Actinobacillus actinomycetemcomitans Strain HK1651 Genome Sequencing

We are sequencing Actinobacillus actinomycetemcomitans Strain HK1651, a clinical isolate obtained from Professor Mogens Kilian at the University of Aarhus. This work is funded by a Research Grant from the National Institutes of Health, Institute of Dental Research, that begun in the mid-fall 1997 by Fares Z. Najar.

  • All contigs >1kb are being released via this web site as they are being collected and assembled.
  • Since updating is done automatically as new data is collected and assembled, this site will be updated at least once a week.
  • 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.

  • View the Latest Phrap High Stringency Actinobacillus actinomycetemcomitans Statistics


    • Search the Actinobacillus actinomycetemcomitans 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 or KeyWord search capability on the OU Server, this contig(s) are in the 'act_weekly-2k.fa' file or the 'contigs_weekly-2k' directory on our ftp site.

  • Obtain the Actinobacillus actinomycetemcomitans Sequencing Data via ftp

    • Read the 00readme file in the ftp directory to determine which files you are interested in.

    Clone Availability

    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.

    Acknowledgment

    Should you find this data useful, once this project begins, and wish to reference it, please acknowledge the Actinobacillus Genome Sequencing Project, and Bruce A. Roe, Fares Z. Najar, Allison Gillaspy, Sandra Clifton, Tom Ducey, Lisa Lewis and D.W. Dyer; this project is supported by USPHS/NIH grant from the National Institute of Dental Research.

    If possible, please send us both the literature citation once published, and a copy of the manuscript.

    Thanks, Bruce Roe, Fares Z. Najar, Allison Gillaspy, Sandra Clifton, Tom Ducey, Lisa Lewis and Dave Dyer.
    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 73190

    Fares Najar, fznajar@ou.edu

    Dave Dyer, David-Dyer@ouhsc.edu
    Bruce Roe, broe@ou.edu
    Home Page

    Bruce Roe, broe@ou.edu