Cultivar-specific kinetics of gene induction during downy mildew early infection in grapevine

Functional and Integrative Genomics

Volumn 12, Issue 2, 2012, Pages 379-386

  Figueiredo, Andreia ^a   Monteiro, Filipa ^a   Fortes, Ana Margarida ^a   Bonow Rex, Martina ^b   Zyprian, Eva ^b   Sousa, Lisete ^a   Pais, Maria Salomé ^a  

^a UNIVERSITY OF LISBON   (Portugal)

^b Institute for Grapevine Breeding Geilweilerhof   (Germany)

Author keywords

Downy mildew; Grapevine; Regent; Resistance; Transcriptome; Trincadeira

Indexed keywords

COMPLEMENTARY DNA;

ARTICLE; CULTIVAR; DISEASE RESISTANCE; DNA MICROARRAY; DOWNY MILDEW; GENE EXPRESSION; GENE INDUCTION; GENOTYPE; GRAPE; NONHUMAN; NUCLEOTIDE SEQUENCE; OOMYCETES; PLANT DEFENSE; PLANT METABOLISM; PLASMOPARA VITICOLA; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; TRANSCRIPTION REGULATION;

DISEASE RESISTANCE; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; HOST-PATHOGEN INTERACTIONS; KINETICS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OOMYCETES; PLANT DISEASES; SEQUENCE ANALYSIS, DNA; TRANSCRIPTIONAL ACTIVATION; VITIS;

PERONOSPORACEAE; PLASMOPARA VITICOLA; VITIS; VITIS VINIFERA;

EID: 84864692857     PISSN: 1438793X     EISSN: 14387948     Source Type: Journal    
DOI: 10.1007/s10142-012-0261-8     Document Type: Article

References (60)

