FAQ

Questions

Answers

  • Sequencing
    1. How big are the Pseudomonas aeruginosa genomes?

      2192: Our current total unique length is 6,905,121 bp.

      C3719: Our current total unique length is 6222097 bp.

    2. What are the current states of the assemblies?

      2192: The current assembly contains 82 sequence contigs in 1 supercontig(scaffold).

      C3719: The current assembly contains 124 sequence contigs in 1 supercontig (scaffold).

      There are no current plans for additional sequencing or finishing. Please see Assembly for details.

    3. How has the sequence been generated for the Pseudomonas aeruginosa project?

      Our data consist of over 90,000 individual sequencing reads obtained by sequencing each end of plasmids from libraries containing randomly sheared fragments of 4 and 10 kb average size. See Assembly for details.

    4. Will the genomes be finished?

      Unfortunately there are no plans to finish these genomes at this time.

    5. How will we know the assembly is correct?

      The quality of the assembly will be assessed in several ways. In addition to requiring that the paired plasmid and Fosmid ends occur in a logical manner, our assembly of the Pseudomonas aeruginosa genome will be verified through comparison with available genomic sequences.

    6. What data are available?

      In this version of our data release, all sequence contigs and supercontigs are available. Sequence data can be accessed in several ways: either through a searching with BLASTN or TBLASTN, retrieving of a specific region of the assembly, or by downloading the entire genome. Supercontig and contig sequences are subject to change throughout this project, so each data release version number will be appended to the contig number as a prefix (e.g. 1.1 denotes assembly version 1, supercontig #1).

      Fosmid clones have been integrated into the current assembly, and you can search and view the locations of these clones within the sequence supercontigs.

      A fasta file of raw reads excluded from the assembly is also available for BLAST and download. Also available for download are an AGP file describing the supercontigs and contigs in this assembly and a file listing coordinates of paired endreads.

    7. This sequence release looks different from previous releases, like Neurospora crassa. What's different?

      Important information about this release can be found here.

  • Misc
    1. How do I cite the sequence for publication?

      Publications should include the following citation:
      Pseudomonas aeruginosa Sequencing Project. Broad Institute of Harvard and MIT (http://www.broad.mit.edu)

    2. Who do I contact with questions about the sequencing?

      Please contact us by using the comments form.