Top

Published in:

01-07-2012 | Brief Report

Complete genome sequence of the first Andean strain of potato virus S from Brazil and evidence of recombination between PVS strains

Authors: Priscilla de Sousa Geraldino Duarte, Suellen Barbara Ferreira Galvino-Costa, Silvia Regina Rodrigues de Paula Ribeiro, Antonia dos Reis Figueira

Published in: Archives of Virology | Issue 7/2012

Abstract

An isolate of the Andean strain of potato virus S (PVS), named BB-AND, was detected for the first time in a Brazilian potato crop, fully sequenced and analyzed. A comparison of BB-AND with other PVS isolates (Andean and Ordinary) showed that BB-AND is quite distinct. The lowest amino acid sequence identity to the only other fully sequenced Andean isolate was found in ORF 1 (82%) and ORF 6 (87%). Recombination analysis showed that the isolate Vltava (AJ863510), from Germany, is a recombinant between PVS^O and PVS^A isolates, with the recombination event located between nucleotides 6125 and 8324.

Boonham N, Walsh K, PrestonBonnet J, Fraile A, Sacristan S, Malpica JM, Garcia-Arenal F (2005) Role of recombination in the evolution of natural populations of Cucumber mosaic virus, a tripartite RNA plant virus. Virology 332:359–368. doi:10.1016/j.virol.2004.11.017 CrossRef

Carstens EB (2010) Ratification vote on taxonomic proposals to the International Committee on Taxonomy of Viruses (2009). Arch Virol 155:133–146PubMedCrossRef

Chang S, Puryear J, Cairney J (1993) A simple and efficient method for isolating RNA from pine trees. Plant Mol Biol Rep 11:113–116. doi:10.1007/BF02670468 CrossRef

Chikh Ali M, Maoka T, Natsuaki KT (2008) Whole genome sequence and characterization of a novel isolate of PVY inducing tuber necrotic ringspot in potato and leaf mosaic in tobacco. J Phytopathol 156:413–418. doi:10.1111/j.1439-0434.2007.01377.x CrossRef

Chikh Ali M, Maoka T, Natsuaki KT (2008) The occurrence of potato viruses in Syria and the molecular detection and characterization of Syrian Potato virus S isolates. Potato Res 51:151–161. doi:10.1007/s11540-008-9099-9 CrossRef

Cox BA, Jones RAC (2010) Genetic variability in the coat protein gene of Potato virus S isolates and distinguishing its biologically distinct strains. Arch Virol 155:1163–1169. doi:10.1007/s00705-010-0680-6 PubMedCrossRef

Djilani-Khouadja F, Glais L, Tribodet M, Kerlan C, Fakhfakh H (2010) Incidence of potato viruses and characterization of Potato virus Y variability in late season planted potato crops in Northern Tunisia. Eur J Plant Pathol 126:479–488. doi:10.1007/s10658-009-9554-8 CrossRef

Figueira AR, Galvino SBF, Geraldino PS, Rabelo Filho FAC, Camargos VN (2009) Presence of PVYN-Wi and NE-11 isolates of Potato virus Y (PVY) in Brazil. Annual meet potato association Am, 93rd, New Brunswick, Canada, p 62

Figueira AR (1995) Viroses da batata e suas implicações na produção da batata-semente do estado de Minas Gerais: histórico do problema e soluções. Summa Phytopathol 21:269–270

10.

Fletcher JD (1996) Potato virus S ^A: characteristics of an isolate from New Zealand. N Z J Crop Hortic Sci 24:335–339. doi:10.1080/01140671.1996.9513970 CrossRef

11.

Foster GD, Mills PR (1992) The 3′-nucleotide sequence of an ordinary strain of Potato virus S. Virus Genes 6:213–220PubMedCrossRef

12.

Foster GD (1991) Molecular variation between ordinary and Andean strains of potato virus S. Res Virol 142:413–416PubMedCrossRef

13.

