Staphylococcus aureus NCTC 8325 Genome Sequencing
The sequence of this genome has been completed and a paper describing the comparative
analysis of the temperate bacteriophages in Staphylococcus aureus 8325 now has
been published in Gene.
J. J. Iandolo, V. Worrell, K.H. Groicher, Y. Qian, R. Y. Tian, S. Kenton, A. Dorman, H-G. Jia,
S. Lin, P. Loh, S. Qi, H. Zhu and B.A. Roe.
Comparative analysis of the genomes of the temperate bacteriophages phi 11, phi 12
and phi 13 of Staphylococcus aureus 8325. Gene 289 109-118 (2002).
As of 9-26-01, the Staphylococcus aureus NCTC 8325
genomic sequence shotgun and closure phase have been completed and the genomic
sequence has been assembled into one, circular contig.
This work was supported by funds from the NIH and the Merck Genome Research Institute.
The Sanger Centre is sequencing the epidemic
MRSA strain EMRSA-16, and a hyper-virulent community acquired MSSA strain
and is available at
the Sanger Centre Staphylococcus aureus web site,
the Institute for Genome Research (TIGR) is sequencing
Staphylococcus aureus strain COL and their data is available from the
TIGR Microbial Database,
and the genomes of Staphylococcus aureus strains
been sequenced at Kyushu Univ. in a joint project with Juntendo Univ. and recently published by M. Kuroda et al.
in Lancet (M. Kuroda et al. (2001) The Lancet, 357, 1225-1240.).
- The team sequencing the approximately 2.8 Mbp Staphylococcus aureus genome
is lead by Yudong Qian, Runying Tian, Shoping Lin, Honggui Jia, and Angela Dorman in
our laboratory in collaboration with Drs. John Iandolo and Veronica Worrell at the University of
Oklahoma Health Sciences Center.
The StaphLab at the OUHSC is located at http://w3.ouhsc.edu/MI//faculty/iandolo.html
- We now have begun collecting and releasing the data that is in contgs >1kb.
- All contigs >1kb are being released via this web site as they are being collected and assembled. We expect that minimally, this site will be updated weekly.
- The data in contigs that are shorter than 1kb is highly inaccurate and therefore not included.
- Please note that we represent the lower confidence data in lower case letters.
- As of 10-29-98 we switched to Phred980904.a and Phrap980831
and also increased our database assembly stringency from the default
values of PHRAP's min_match and min_score by doubling them to produce
high stringency assembled data that is more accurate.
We also have obtained several genomic BAC clones from Dr. Iandolo's
group, which were generated by Dr. Veronica Worrell, and have begun sequencing them to aid in the final genomic sequence
These BACs are being sequenced by Linda Ray, Phoebe, Sulan, and Bart.
This data will be available directly from the links below once they have been assigned GenBank Accession Numbers.
View the Latest Phrap High Stringency Staphylococcus aureus Statistics
Search the Staphylococcus aureus 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.
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
'staph-1k.fa' file or the 'contigs-1k' directory on our ftp site.
If however, you determined which contig was of interest using the
'KeyWord Search' option, then the contig(s) of interest will be found
in the 'staph_weekly-1k.fa' file or the 'contigs_weekly-1k' directory
Obtaining the Staphylococcus aureus Sequencing Data via ftp
If instead, you would rather ftp this file directly, you can ftp to
ftp.genom.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 Staphylococcus aureus strain NCTC 8325 is available from
Dr. John Iandolo who maintains a large collection of marked S. aureus
strains (more that 4000) and enquiries about obtaining this and other
Staphylococcus aureus strains should be directed to him.
At the present time, none of the shotgun clones are available for distribution.
We anticipate at some point to generate a set of ordered sub-clones that will be made available throught the ATCC.
Should you find this data useful and wish to reference it, please acknowledge
the Staphylococcus aureus Genome Sequencing Project,
and B.A. Roe, Y. R. Tian, H. Jia, S. Li, S. Lin, S. Kenton, H. Lai, JD White, A. Dorman, F. Z. Najar, S. Clifton, V. Worrell and J. Iandolo
with funding from the NIH and the Merck Genome Research Institute.
If possible, please send us both the literature citation once published,
and a copy of the manuscript.
Thanks, Bruce Roe, Runying Tian, HongGui Jia, YuDong Qian, Shaoping Lin, Suling Li, A. Dorman, Steve Kenton, HongShing Lai, Jim D. White, F. Z. Najar, Sandy Clifton, Veronica Worrell and John Iandolo.
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
John Iandolo, John-Iandolo@ouhsc.edu
Bruce Roe, firstname.lastname@example.org
Bruce Roe, email@example.com