, McLaughlin WA, Maxwell DP (1999) The common weed Macroptilium lathyroides is not a source of crop-infecting geminiviruses from Jamaica. Trop Agric 76: 256-262.
36. Rozas J (2009) DNA sequence polymorphism analysis using DnaSP. Methods Mol Biol 537: 337-350.
37. Sanz AI, Fraile A, García-Arenal F, Zhou X, Robinson DJ, Khalid S, Butt T, Harrison BD (2000) Multiple infection, recombination and genome relationships among begomovirus isolates found in cotton and other plants in Pakistan. J Gen Virol 81: 1839-1849.
38. Seal SE, Jeger MJ, van den Bosch F (2006) Begomovirus evolution and disease management. Adv Virus Res 67: 297-316.
39. Silva SJC, Castillo-Urquiza GP, Hora-Júnior BT, Assunção IP, Lima GSA, Pio-Ribeiro G, Mizubuti ESG, Zerbini FM (2011) Species diversity, phylogeny and genetic variability of begomovirus populations infecting leguminous weeds in Northeastern Brazil. Plant Pathol. doi: 10. 1111/j. 1365-3059. 2011. 02543. x.
40. 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.
41. Weir BS (1996) Genetic data analysis II: methods for discrete population genetic data. Sinauer Associated Inc, Sunderland, Massachusetts.
42. Wyant PS, Gotthardt D, Schafer B, Krenz B, Jeske H (2011) The genomes of four novel begomoviruses and a new Sida micrantha mosaic virus strain from Bolivian weeds. Arch Virol 156: 347-352.
43. Yahara T, Ooi K, Oshita S, Ishii I, Ikegami M (1998) Molecular evolution of a host-range gene in geminiviruses infecting asexual populations of Eupatorium makinoi. Genes Genet Syst 73: 137-141.
44. Zerbini FM, Andrade EC, Barros DR, Ferreira SS, Lima ATM, Alfenas PF, Mello RN (2005) Traditional and novel strategies for geminivirus management in Brazil. Australas Plant Path 34: 475-480.