Agricultural Microbes Genome 2 Conference

Workshop: CSREES Grant Awardees
W05_01.html

Mannheimia (Pasteurella) haemolytica serotype A1 Strain PHL213 = SH789

Baylor College of Medicine

ORGANISM STRAIN:
Mannheimia (Pasteurella) haemolytica serotype A1 Strain PHL213 = SH789

SUMMARY OF SEQUENCING STRATEGY:
DNA comprising the entire genome of strain PH213 will be used to create small M13 (2-4 kb) and large cosmid (20-30 kb) libraries. M13 libraries will be used for random shotgun sequencing (ca. 30,000 reads) using dye terminator chemistry and capillary electrophoresis. Cosmid library members (ca. 1000 each) will be end-sequenced and sequences used to create an ordered cosmid maps, or scaffolds, on which to array the randomly generated sequences. Sequence assembly will be performed by using PHRED and PHRAP. Gene clusters, structural features, and open reading frames will be identified and annotated using a number of computational methods, including BLAST-BEAUTY analysis. Annotated sequences will be organized and released on a new microbial genomes website at the Baylor College of Medicine Human Genome Sequencing Center.

DATA RELEASE PLAN:
Website Address(es): http://www.hgsc.bcm.tmc.edu

Frequency of Data Release & Updates: Raw sequence will be uploaded daily. Annotated data will be uploaded weekly.

TIMELINE FOR COMPLETION:

• Start date: January 2001
• B. Anticipated completion date: September 2002

• March 2001: completion of small insert shotgun sequencing
• May 2001: completion of cosmid library construction and end sequencing
• September 2001: completion of initial assembly of contigs
• December 2001: completion of first pass annotation
• September 2002: completion of final assembly and annotation

Strains will be maintained in the laboratory of Dr. Highlander at Baylor College of Medicine. Our preference will be to distribute large insert plasmids, but small insert plasmids created for the shotgun phase of sequencing may also be made available.

PROJECT CONTACT:

Sarah K. Highlander, Ph.D. Phone: 713-798-6311 Fax: 713-798-7375 Email: sarahh@bcm.tmc.edu