Large Scale Identification of Genes Involved in Plant–Fungal Interactions Using Illumina’s Sequencing-by-Synthesis Technology

Methods in Molecular Biology

Volumn 722, Issue , 2011, Pages 167-178

  Venu, R C ^b   Zhang, Yuan ^b   Weaver, Brian ^b   Carswell, Peter ^b   Mitchell, Thomas K ^b   Meyers, Blake C ^b   Boehm, Michael J ^b   Wang, Guo Liang ^a  

^a OHIO STATE UNIVERSITY   (United States)

^b NONE

Author keywords

Bioinformatics; Creeping bentgrass; Sclerotinia homoeocarpa; Sequencing by synthesis; Transcriptome analysis

Indexed keywords

FUNGAL PROTEIN; MESSENGER RNA; VEGETABLE PROTEIN;

AGROSTIS; ARTICLE; ASCOMYCETES; BIOLOGY; DNA SEQUENCE; FUNGAL GENOME; GENE EXPRESSION PROFILING; GENE LIBRARY; GENETICS; GROWTH, DEVELOPMENT AND AGING; HOST PATHOGEN INTERACTION; METABOLISM; METHODOLOGY; MICROBIOLOGY; MYCELIUM; PHYSIOLOGY; PLANT DISEASE; PLANT GENOME;

AGROSTIS; ASCOMYCOTA; COMPUTATIONAL BIOLOGY; FUNGAL PROTEINS; GENE EXPRESSION PROFILING; GENE LIBRARY; GENOME, FUNGAL; GENOME, PLANT; HOST-PATHOGEN INTERACTIONS; MYCELIUM; PLANT DISEASES; PLANT PROTEINS; RNA, MESSENGER; SEQUENCE ANALYSIS, DNA;

EID: 80052536391     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-040-9_12     Document Type: Chapter

References (16)

1. Couch, H.B. (1995) Diseases of turfgrasses, 3rd ed. Krieger publishing co., Malabar, FL.
2. Smiley, R.W., Dernoeden, P.H. and Clarke, B.B. (2005) Compendium of Turfgrass Diseases. Third Edition, APS Press.
3. Vargas, J.M. (2005) Management of turfgrass diseases. 3rd edition, John Wiley and Sons, Inc., New Jersey.
4. Venu, R. C., Beaulieu, R.A., Graham, T.L., Medina, A.M. and Boehm, M.J. (2009) Dollar spot fungus Sclerotinia homoeocarpa produces oxalic acid. Inter. Turfgrass Soc. Res. J. 11, 263–270.
5. Walsh, B., Ikeda, S.D. and Boland, G.J. (1999) Biology and management of dollar spot (Sclerotinia homoeocarpa): an important disease of turfgrass. Hort. Sci. 34, 13–21.
6. Gowda, M., Jantasuriyarat, C., Dean R., Wang, G.L. (2004) A robust-longSAGE method for large-scale gene discovery and transcriptome profiling. Plant Physiol. 134, 890–897.
7. Jantasuriyarat, C., Gowda, M., Haller, K., Hatfield, J., Lu, G., Stahlberg, E., et al. (2005) Large-scale identification of ESTs involved in rice and rice blast (Magnaporthe grisea) interaction. Plant Physiol. 138, 105–115.
8. Venu, R.C., Jia, Y., Gowda, M., Jia, M.H., Jantasuriyarat, C., Stahlberg, E., et al. (2007) RL-SAGE and microarray analysis of the rice transcriptome after Rhizoctonia solani infection. Mol. Genet. Genomics 278, 421–431.
9. Wise, P.R., Moscou, J, M., Bogdanove, J.A., and Whitham, A.S. (2007) Transcript profiling in host-pathogen interactions. Annu. Rev. Phytopathol. 45, 329–369.
10. Margulies, M., Egholm, M., Altman, W.E., Attiya, S., Bader, J.S., Bemben, L.A., et al. (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437, 376–380.
11. Bentley, D.R. (2006) Whole-genome rese-quencing. Curr. Opin. Genet. Dev. 16,545–552.
12. Shendure, J., Porreca, G.J., Reppas, N.B., Lin, X., McCutcheon, J.P., Rosenbaum, A.M., et al. (2005) Accurate multiplex polony sequencing of an evolved bacterial genome. Science 309, 1728–1732.
13. Simon, S.A., Zhai, J., Nandety, R.S., McCormick, Zeng, J., Mejia, D., et al. (2009) Short-read sequencing technologies for transcriptional analyses. Annu. Rev. Plant Biol. 60, 305–333.
14. Bennett, F.T. (1937) Dollar spot disease of turf and its causal organism. Sclerotinia homoeocarpa n. sp. Ann. Appl. Biol. 24, 236–257.
15. Meyers, B.C., Tej, S.S., Vu, T.H., Haudenschild, C.D., Agrawal, V., Edberg, S.B., et al. (2004) The use of MPSS for whole-genome transcriptional analysis in Arabidopsis. Genome Res. 14, 1641–1653.
16. Nobuta, K., Venu, R.C., Lu, C., Belo, A., Vemaraju K., Kulkarni K., et al. (2007) An expression atlas of rice mRNA and small RNA. Nat. Biotechnol. 25, 473–477.