Molecular characterization of divergent grapevine Pinot gris virus isolates and their detection in Slovak and Czech grapevines

详细信息    查看全文

• 作者：Miroslav Glasa (1)
  Luká? Predajňa (1)
  Petr Komínek (2)
  Al?beta Nagyová (1)
  Thierry Candresse (3) (4)
  Antonio Olmos (5)
  
• 关键词：Trichovirus ; Next ; generation sequencing ; Diversity ; Detection
• 刊名：Archives of Virology
• 出版年：2014
• 出版时间：August 2014
• 年：2014
• 卷：159
• 期：8
• 页码：2103-2107
• 全文大小：241 KB
• 参考文献：1. Adams IP, Glover RH, Monger WA, Mumford R, Jackeviciene E, Navalinkiene M, Samuitiene M, Boonham N (2009) Next-generation sequencing and metagenomic analysis: a universal diagnostic tool in plant virology. Mol Plant Pathol 10:537-45 CrossRef
  2. Al Rwahnih M, Daubert S, Golino D, Rowhani A (2009) Deep sequencing analysis of RNAs from a grapevine showing Syrah decline symptoms reveals a multiple virus infection that includes a novel virus. Virology 387:395-01 CrossRef
  3. Al Rwahnih M, Daubert S, Urbez-Torres JR, Cordero F, Rowhani A (2011) Deep sequencing evidence from single grapevine plants reveals a virome dominated by mycoviruses. Arch Virol 156:397-03 CrossRef
  4. Al Rwahnih M, Sudarshana MR, Uyemoto JK, Rowhani A (2012) Complete genome sequence of a novel vitivirus isolated from grapevine. J Virol 86:9545 CrossRef
  5. Cho IS, Jung SM, Cho JD, Choi GS, Lim HS (2013) First report of grapevine Pinot gris virus infecting grapevine in Korea. New Dis Rep 27:100. doi:10.5197/j.2044-0588.2013.027.010 CrossRef
  6. Coetzee B, Freeborough MJ, Maree HJ, Celton JM, Rees DJ, Burger JT (2010) Deep sequencing analysis of viruses infecting grapevines: virome of a vineyard. Virology 400:157-63 CrossRef
  7. Giampetruzzi A, Roumi V, Roberto R, Malossini U, Yoshikawa N, La Notte P, Terlizzi F, Credi R, Saldarelli P (2012) A new grapevine virus discovered by deep sequencing of virus- and viroid-derived small RNAs in cv. Pinot gris. Virus Res 163:262-68 CrossRef
  8. Kreuze JF, Perez A, Untiveros M, Quispe D, Fuentes S, Barker I, Simon R (2009) Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses. Virology 388:1- CrossRef
  9. Martin DP, Lemey P, Lott M, Moulton V, Posada D, Lefeuvre P (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26:2462-463 CrossRef
  10. Mekuria TA, Gutha LR, Martin RR, Naidu RA (2009) Genome diversity and intra- and interspecies recombination events in Grapevine fanleaf virus. Phytopathology 99:1394-402 CrossRef
  11. Roossinck MJ (2012) Plant virus metagenomics: biodiversity and ecology. Annu Rev Genet 46:359-69 CrossRef
  12. 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 28:2731-739 CrossRef
  13. Vigne E, Marmonier A, Fuchs M (2008) Multiple interspecies recombination events within RNA2 of Grapevine fanleaf virus and Arabis mosaic virus. Arch Virol 153:1771-776 CrossRef
  14. Yoshikawa N, Iida H, Goto S, Magome H, Takahashi T, Terai Y (1997) Grapevine berry inner necrosis, a new trichovirus: comparative studies with several known trichoviruses. Arch Virol 142:1351-363 CrossRef
  
• 作者单位：Miroslav Glasa (1)
  Luká? Predajňa (1)
  Petr Komínek (2)
  Al?beta Nagyová (1)
  Thierry Candresse (3) (4)
  Antonio Olmos (5)
  
  1. Department of Plant Virology, Institute of Virology, Slovak Academy of Sciences, Dúbravská cesta 9, 84505, Bratislava, Slovakia
  2. Division of Plant Health, Crop Research Institute, Drnovská 507, Ruzyně, 161 06, Prague 6, Czech Republic
  3. INRA, Equipe de Virologie, UMR 1332 Biologie du Fruit et Pathologie, CS20032, 33882, Villenave d’Ornon Cedex, France
  4. Université de Bordeaux, Equipe de Virologie, UMR 1332 Biologie du Fruit et Pathologie, CS20032, 33882, Villenave d’Ornon Cedex, France
  5. Department of Plant Pathology, Instituto Valenciano de Investigaciones Agrarias, Carretera Moncada a Náquera km 4.5, 46113, Moncada, Valencia, Spain
  
• ISSN：1432-8798

文摘

Analysis of complete genome sequences of three Slovak isolates of grapevine Pinot gris virus (GPGV) showed their low heterogeneity (reaching 1.7?%) and a close relationship to the Italian NC_015782 isolate (4.2-4.5?% divergence). Comparison of Slovak and Italian isolates revealed an unusual accumulation of 21 indel mutations in ORF1, resulting in a localized high divergence in the encoded amino acid sequences. An elevated divergence in the 5-extremity of the GPGV genomes is suggestive of a recombination between Slovak isolates and grapevine berry inner necrosis virus. RT-PCR allowed the frequent detection of closely related GPGV isolates in grapevines from Slovakia and the Czech Republic.