Neisseria gonorrhoeae Genome Sequencing
Strain FA 1090
One contiguous sequence 2,153,922 bp, GenBank Acc. No. AE004969
On 08-02-00 one contiguous sequence was obtained when the final gaps
in the sequence were closed. This sequence now is at HTGS phase 3 and
annotation is underway.
On 09-18-00 the sequence was circularized and then manually linearized
to begin at the DNA-A gene.
This joint project being completed as a collaboration
between our laboratory at the University of Oklahoma, Norman Campus's Advanced Center for Genome Technology,
in the Department of Chemistry and Biochemistry, which is funded
in part by an NSF EPSCoR grant, and Dr. Dave Dyer's laboratory
in the Department of Microbiology and Immunology at the University of Oklahoma Health Sciences Center. This project is funded by USPHS NIH grant #AI38399.
Neisseria gonorrhoeae Genome Sequencing Progress
- To date, we have sequenced over 23,000 individual, shotgun-based, double stranded templates generated from a randomly sheared library of the Neisseria gonorrhoeae genome, with both the universal forward and reverse pUC sequencing primers yielding over 46,000 individual sequence reads.
- Over 14 million bases of sequence have been collected and aligned into a
database containing over 2M unique bases. This represents the
sequence of the entire Neisseria gonorrhoeae genome.
- Because over 15% of the Neisseria gonorrhoeae genome contains
dispursed repeated sequences, assembly by Phred/Phrap under high stringency
requires that the unique sequences on either side of each repeat be determined
independently by primer walking off large (4-8Kb) insert sub-clones and by binning the contigs based on known markers.
This process now is completed and has resulted in a final, contiguous,
highly accurate sequence.
- The entire sequence now is finished and has been released as GenBank Accession Number
- A more detailed description of this genome is available at
In collaboration with Evgeni Selkov and Ross Overbeek at Argonne National Labs, we now are providing a WIT2 analysis of the potential reading
frames and an overview of the Neisseria gonorrhoeae metabolic
Search the Neisseria gonorrhoeae Genome sequence data
Obtaining the sequence data via ftp
All of our shotgun sequence data is available via ftp (see below).
Obtaining the Neisseria gonorrhoeae Sequencing Data via ftp
If instead, you would rather ftp this file directly, you can ftp to
ftp.gono.ou.edu (logon as anonymous with password your e-mail address).
Read the 00readme file in the ftp directory to determine which files you are interested in.
The Neisseria gonorrhoeae - Strain FA 1090 sequenced, has been submitted to the ATCC and given accession number ATCC 700825.
At the present time, none of the shotgun clones are available for distribution.
Literature Reference Describing Strain being sequenced
J.F. Dempsey, W. Litaker, A. Madhure, T.L. Snodgrass, J.G. Cannon.
1991. Physical map of the chromosome
of Neisseria gonorrhoeae FA1090 with locations of
genetic markers, including opa and
pil genes. J. Bacteriol. 173: 5476-5486
Other web sites that may be of interest:
Neisseria meningitidis Genome Sequencing at The Sanger Center
Other Microbial Genome Projects at the Sanger Center
Should you find this data useful and wish to reference it, please acknowledge
the work by including the following in the Acknowledgments section of
We acknowledge the Gonococcal Genome Sequencing Project supported by USPHS/NIH
grant #AI38399, and B.A. Roe, L. Song, S. P. Lin, X. Yuan, S. Clifton, Tom
Ducey, Lisa Lewis and D.W. Dyer at the University of Oklahoma. The GenBank
accession number for the completed Neisseria Gonorrhoeae genome is
and this link gives the GenBank sequence file containing the sequence as deposited into GenBank.
Bruce Roe, firstname.lastname@example.org
Dave Dyer, David-Dyer@ouhsc.edu
If possible, please send us both the literature citation once published,
and a copy of the manuscript.
Thanks, Bruce Roe, Lin Song, ShaoPing Lin, XiLing Yuan, Sandy Clifton, Tom Ducey, Lisa Lewis and Dave Dyer.
The University of Oklahoma, Department of Chemistry and Biochemistry, Norman,
and The University of Oklahoma Health Sciences Center, Department of Microbiology and Immunology, Oklahoma City, Oklahoma 73190
Bruce Roe, email@example.com