1. Akkurt M,Welter L, Maul E, Topfer R, Zyprian E (2007) Development of SCAR markers linked to powdery mildew (Uncinula necator) resistance in grapevine (Vitis vinifera L. and Vitis sp.). Mol Breed 19:103-111 (Pubitemid 46046749)
2. Altschul S, Madden T, Schaffer A, Zhang J, Zhang Z, Miller W, Lipman D (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25(17):3389-3402 (Pubitemid 27359211)
3. Anonymous (2000) Description list of varieties-grapes 2000. Landburg Verlag, Hannover
4. Ashburner M, Ball C, Blake J, Botstein D, Butler H, Cherry J, Davis A, Dolinski K, Dwight S, Eppig J, Harris M, Hill D, Issel-Tarver L, Kasarskis A, Lewis S, Matese J, Richardson J, Ringwald M, Rubin G, Sherlock G, Consortium GO (2000) Gene ontology: tool for the unification of biology. Nat Genet 25(1):25-29 (Pubitemid 30257031)
5. Bellin D, Peressotti E, Merdinoglu D, Wiedemann-Merdinoglu S, Adam-Blondon AF, Cipriani G et al (2009) Resistance to Plasmopara viticola in grapevine 'Bianca' is controlled by a major dominant gene causing localised necrosis at the infection site. Theor Appl Genetics 120:163-176
6. Bilgin D, Zavala J, Zhu J, Clough S, Ort D, DeLucia E (2010) Biotic stress globally downregulates photosynthesis genes. Plant Cell Environ 33(10):1597-1613
7. Bisson L, Waterhouse A, Ebeler S, Walker M, Lapsley J (2002) The present and future of the international wine industry. Nature 418:696-699
8. Blasi P, Blanc S,Wiedemann-Merdinoglu S, Prado E, Rühl EH, Mestre P, Merdinoglu D (2011) Construction of a reference linkage map of Vitis amurensis and genetic mapping of Rpv8, a locus conferring resistance to grapevine downy mildew. Theor Appl Genet 123:43-53
9. Blein J, Coutos-Thevenot P, Marion D, Ponchet M (2002) From elicitins to lipid-Transfer proteins: a new insight in cell signalling involved in plant defense mechanisms. Trends Plant Sci 7(7):293-296 (Pubitemid 36726512)
10. Breitling R, Armengaud P, Amtmann A, Herzyk P (2004) Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. FEBS Lett 573:83-92 (Pubitemid 39141040)
11. Bustin S, Benes V, Garson J, Hellemans J, Huggett J, Kubista M, Mueller R, Nolan T, Pfaffl M, Shipley G, Vandesompele J, Wittwer C (2009a) The MIQE guidelines: minimum information for publication of quantitative real-Time PCR experiments. Clin Chem 55(4):611-622
12. Bustin S, Vandesompele J, Pfaffl M (2009b) Standardization of qPCR and RT-qPCR. Genet Eng Biotechnol 29(14):40-43
13. Coffeen W, Wolpert T (2004) Purification and characterization of serine proteases that exhibit caspase-like activity and are associated with programmed cell death in Avena sativa. Plant Cell 16:857-873 (Pubitemid 38459207)
14. Dalbo M, Ye G, Weeden N, Steinkellner H, Sefc K, Reisch B (2000) A gene controlling sex in grapevines placed on a molecular markerbased genetic map. Genome 43(2):333-340 (Pubitemid 30334014)
15. Diez-Navajas A, Wiedemann-Merdinoglu S, Greif C, Merdinoglu D (2008) Nonhost versus host resistance to the grapevine downy mildew, Plasmopara viticola, studied at the tissue level. Phytopathology 98:776-780 (Pubitemid 352018210)
16. Doddapaneni H, Lin H, Walker M, Yao J, Civerolo E (2008) VitisExpDB: a database resource for grape functional genomics. BMC Plant Biol 8:23
17. Espinoza C, Vega A, Medina C, Schlauch K, Cramer G, Arce-Johnson P (2007) Gene expression associated with compatible viral diseases in grapevine cultivars. Funct Integr Genomics 7:95-110 (Pubitemid 46336166)
18. FAOSTAT (2010) Food and Agriculture Organization of the United Nations (FAOSTAT). http://apps.fao.org
19. Figueiredo A, Fortes A, Ferreira S, Sebastiana M, Choi Y, Sousa L, Acioli-Santos B, Pessoa F, Verpoorte R, Pais M (2008) Transcriptional and metabolic profiling of grape (Vitis vinifera L.) leaves unravel possible innate resistance against pathogenic fungi. J Exp Bot 59:3371-3381
20. Fischer BM, Salakhutdinov I, Akkurt M, Eibach R, Edwards K, Topfer R, Zyprian E (2004) Quantitative trait locus analysis of fungal disease resistance factors on a molecular map of grapevine. Theor Appl Gene 108(3):501-515 (Pubitemid 38300129)
