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GENOMICS

Analysis of enriched transcripts induced during velvetleaf - Colletotrichum coccodes interaction

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Pages 133-147 | Accepted 30 Oct 2007, Published online: 01 Apr 2010

References

  • Aharoni , A. and Vorst , O. 2002 . DNA microarrays for functional plant genomics . Plant Mol. Biol. , 48 : 99 – 118 .
  • Ahn , B. , Paulitz , T. , Jabaji-Hare , S. H. and Watson , A. K. 2005a . Enhancement of Colletotrichum coccodes virulence by inhibitors of plant defense mechanisms . Biocontrol Sci. Technol. , 15 : 299 – 308 .
  • Ahn , B. , Paulitz , T. , Jabaji-Hare , S. H. and Watson , A. K. 2005b . Enzyme responses of Abutilon theophrasti in an enhanced biocontrol system . Biocontrol , 50 : 803 – 817 .
  • Altschul , S. F. , Madden , T. L. , Schaffer , A. A. , Zhang , J. H. , Zhang , Z. , Miller , W. and Lipman , D. J. 1997 . Gapped blast and psi-blast — a new generation of protein database search programs . Nucleic Acids Res. , 25 : 3389 – 3402 .
  • Beyer , K. , Binder , A. , Boller , T. and Collinge , M. 2001 . Identification of potato genes induced during colonization by Phytophthora infestans . Mol. Plant Pathol. , 2 : 125 – 134 .
  • Bittner-Eddy , P. D. , Allen , R. L. , Rehmany , A. P. , Birch , P. and Beynon , J. L. 2003 . Use of suppression subtractive hybridization to identify downy mildew genes expressed during infection of Arabidopsis thaliana . Mol. Plant Pathol. , 4 : 501 – 507 .
  • Breakspear , A. and Momany , M. 2007 . The first fifty microarray studies in filamentous fungi . Micorbiology , 153 : 7 – 15 .
  • Butt , A. , Mousley , C. , Morris , K. , Beynon , J. , Can , C. , Holub , E. , Greenberg , J. T. and Buchananwollaston , V. 1998 . Differential expression of a senescence-enhanced metallothionein gene in Arabidopsis in response to isolates of Peronospora parasitica and Pseudomonas syringae . Plant J. , 16 : 209 – 221 .
  • Casado-Diaz , A. , Encinas-Villaerjo , S. , de los Santos , B. , Schiliro , E. , Yubero-Serrano , E.-M. , Amil-Ruiz , F. , Pocovi , M. I. , Pliego-Alfaro , F. , Dorado , G. , Rey , M. , Romero , F. , Munoz-Blanco , J. and Caballero , J.-L. 2006 . Analysis of strawberry genes differentially expressed in response to Colletotrichum infection . Physiol. Plant. , 128 : 633 – 650 .
  • Chatel , G. , Montiel , G. , Pre , M. , Memlink , J. , Thiersault , M. , Saint-Pierre , B. , Doireau , P. and Gantet , P. 2003 . crMYC1, a Catharanthus roseus elicitor- and jasmonate-responsive bHLH transcription factor that bind the G-box element of the strictosidine synthase gene promoter . J. Exp. Bot. , 54 : 2587 – 2588 .
  • Chen , N. , Goodwin , P. H. and Hsiang , T. 2003 . The role of ethylene during the infection of Nicotiana tabacum by Colletotorichum destrcutivum . J. Exp. Bot. , 54 : 2449 – 2456 .
  • Choi , D. , Kim , H. M. , Yun , H. K. , Park , J. A. , Kim , W. T. and Bok , S. H. 1996 . Molecular cloning of a metallothionein-like gene from Nicotiana glutinosa L. and its induction by wounding and tobacco mosaic virus infection . Plant Physiol. , 112 : 353 – 359 .
  • Cleveland , W. S. 1979 . Robust locally weighted regression and smoothing scatterplots . J. Am. Stat. Assoc. , 74 : 829 – 836 .
  • Cobbett , C. and Goldsbrough , P. 2002 . Phytochelatins and metallothioneins: roles in heavy metal detoxification and homeostasis . Annu. Rev. Plant Biol. , 53 : 159 – 182 .
  • Dat , J. , Vandenabeele , S. , Vranova , E. , Van Montagu , M. , Inze , D. and Van Breusegem , F. 2000 . Dual action of the active oxygen species during plant stress responses . Cell. Mol. Life Sci. , 57 : 779 – 795 .
