Cryptococcus neoformans cDNA Sequencing
Cryptococcus neoformans is an encapsulated yeast
that infects the human host via the respiratory
tract where it usually causes an inapparent infection.
In the susceptible host, it may disseminate, typically
producing a chronic and life-threatening meningitis.
The Cryptococcus neoformans serotypes A and D
are responsible for the overwhelming majority of pulmonary
infections in AIDS patients.
Cryptococcus neoformans strain H99 Latest Data Release - May 19, 2004
- To date, we have isolated ca. 3750 cDNA clones from Cryptococcus
neoformans strain H99 in collaboration with Drs. Juneann Murphy and Dave Dyer
at the University of Oklahoma Health Sciences Center's Department of
Microbiology and Immunology in Oklahoma City and Kent Buchanan at
the Tulane University Medical School, New Orleans, LA.
- The Cryptococcus neoformans strain H99 EST's have been generated by Doris Kupfer,
Heather Bell, Sunkyoung So, Yuong Tang,
and Jennifer Lewis at the University of Oklahoma's Advanced Center for
Genome Technology, in the Department of Chemistry and Biochemistry.
- We now have end sequenced all available templates (ca. 7500 reactions)
from both ends of the directionally cloned inserts after excision into
pBlueScript SK-.
.
- 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 but we have not yet linked this to a
unigene database as the number of EST's sequenced doesn't warrent this yet.
Cryptococcus neoformans strain B3501 Latest Data Release - May 19, 2004
- The Cryptococcus neoformans strain B3501 EST's are being generated by Doris Kupfer, Heather Bell, Sunkyoung So, Yuong Tang,
Sara Downard, Laura Hern and Ging Sobharaksha in collaboration with Juneann Murphy and Dave Dyer at the OU-Health Sciences Center, and Kent Buchanan at the Tulane University Medical School.
- We earlier end sequenced all available templates (ca. 4000 reactions)
from both ends of the directionally cloned inserts after excision into
pBlueScript SK- and now have end sequenced an additional 1700 cDNAs to obtain ca. 3300 ESTs from c. neo gwown in Low Iron Media.
- All of our data be available from our ftp site, and we will add the ability
to perform blast searches on this data. A keyword search of a blastx search of GenBank with this data also will be available.
Cryptococcus neoformans strain 184A Latest Data Release - May 19, 2004
- The Cryptococcus neoformans strain 184A EST's are being generated by Doris Kupfer and Sunkyoung So in collaboration with Juneann Murphy and Dave Dyer at the OU-Health Sciences Center, and Kent Buchanan at the Tulane University Medical School.
- We now have end sequenced all available templates (ca. 2525 reactions)
from both ends of the directionally cloned inserts after excision into
pBlueScript SK-.
- All of our data be available from our ftp site, and we will add the ability
to perform blast searches on this data. A keyword search of a blastx search of GenBank with this data also will be available.
Search the Cryptococcus neoformans 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/cneo and get the ascii data file
called cneo_est_with_anno.fa or cneo_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.
Cryptococcus neoformans strain H99 Sequencing Data via ftp
Cryptococcus neoformans strain B3501 Sequencing Data via ftp
Cryptococcus neoformans strain 184A Sequencing Data via ftp
Clarification of our naming convention
For Cryptococcus neoformans
- 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
Clone Availability
Many of cDNAs representing individual ESTs have been deposited at the
Fungal Genetics Stock Center and they should be contacted should
you be interested in obtaining any of the cDNA clones that we have sequenced.
Other Cryptococcus neoformans Sites
Acknowledgment
Should you find this data useful and wish to reference it, please acknowledge
the Cryptococcus neoformans cDNA Sequencing Project,
NIH-NIAID grant number AI147079
and Bruce A. Roe, Doris Kupfer, Heather Bell, Sun So, Yuong Tang, Jennifer Lewis, Sola Yu, Kent Buchanan, Dave Dyer and Juneann Murphy; this
project is supported by NIH-NIAID grant number AI147079.
If possible, please send us both the literature citation once published,
and a copy of the manuscript.
Thanks, Bruce Roe, Doris Kupfer, Heather Bell, Sun So, Yuong Tang, Jennifer Lewis, Sola Yu, Kent Buchanan, Dave Dyer and Juneanne Murphy.
The University of Oklahoma, Department of Chemistry and Biochemistry, Norman,
Oklahoma 73019 and the University of Oklahoma Health Sciences Center,
Department of Microbiology and Immunology, Oklahoma City, Oklahoma.
Bruce Roe, broe@ou.edu
Juneann Murphy, Juneann-Murphy@ouhsc.edu
Kent Buchanan, kbuchan@mailhost.tcs.tulane.edu
Dave Dyer, dyer@microbiology.bmsb.uokhsc.edu
Bruce Roe, broe@ou.edu