21. Fung R, Gonzalo M, Fekete C, Kovacs L, He Y, Marsh E, McIntyre L, Schachtman D, Qiu W (2008) Powdery mildew induces defense-oriented reprogramming of the transcriptome in a susceptible but not in a resistant grapevine. Plant Physiol 146:236-249 (Pubitemid 351380052)
22. Galet P (1977) Apoplexie. In: Les maladies et les parasites de la vigne, Vol. I (pp. 409-430) Imp. Paysan du Midi, Montpellier
23. Godoy A, Lazzaro A, Casalongue C, San Segundo B (2000) Expression of a Solanum tuberosum cyclophilin gene is regulated by fungal infection and abiotic stress conditions. Plant Sci 152 (2):123-134 (Pubitemid 30106393)
24. Golldack D, Vera P, Dietz K (2003) Expression of subtilisin-like serine proteases in Arabidopsis thaliana is cell-specific and responds to jasmonic acid and heavy metals with developmental differences. Physiol Plant 118(1):64-73 (Pubitemid 36572751)
25. Gutha L, Casassa L, Harbertson J, Naidu R (2010) Modulation of flavonoid biosynthetic pathway genes and anthocyanins due to virus infection in grapevine (Vitis vinifera L.) leaves. BMC Plant Biol 10:187
26. Hofius D, Tsitsigiannis D, Jones J, Mundy J (2007) Inducible cell death in plant immunity. Semin Cancer Biol 17:166-187 (Pubitemid 46149344)
27. Hren M, Nikolic P, Rotter A, Blejec A, Terrier N, Ravnikar M, Dermastia M, Gruden K (2009) 'Bois noir' phytoplasma induces significant reprogramming of the leaf transcriptome in the field grown grapevine. BMC Genomics 10:460
28. Jorda L, Coego A, Conejero V, Vera P (1999) Genomic cluster containing four differentially regulated subtilisin-like processing protease genes is in tomato plants. J Biol Chem 274:2360-2365
29. Jurges G, Kassemeyer H-H, Dürrenberger M, Duggelin M, Nick P (2009) The mode of interaction between Vitis and Plasmopara viticola Berk. & Curt. Ex de Bary depends on the host species. Plant Biol 11(6):886-898
30. Kong HY, Lee SC, Hwan BK (2001) Expression of pepper cyclophilin gene is differentially regulated during the pathogen infection and abiotic stress conditions. Physiol Mol Plant Pathol 59:189-199 (Pubitemid 34000021)
31. Kortekamp A, Zyprian E (2003) Characterization of Plasmopara-resistance in grapevine using in vitro plants. J Plant Physiol 160:1393-1400 (Pubitemid 37446896)
32. Kortekamp A, Welter L, Vogt S, Knoll A, Schwander F, Topfer R, Zyprian E (2008) Identification, isolation and characterization of a CC-NBS-LRR candidate disease resistance gene family in grapevine. Mol Breed 22(3):421-432
33. Lee Y, Tsai J, Sunkara S, Karamycheva S, Pertea G, Sultana R, Antonescu V, Chan A, Cheung F, Quackenbush J (2005) The TIGR gene indices: clustering and assembling EST and known genes and integration with eukaryotic genomes. Nucleic Acids Res 33:D71-D74 (Pubitemid 40207833)
34. Lee J, Park S, Kim J, Lee S, Park Y, Cheong G, Hahm K, Lee S (2007) Molecular and functional characterization of a cyclophilin with antifungal activity from Chinese cabbage. Biochem Bioph Res Co 353(3):672-678 (Pubitemid 46048722)
35. Livak K, Schmittgen T (2001) Analysis of relative gene expression data using real-Time quantitative PCR and the 2-CT method. Methods 25:402-408 (Pubitemid 34164012)
36. Lukasik E, Takken F (2009) STANDing strong, resistance proteins instigators of plant defense. Curr Opin Plant Biol 12:427-436
37. Malacarne G, Vrhovsek U, Zulini L, Cestarol A, Stefanini M, Mattivi F, Delledonne M, Velasco R, Moser C (2011) Resistance to Plasmopara viticola in a grapevine segregating population is associated with stilbenoid accumulation and with specific host transcriptional responses. BMC Plant Biol 11:114
38. Merdinoglu D, Wiedemann-Merdinoglu S, Coste P, Dumas V, Haetty S, Butterlin G, Greif C (2003) Genetic analysis of downy mildew resistance derived from Muscadinia rotundifolia. Acta Hort 451-456.
39. Palloix A, Ayme V, Moury B (2009) Durability of plant major resistance genes to pathogens depends on the genetic background, experimental evidence and consequences for breeding strategies. New Phytol 183:190-199
40. Peressotti E, Wiedemann-Merdinoglu S, Delmotte F, Bellin D, Di Gaspero G, Testolin R, Merdinoglu D, Mestre P (2010) Breakdown of resistance to grapevine downy mildew upon limited deployment of a resistant variety. BMC Plant Biol 10:147