  • Dauch , A. L. 2006 . Velvet-Colletotrichum coccodes pathosystem: molecular monitoring of the pathogen and gene expression analysis during plant-pathogen interaction , 275 Montreal, Que : McGill University . Ph.D. thesis
  • Dauch , A. L. and Jabaji-Hare , S. H. 2006 . Metallothionein and bZIP tanscription factor genes from velvetleaf and their differential expression following Colletotrichum coccodes infection . Phytopathology , 96 : 1116 – 1123 .
  • Dauch , A. L. , Watson , A. K. and Jabaji-Hare , S. H. 2003 . Detection of the biocontrol agent Colletotrichum coccodes (183088) from the target weed velvetleaf and from soil by strain-specific PCR markers . J. Microbiol. Methods , 55 : 51 – 64 .
  • Dauch , A. L. , Ahn , B. , Waston , A. K. , Seguin , P. and Jabaji-Hare , S. H. 2006 . Molecular monitoring of wild-type and genetically engineered Colletotrichum coccodes strains in planta . Plant Dis. , 90 : 1504 – 1510 .
  • Diatchenko , L. , Lau , Y.-F. C. , Campbell , A. P. , Chenchik , A. , Moqadam , F. , Huang , B. , Lukyanov , S. , Lukyanov , K. , Gurskaya , N. , Sverdlov , E. D. and Siebert , P. D. 1996 . Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries . Proc. Natl. Acad. Sci. U.S.A. , 93 : 6025 – 6030 .
  • Diatchenko , L. , Lukyanov , S. , Lau , Y. F. C. and Siebert , P. D. 1999 . Suppression subtractive hybridization: a versatile method for identifying differentially expressed genes . Meth. Enzymol. , 303 : 349 – 380 .
  • DiTommaso , A. and Watson , A. K. 1995 . Impact of a fungal pathogen, Colletotrichum coccodes on growth and competitive ability of Abutilon theophrasti . New Phytol. , 131 : 51 – 60 .
  • Dowd , C. , Wilson , L. W. and McFadden , H. 2004 . Gene expression profile changes in cotton root and hypocotyl tissues in response to infection with Fusarium oxysporum f. sp vasinfectum . Mol. Plant-Microbe Interact. , 17 : 654 – 667 .
  • Eulgem , T. , Rushton , P. J. , Robatzek , S. and Somssich , I. E. 2000 . The WRKY superfamily of plant transcription factors . Trends Plant Sci. , 5 : 199 – 206 .
  • Ferl , R. J. 2004 . 14-3-3 proteins: regulation of signal-induced events . Physiol. Plant. , 120 : 173 – 178 .
  • Finnie , C. , Borch , J. and Collinge , D. B. 1999 . 14-3-3 proteins: eukaryotic regulatory proteins with many functions . Plant Mol. Biol. , 40 : 545 – 554 .
  • Ford , C. E. 1938 . A contribution to a cytological survey of the Malvaceae . Genetica , 20 : 431 – 452 .
  • Foster-Hartnett , D. , Penuela , S. , Danesh , D. , Sharapova , K. A. , VandenBosch , K. A. , Young , N. D. and Samac , D. A. Histochemical and transcriptome analysis of the interactions between Medicago truncatula and the pathogens Colletotrichum trifolii and Erisyphe pisi. Legumes for the benefit of agriculture, nutrition and the environment . Proceedings of 2nd International Conference on Legume Genomics and Genetics . June 7–11 2004 , Dijon, France. pp. 239
  • Friedel , C. C. , Jahn , K. H. , Sommer , S. , Rudd , S. , Mewes , H. W. and Tetko , I. V. 2005 . Support vector machines for separation of mixed plant-pathogen EST collections based on codon usage . Bioinformatics , 21 : 1383 – 1388 .
  • Gardes , M. and Bruns , T. D. 1993 . ITS primers with enhanced specificity for basidiomycetes — application to the identification of mycorrhizae and rusts . Mol. Ecol. , 2 : 113 – 118 .
  • Goodwin , P. H. 2001 . A molecular weed-mycoherbicide interaction: Colletotrichum gloeosporioides f. sp. malvae and round-leaved mallow, Malva pusilla . Can. J. Plant Pathol. , 23 : 28 – 35 .
  • Goodwin , P. H. , Oliver , R. P. and Hsiang , T. 2004 . Comparative analysis of expressed sequence tags from Malva pusilla, Sorghum bicolor, and Medicago truncatula infected with Colletotrichum species . Plant Sci , 167 : 481 – 489 .