Fraile A, Alonso-Prados JL, Aranda MA, Bernal JJ, Malpica JM, Garcia-Arenal F (1997) Genetic exchange by recombination or reassortment is infrequent in natural populations of a tripartite RNA plant virus. J Virol 71:934–940PubMed

14.

Galvino-Costa SBF, Figueira AR, Camargos VV, Geraldino PS, Hub XJ, Nikolaeva OV, Kerlan C, Karasev AV (2011) A novel type of Potato virus Y recombinant genome, determined for the genetic strain PVY^E. Plant Pathol. doi:10.1111/j.1365-3059.2011.02495.x

15.

Gibbs M (1995) The luteovirus supergroup: rampant recombination and persistent partnerships. In: Gibbs AJ, Calisher CH, Garcia-Arenal F (eds) Molecular basis of virus evolution. Cambridge University Press, Cambridge, pp 351–368. doi:10.2277/0521455332

16.

Hinostroza-Orihuela AM (1973) Some proprieties of Potato virus S isolated from Peruvian potato varieties. Potato Res 16:244–250. doi:10.1007/BF02356057 CrossRef

17.

Kostiw M (1975) Transmission of Potato virus S by A. nasturtii Kalt. Potato Res 18:641–643. doi:10.1007/BF02365690 CrossRef

18.

Kostiw M (2004) The effect of feeding time on Potato virus S transmission by Myzus persicae (Sulz.) and Aphis nasturtii Kalt, aphids. Potato Res 46:129–136. doi:10.1007/BF02736082 CrossRef

19.

Le Gall OL, Lanneau M, Candresse T, Dunez J (1995) The nucleotide sequence of the RNA-2 of an isolate of the English serotype of Tomato black ring virus: RNA recombination in the history of nepoviruses. J Gen Virol 76:1279–1283. doi:10.1099/0022-1317-76-5-1279

20.

Lin YH, Druffel KL, Whitworth J, Pavek MJ, Pappu HR (2009) Molecular characterization of two Potato virus S isolates from late blight resistant genotypes of potato (Solanum tuberosum). Arch Virol 154:1861–1863. doi:10.1007/s00705-009-0486-6 PubMedCrossRef

21.

Martin DP, Lemey P, Lott M, Moulton V, Posada D, Lefeuvre P (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinforma 26:2462–2463. doi:10.1093/bioinformatics/btq467 CrossRef

22.

Mackenzie DJ, Tremaine JH, Stace-Smith R (1989) Organization and interviral homologies of the 3′-terminal portion of potato virus S RNA. J Gen Virol 70:1053–1063. doi:10.1099/0022-1317-70-5-1053 PubMedCrossRef

23.

Matousek J, Schubert J, Ptácek J, Kozlová P, Dedic P (2005) Complete nucleotide sequence and molecular probing of potato virus S genome. Acta Virol 49:195–205PubMed

24.

Matousek J, Schubert J, Dedic P, Ptácek J (2000) A broad variability of potato virus S (PVS) revealed by analysis of virus sequences amplified by reverse transcriptase polymerase chain reaction. Can J Plant Pathol 22:29–37. doi:10.1080/07060660009501158 CrossRef

25.

Morozov SY, Dolja VV, Atabekov JG (1989) Probable reassortment of genomic elements among elongated RNA-containing plant viruses. J Mol Evol 29:52–62. doi:10.1007/BF02106181 PubMedCrossRef

26.

Ohshima K, Tomitaka Y, Wood JT, Minematsu Y, Kajiyama H, Tomimura K, Gibbs AJ (2007) Patterns of recombination in turnip mosaic virus genomic sequences indicate hotspots of recombination. J Gen Virol 88:298–315. doi:10.1099/vir.0.82335-0 PubMedCrossRef

27.

Rose DG (1983) Some properties of an unusual isolate of potato virus S. Potato Res 26:49–62. doi:10.1007/BF02357373 CrossRef

28.

