Computational protocol: Methionine Biosynthesis is Essential for Infection in the Rice Blast Fungus Magnaporthe oryzae

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Protocol publication

[…] Available fungal genome sequences were searched using different Blast algorithms at the NCBI (http://www.ncbi.nlm.nih.gov/BLAST), Broad Institute (http://www.broad.mit.edu/annotation/fungi) and JGI (http://genome.jgi-psf.org/euk_home.html) websites. The M. oryzae genome sequence version 8 and the corresponding CDS and gene nomenclature (v7) available at the Broad Institute, were used in this study. M. oryzae ESTs were searched using BlastN at the NCBI and COGEME (http://cogeme.ex.ac.uk) websites. Protein sequence alignments and phylogenetic trees were obtained using ClustalW and MEGA 5.1 []. […]

Pipeline specifications

Software tools BLASTN, Clustal W, MEGA
Databases COGEME
Application Phylogenetics
Organisms Magnaporthe oryzae, Hordeum vulgare, Oryza sativa
Diseases Infection
Chemicals Cystathionine, Cysteine, Glutathione, Homocysteine, Methionine, S-Adenosylhomocysteine, S-Adenosylmethionine, Vitamin U