  • Gotlieb , A. R. , Watson , A. K. and Poirier , C. 1987 . First report of Colletotrichum coccodes on velvetleaf . Plant Dis. , 71 : 281
  • Green , C. D. , Simsons , J. F. , Taillon , B. E. and Lewin , D. A. 2001 . Open system: panoramic view of gene expression . J. Immunol. Methods , 250 : 67 – 79 .
  • Grimaud , G. , Ezraty , B. , Mitchell , J. K. , Lafitte , D. , Briand , C. , Derrick , P. J. and Barras , F. 2001 . Repair of oxidized proteins — identification of a new methionine sulfoxide reductase . J. Biol. Chem. , 276 : 48915 – 48920 .
  • Guilleroux , M. and Osbourne , A. 2004 . Gene expression during infection of wheat roots by the Take-all fungus Gaeumannomyces graminis. . Mol. Plant Pathol. , 5 : 203 – 216 .
  • Hourvitz , A. , Gershon , E. , Hennebold , J. D. , Elizur , S. , Maman , E. , Brendle , C. , Adashi , E. Y. and Dekel , N. 2006 . Ovulation-selective genes: the generation and characterization of an ovulatory-selective cDNA library . J. Endocrinol. , 188 : 531 – 548 .
  • Kazan , K. , Schenk , P. M. , Wilson , I. and Manners , J. M. 2001 . DNA microarrays: new tools in the analysis of plant defense responses . Mol. Plant Pathol. , 2 : 177 – 185 .
  • Lahey , K. A. , Yuan , R. C. , Burns , J. K. , Ueng , P. P. , Timmer , L. W. and Chung , K. R. 2004 . Induction of phytohormones and differential gene expression in citrus flowers infected by the fungus Colletotrichum acutatum . Mol. Plant Microbe Interact. , 17 : 1394 – 1401 .
  • Laplaze , L. , Gherbi , H. , Duhoux , E. , Pawlowski , K. , Auguy , F. , Guermache , F. , Franche , C. and Bogusz , D. 2002 . Symbiotic and non-symbiotic expression of Cgmt1, a metallothionein-like gene from the actinorhizal tree Casuarina glauca . Plant Mol. Biol. , 49 : 81 – 92 .
  • Latunde-Dada , A. O. 2001 . Colletotrichum: tales of forcible entry, stealth, transient confinement and breakout . Mol. Plant Pathol. , 2 : 187 – 198 .
  • Lu , G. H. , DeLisle , A. J. , de Vetten , N. C. and Ferl , R. J. 1992 . Brain proteins in plants: an Arabidopsis homolog to neurotransmitter pathway activators is part of a DNA binding complex . Proc. Natl. Acad. Sci. U.S.A. , 89 : 11490 – 11494 .
  • Luo , M. , Dang , P. , Bausher , M. G. , Holbrook , C. C. , Lee , R. D. , Lynch , R. E. and Guo , B. Z. 2005 . Identification of transcripts involved in resistance responses to leaf spot disease caused by Cercosporidium personatum in peanut (Arachis hypogaea) . Phytopathology , 95 : 381 – 387 .
  • Mittler , R. , Vanderauwera , S. , Gollery , M. and Van Breusegem , F. 2004 . Reactive oxygen gene network of plants . Trends Plant Sci. , 9 : 490 – 498 .
  • Naruska , M. , Abe , H. , Kobayashi , M. , Kibo , Y. and Narusaka , Y. 2006 . Comparative analysis of expression profiles of counterpart gene sets between Brassica rapa and Arabidopsis thaliana during fungal pathogen Colletotrichum higginsianum infection . Plant Biotechnol. , 23 : 503 – 508 .
  • Pfaffl , M. W. 2001 . A new mathematical model for relative quantification in real-time RT-PCR . Nucleic Acids Res. , 29 : 2002 – 2007 .
  • Pfaffl , M. W. , Horgan , G. W. and Dempfle , L. 2002 . Relative expression software tool (REST®) for group-wise comparison and statistical analysis of relative expression results in real-time PCR . Nucleic Acids Res. , 30 : e36
  • Raid , R. N. and Pennypacker , S. P. 1987 . Weeds as hosts for Colletotrichum coccodes . Plant Dis. , 71 : 643 – 646 .
  • Rozen , S. and Skaletsky , H. J. 2000 . “ Primer3 on the www for general users and for biologist programmers ” . In Bioinformatics methods and protocols: methods in molecular biology , Edited by: Krawetz , S. and Misener , S. 365 – 386 . Totowa, N.J : Humana Press .
