Strain Descriptions

About the C3719 strain of Pseudomonas aeruginosa

We are currently sequencing the epidemic strain from Manchester, England.

Eshwar Mahenthiralingam, Dept. of Microbiology, Cardiff School of Biosciences, provided the C3719 genomic DNA for sequencing.

Our specific aims for the C3719 sequencing project are as follows:

  1. Generate and assemble sequence reads yielding 8X coverage of the P. aeruginosa C3719 genome through whole genome shotgun sequencing.
  2. Perform automated annotation of the sequence assembly.
  3. Distribute the sequence assembly and results of our annotation and analysis through a freely accessible, public web server at the Broad and by deposition of the sequence assembly in GenBank.

Methodology

The Pseudomonas aeruginosa c3719 genome was sequenced using the Whole Genome Shotgun methodology, whereby:

  1. Pseudomonas aeruginosa c3719 DNA is randomly shattered into small fragments.
  2. Narrow range fragments around 4 Kb, 10 Kb & 40 Kb are inserted into vectors to create 4 Kb & 10 Kb plasmids and 40 Kb Fosmids.
  3. The two ends of the fragment are sequenced, creating paired reads
  4. The assembly process uses the paired reads to identify contiguous stretches of sequence (contigs)
  5. Contigs are ordered and linked together into larger supercontigs by using paired reads lying in different contigs

About the 2192 strain of Pseudomonas aeruginosa

Strain 2192 is a mucoid isolate from a CF patient treated at Boston Children's Hospital.

Gerald Pier, Channing Laboratory, Boston MA provided this strain for sequencing.

Our specific aims for the 2192 sequencing project are as follows:

  1. Generate and assemble sequence reads yielding 8X coverage of the P. aeruginosa C3719 genome through whole genome shotgun sequencing.
  2. Perform automated annotation of the sequence assembly.
  3. Distribute the sequence assembly and results of our annotation and analysis through a freely accessible, public web server at the Broad and by deposition of the sequence assembly in GenBank.

Methodology

The Pseudomonas aeruginosa 2192 genome was sequenced using the Whole Genome Shotgun methodology, whereby:

  1. Pseudomonas aeruginosa 2192 DNA is randomly shattered into small fragments.
  2. Narrow range fragments around 4 Kb, 10 Kb & 40 Kb are inserted into vectors to create 4 Kb & 10 Kb plasmids and 40 Kb Fosmids.
  3. The two ends of the fragment are sequenced, creating paired reads
  4. The assembly process uses the paired reads to identify contiguous stretches of sequence (contigs)
  5. Contigs are ordered and linked together into larger supercontigs by using paired reads lying in different contigs