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Transcriptome analysis of Neotyphodium and Epichloë grass endophytes

Felitti, S. and Shields, K. and Ramsperger, M. and Tian, P. and Sawbridge, T. and Webster, T. and Logan, E. and Erwin, T. and Forster, J. and Edwards, D. and Spangenberg, G. (2006) Transcriptome analysis of Neotyphodium and Epichloë grass endophytes. Fungal Genetics and Biology, 43 (7). pp. 465-475.

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Article Link(s): http://dx.doi.org/10.1016/j.fgb.2006.01.013

Publisher URL: http://www.elsevier.com

Abstract

Large-scale gene discovery has been performed for the grass fungal endophytes Neotyphodium coenophialum, Neotyphodium lolii, and Epichloë festucae. The resulting sequences have been annotated by comparison with public DNA and protein sequence databases and using intermediate gene ontology annotation tools. Endophyte sequences have also been analysed for the presence of simple sequence repeat and single nucleotide polymorphism molecular genetic markers. Sequences and annotation are maintained within a MySQL database that may be queried using a custom web interface. Two cDNA-based microarrays have been generated from this genome resource. They permit the interrogation of 3806 Neotyphodium genes (NchipTM microarray), and 4195 Neotyphodium and 920 Epichloë genes (EndoChipTM microarray), respectively. These microarrays provide tools for high-throughput transcriptome analysis, including genome-specific gene expression studies, profiling of novel endophyte genes, and investigation of the host grass–symbiont interaction. Comparative transcriptome analysis in Neotyphodium and Epichloë was performed

Item Type:Article
Corporate Creators:Plant Science
Additional Information:© Elsevier.
Keywords:Endophyte; Neotyphodium; Epichloë; database; expressed sequence tag; annotation; gene ontology; simple sequence repeat; single nucleotide polymorphism; microarrays; transcriptome analysis.
Subjects:Science > Botany > Cryptogams
Science > Biology > Genetics > Quantitative genetics (esp. Quantitative Trait Loci (QTL) articles)
Deposited On:03 Feb 2009 02:06
Last Modified:16 Jun 2011 23:18

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