P. omnivora and E. festucae Genomic and EST Sequencing


Phymatotrichum omnivorum, the causative fungal agent of cotton root rot, is one of the most destructive of plant diseases, with a significant economic impact on numerous crops, including alfalfa, peanuts, pecans, fruit trees, grapes, and vegetables.

Epichloe festucae, a mutualistic symbiont (endophyte) of temperate grasses, to which they impart numerous and profound fitness benefits, is a model for endophyte research that is amenable to both Mendelian and molecular genetic analysis.


We presently are sequencing the Phymatotrichum omnivorum genome with funding for 6-fold coverage from the Oklahoma Department of Agriculture, in collaboration with Steve Marek at Oklahoma State University and Rick Dixon and collegues at the Noble Foundation, Ardmore, OK.

Search the Phymatotrichum omnivorum genome sequence data


Search the Phymatotrichum omnivorum EST sequence data


Search the Epichloe festucae genome sequence data


Obtaining the sequence data via ftp

All of our shotgun sequence data is available via ftp (see below) but at the present time, the various contigs are in "random" order and do not correspond to any specific relationship one to another. Please be aware that the order and contig number will change with each new release of data.

Please note that the 454 data not only is included in the 2368 assembly assembly along with the ABI 3730 data but also is available as separate, 454 contigs assembled without 3730 data. However, you should only search the 454 only data if your query sequence did not find a match in the 2368 assembly.

Caution: the data has been neither proof read nor edited and thus should be considered preliminary raw sequence data. Also, because the sequence assembly program, Phrap, has the tendency to include inaccurate sequence reads on the ends of contigs, be cautious when using sequences within 1-200 bases of the ends of individual contigs. Please take this into account when using this data

If you have determined which contig is of interest to you using the above Blast search capability on the OU Server, this contig(s) are in the appropriate directory:

If however, you determined which contig was of interest using the 'KeyWord Search' option, then the contig(s) of interest will be found via the link above, presently only available for P. omnivorum.


The Epichloe festucae genome is being sequenced in collaboration with Chris Schardl and Uljana Hesse at the University of Kentucky with funding from a National Science Foundation - USDA microbial genome sequencing grant.


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Bruce Roe, broe@ou.edu