Salari K, Massumi H, Heydarnejad J, Pour AH, Varsani A (2011) Analysis of Iranian Potato virus S isolates. Virus Genes 43:281–288. doi:10.1007/s11262-011-0619-3 PubMedCrossRef

29.

Singh AK, Mahinghara BK, Hallan V, Ram R, Zaidi AA (2008) Recombination and phylogeographical analysis of Lily symptomless virus. Genes 36:421–427. doi:10.1007/s11262-008-0197-1

30.

Slack SA (1983) Identification of an isolate of the Andean strain of potato virus S in North America. Plant Dis 67:786–789. doi:10.1094/PD-67-786 CrossRef

31.

Souza-Dias JAC, Barroso PAV, Silva Filho HM, Hayashi PC, Fo APO (1998) Ocorrência de potyvirus associados a anéis necróticos superficiais em tubérculos de batata ‘Atlantic’: PVYNTN no Brasil. Summa Phytopathologica 24:74

32.

Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599. doi:10.1093/molbev/msm092 PubMedCrossRef

33.

Vives MC, Rubio L, Sambade A, Mirkov TE, Moreno P, Guerri J (2005) Evidence of multiple recombination events between two RNA sequence variants within a Citrus tristeza virus isolate. Virology 331:232–237. doi:10.1016/j.virol.2004.10.037 PubMedCrossRef

34.

Wardrop EA, Gray AB, Singh RP, Peterson JF (1989) Aphid transmission of Potato virus S. Am Potato J 66:449–459. doi:10.1007/BF02855437 CrossRef

Title: Complete genome sequence of the first Andean strain of potato virus S from Brazil and evidence of recombination between PVS strains
Authors: Priscilla de Sousa Geraldino Duarte
Suellen Barbara Ferreira Galvino-Costa
Silvia Regina Rodrigues de Paula Ribeiro
Antonia dos Reis Figueira
Publication date: 01-07-2012
Publisher: Springer Vienna
Published in: Archives of Virology / Issue 7/2012
Print ISSN: 0304-8608
Electronic ISSN: 1432-8798
DOI: https://doi.org/10.1007/s00705-012-1289-8

Live Webinar | 27-06-2024 | 18:00 (CEST)

Keynote webinar | Spotlight on medication adherence

Reserve your place

Live: Thursday 27th June 2024, 18:00-19:30 (CEST)

WHO estimates that half of all patients worldwide are non-adherent to their prescribed medication. The consequences of poor adherence can be catastrophic, on both the individual and population level.

Join our expert panel to discover why you need to understand the drivers of non-adherence in your patients, and how you can optimize medication adherence in your clinics to drastically improve patient outcomes.

Prof. Kevin Dolgin

Prof. Florian Limbourg

Prof. Anoop Chauhan

Developed by: Springer Medicine

Obesity Clinical Trial Summary

At a glance: The STEP trials

A round-up of the STEP phase 3 clinical trials evaluating semaglutide for weight loss in people with overweight or obesity.

Developed by: Springer Medicine

Keynote webinar | Spotlight on medication adherence

Springer Medicine

Abstract

Please log in to get access to this content

Other articles of this Issue 7/2012

Genetic characterization of astroviruses detected in guinea fowl (Numida meleagris) reveals a distinct genotype and suggests cross-species transmission between turkey and guinea fowl

Molecular variation and recombination in RNA segment 10 of rice black-streaked dwarf virus isolated from China during 2007-2010

Spatial and temporal diversity of begomoviral complexes in papayas with leaf curl disease

Bombyx mori nucleopolyhedrovirus ORF54, a viral desmoplakin gene, is associated with the infectivity of budded virions

The movement protein of barley yellow dwarf virus-GAV self-interacts and forms homodimers in vitro and in vivo

Nucleotide sequence of a chickpea chlorotic stunt virus relative that infects pea and faba bean in China

Keynote webinar | Spotlight on medication adherence

Live: Thursday 27th June 2024, 18:00-19:30 (CEST)

At a glance: The STEP trials