  • Shan , X. C. and Goodwin , P. H. 2005 . Identification of a SAR8.2 gene in the susceptible host response of Nicotiana benthamiana to Colletotrichum orbiculare . Funct. Plant Biol , 32 : 259 – 266 .
  • Shan , X. C. and Goodwin , P. H. 2006 . Silencing an ACC oxidase gene affects the susceptible host response to Nicotiana benthamiana to infection by Collototrichum orbiculare . Plant Cell Rep , 25 : 241 – 247 .
  • Singh , K. B. , Foley , R. C. and Onate-Sanchez , L. 2002 . Transcription factors in plant defense and stress responses . Curr. Opin. Plant Biol. , 5 : 430 – 436 .
  • Strömvik , M. V. , Thibaud-Nissen , F. and Vodkin , L. O. 2004 . Mining soybean expressed sequence tag and microarray data . Recent Adv. Phytochem. , 38 : 177 – 195 .
  • Sugui , J. A. and Deising , H. B. 2002 . Isolation of infection-specific sequence tags expressed during early stages of maize anthracnose disease development . Mol. Plant Pathol. , 3 : 197 – 203 .
  • Swofford , D. L. 2002 . PAUP*: phylogenetic analysis using pasimony (and other methods) , Sunderland, Mass : Sinaur Associates . Version 4.0 Beta test 10
  • Thara , V. K. , Fellers , P. and Zhou , J. M. 2003 . In plant induced genes of Puccinia triticina . Mol. Plant Pathol. , 4 : 51 – 56 .
  • The UniProt Consortium. 2007 . The universal protein resource (UniProt) . Nucleic Acids Res. , 35 : D193 – D197 .
  • Thompson , J. D. , Higgins , D. G. and Gibson , T. J. 1994 . ClustalW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice . Nucleic Acids Res. , 22 : 4673 – 4680 .
  • Torregrosa , C. , Cluzet , S. , Fournier , J. , Huguet , T. , Gamas , P. , Prosperi , J. M. , Esquerre-Tugayé , M.-T. , Dumas , B. and Jacquet , C. 2004 . Cytological, genetic and molecular analysis to characterize compatible and incompatible interactions between Medicago truncatla and Colletotrichum trifolii. . Mol. Plant-Microbe Interact. , 17 : 909 – 920 .
  • van den Berg , N. , Crampton , B. G. , Hein , I. , Birch , P. R. J. and Berger , D. K. 2004 . High-throughput screening of suppression subtractive hybridization cDNA libraries using DNA microarray analysis . Biotechniques , 37 : 818 – 824 .
  • Wan , J. , Dunning , F. M. and Bent , A. F. 2002 . Probing plant-pathogen interactions and downstream defense signaling using DNA microarrays . Funct. Integr. Genomics , 2 : 259 – 273 .
  • Watson , A. K. , Gressel , J. , Sharon , A. and Dinoor , A. 2000 . “ Colletotrichum strains for weed control ” . In Colletotrichum: host specificity, pathology, and host pathogen interaction , Edited by: Prusky , D. , Freeman , S. and Dickman , M. B. 245 – 265 . St. Paul, Minn : APS Press .
  • White , T. J. , Bruns , T. , Lee , S. and Taylor , J. 1990 . “ Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics ” . In PCR protocols: a guide to methods and applications , Edited by: Innis , M. A. , Gelfand , D. H. , Sninsky , J. S. and White , T. J. 315 – 322 . San Diego, Calif : Academic Press, Inc .
  • Winstanley , C. 2002 . Spot the difference: applications of subtractive hybridisation to the study of bacterial pathogens . J. Med. Microbiol. , 51 : 459 – 467 .
  • Yaffe , M. B. 2002 . How do 14-3-3 proteins work? — Gatekeeper phosphorylation and the molecular anvil hypothesis . FEBS Lett. , 513 : 53 – 57 .
  • Yang , P. Y. , Ross , D. T. , Kuang , W. W. , Brown , P. O. and Weigel , R. J. 1999 . Combining SSH and cDNA microarrays for rapid identification of differentially expressed genes . Nucleic Acids Res. , 27 : 1517 – 1523 .
  • Yu , X. , Hallett , S. G. , Sheppard , J. and Watson , A. K. 1997 . Application of the Plackett-Burman experimental design to evaluate nutritional requirements for the production of Colletotrichum coccodes spores . Appl. Microbiol. Biotechnol. , 47 : 301 – 305 .

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