Fusarium sporotrichioides cDNA Sequencing
updated 11/11/2010 - broe
To date, we have isolated over 5000 cDNA clones from Fusarium sporotrichioides in collaboration with Dr. Marian Beremand and her students Andrew Peplow and Andrew Tag at the Department of Plant Pathology and Microbiology at Texas A&M University, College Station, Texas.
Fusarium sporotrichioides Latest Data Release - May 19, 2000
- The Fusarium sporotrichioides EST's are being generated by Qun Ren in our Genome Center at the University of Oklahoma.
- We now have end sequenced all available templates
from both ends of the directionally cloned inserts after excision into
- After screening out ribosomal RNA, mitochondrial RNA, vector and small
(less than 100bp) inserts, we have 7495 Phred (Phil Green, University of Washington) high quality sequences representing 2,515,668 total bases.
- All of our data is available from our ftp site, and we now have added the ability
to perform blast searches on this data. A keyword search of a blastx search of GenBank with this data also is available.
- All of our data also is available in GenBank dbEST with accession numbers BE605248 through BI202372
that can be found by searching dbEST for the phrase:
Analysis of a Fusarium sporotrichioides EST database
Search the Fusarium sporotrichioides cDNA sequence data
Obtaining the sequence data via ftp
All of the cDNA sequence data we have obtained to date is available from our
ftp site directly, by anonymous ftp to ftp.genome.ou.edu (logon as anonymous with
password your e-mail address), cd to /pub/fs and get the ascii data file
called fs_est_with_anno.fa or fs_est_wo_anno.fa. These files contains all
the EST's sequenced to date concatenated into a flat file either with or
without annotation, respectively.
Fusarium sporotrichioides Sequencing Data via ftp
Fusarium sporotrichioides S
equencing Data via ftp to ftp://ftp.genome.ou.edu/home/ftp/pub/fs/
Clarification of our naming convention
For Fusarium sporotrichioides
- The 3' end sequences have the notation .f1 at the end of the clone name
- The 5' end sequences have the notation .r1 at the end of the clone name
At the present time, none of the cDNA clones are available for distribution.
We anticipate at some point to generate a set of arrayed cDNA clones that will be made available through the ATCC.
Should you find this data useful and wish to reference it, please acknowledge
the Fusarium sporotrichioides cDNA Sequencing Project,
and Bruce A. Roe, Qun Ren, Doris Kupfer, HongShing Lai, Marian Beremand, Andrew Peplow and Andrew Tag; this
project is supported by funds from the University of Oklahoma, Texas A&M University and the NSF-EPSCoR program.
If possible, please send us both the literature citation once published,
and a copy of the manuscript.
Bruce Roe, Qun Ren, Andy Peterson, Doris Kupfer, HongShing Lai, Marian Beremand, Andrew Peplow and Andrew Tag.
The University of Oklahoma, Department of Chemistry and Biochemistry, Norman,
Oklahoma 73019 and Texas A&M University, Department of Plant Pathology and Microbiology, College Station, Texas.
Bruce Roe, email@example.com
Qun Ren, firstname.lastname@example.org
Doris Kupfer, email@example.com
Marian Beremand, firstname.lastname@example.org
Bruce Roe, email@example.com