41. Polesani M, Desario F, Ferrarini A, Zamboni A, Pezzotti M, Kortekamp A, Polverari A (2008) CDNA-AFLP analysis of plant and pathogen genes expressed in grapevine infected with Plasmopara viticola. BMC Genomics 9:142
42. Polesani M, Bortesi L, Ferrarini A, Zamboni A, Fasoli M, Zadra C, Lovato A, Pezzotti M, Delledonne M, Polverari A (2010) General and species-specific transcriptional responses to downy mildew infection in a susceptible (Vitis vinifera) and a resistant (V. riparia) grapevine species. BMC Genomics 11:117-133
43. Quackenbush J, Cho J, Lee D, Liang F, Holt I, Karamycheva S, Parvizi B, Pertea G, Sultana R, White J (2001) The TIGR gene indices: analysis of gene transcript sequences in highly sampled eukaryotic species. Nucleic Acids Res 29(1):159-164 (Pubitemid 32054434)
44. Richard S, Lapointe G, Rutledge R, Seguin A (2000) Induction of chalcone synthase expression in white spruce by wounding and jasmonate. Plant Cell Physiol 41(8):982-987
45. Rotter A, Camps C, Lohse M, Kappel C, Pilati S, Hren M, Stitt M, Coutos-Thevenot P, Moser C, Usadel B, Delrot S, Gruden K (2009) Gene expression profiling in susceptible interaction of grapevine with its fungal pathogen Eutypa lata: extending Map-Man ontology for grapevine. BMC Plant Biol 9:104
46. Ruepp A, Zollner A, Maier D, Albermann K, Hani J, Mokrejs M, Tetko I, Guldener U, Mannhaupt G, Munsterkotter M, Mewes H (2004) The FunCat, a functional annotation scheme for systematic classification of proteins from whole genomes. Nucleic Acids Res 32:5539-5545 (Pubitemid 39545671)
47. Schwander F, Eibach R, Fechter I, Hausmann L, Zyprian E, Topfer R (2011) Rpv10: a new locus from the Asian Vitis gene pool for pyramiding downy mildew resistance loci in grapevine. Theor Appl Gen. doi:10.007/s00122-011-1695-4
48. Soria-Guerra R, Rosales-Mendoza S, Chang S, Haudenshield J, Padmanaban A, Rodriguez-Zas S, Hartman G, Ghabrial S, Korban S (2010) Transcriptome analysis of resistant and susceptible genotypes of Glycine tomentella during Phakopsora pachyrhizi infection reveals novel rust resistance genes. Theor Appl Genet 120(7):1315-1333
49. Susnow N, Zeng L, Margineantu D, Hockenbery D (2009) Bcl-2 family proteins as regulators of oxidative stress. Semin Cancer Biol 19(1):42-49
50. Suzek B, Huang H, McGarvey P, Mazumder R, Wu C (2007) UniRef: comprehensive and non-redundant UniProt reference clusters. Bioinformatics 23:1282-1288 (Pubitemid 47050545)
51. Takken FL, Albrecht M, Tameling WI (2006) Resistance proteins: molecular switches of plant defense. Curr Opin Plant Biol 9:383-390 (Pubitemid 44202280)
52. Tornero P, Conejero V, Vera P (1996) Primary structure and expression of a pathogen-induced protease (PR-P69) in tomato plants: similarity of functional domains to subtilisin-like endoproteases. Proc Natl Acad Sci USA 6332-6337
53. Tornero P, Conejero V, Vera P (1997) Identification of a new pathogeninduced member of the subtilisin-like processing protease family from plants. J Biol Chem 272:14412-14419 (Pubitemid 27232859)
54. Treutter D (2006) Significance of flavonoids in plant resistance: a review. Environ Chem Lett 4:147-157 (Pubitemid 44138083)
55. van der Hoorn R, Jones J (2004) The plant proteolytic machinery and its role in defense. Curr Opin Plant Biol 7:400-407 (Pubitemid 38871613)
56. Vitis International Variety Catalogue. http://www.vivc.de. Accessed 2 June 2011
57. Welter L, Gokturk-Baydar N, Akkurt M, Maul E, Eibach R, Topfer R, Zyprian E (2007) Genetic mapping and localization of quantitative trait loci affecting fungal disease resistance and leaf morphology in grapevine (Vitis vinifera L). Mol Breed 20(4):359-374 (Pubitemid 47497969)
58. Wu J, Zhang Y, Zhang H, Huang H, Folta K, Lu J (2010) Whole genome wide expression profiles of Vitis amurensis grape responding to downy mildew by using Solexa sequencing technology. BMC Plant Biol 10:16
59. Yan J, He C, Zhang H (2003) The BAG-family proteins in Arabidopsis thaliana. Plant Sci 165(1):1-7 (Pubitemid 36796756)
60. Zeng Y, Yang T (2002) RNA isolation from highly viscous samples rich in polyphenols and polysaccharides. Plant Mol Biol Rep 20: 417a-417e (Pubitemid 39239017)