Mesoplasma florum FAQ

Questions

Answers

  • Sequencing

    1. What is whole-genome shotgun sequencing?
      Whole genome shotgun sequencing is a technique for determining the DNA sequence of a genome by randomly shearing the DNA, sequencing multiple overlapping fragments, and inferring the original sequence from fragments that overlap. This method is often used for bacterial genomes or subclones, like fosmids. Additional information from paired end reads, fosmid ends, and other linkage information will be added in future releases. See Assembly for details.

    2. What is the current state of the sequenced genome?
      We have created at complete finished genome assembly. See Mesoplasma florum Assembly for details.

    3. Is the Mesoplasma florum genome fully annotated?
      Yes. This finished assembly has been fully annotated.

  • Annotated Genes

    1. How were the genes annotated?
      See Automated Gene Calling.

  • Downloading

    1. Why does gunzip tell me the file is not in gzip format?
      Some browsers (like newer versions on Netscape) automatically unzip files after download. If this is the case, you can just rename the file to remove the .gz suffix.

  • Misc

    1. What's the Broad Institute?
      The Eli and Edythe L. Broad Institute is a partnership among MIT, Harvard and affiliated hospitals and the Whitehead Institute for Biomedical Research. Its mission is to create the tools for genomic medicine and make them freely available to the world and to pioneer their application to the study and treatment of disease.

    2. How do I cite the sequence for publication?
      Publications should include the following citation:
        Mesoplasma florum Sequencing Project. Broad Institute (www.broad.mit.edu)

    3. Who do I contact with questions about the sequencing?
      For additional help, please contact annotation-info@broad.mit.edu.
      Send feedback about the website to annotation-webmaster@broad.mit.edu.

    4. Where are the beautiful photos from?
      1. Flower of a lemon tree (Citrus limon), from which Mesoplasma florum L1 (ATCC 33453, originally deposited as Acholeplasma florum) was initially recovered. Mesoplasma is thought to be associated with plant insect vectors, although its primary vector is as yet unidentified.

        Courtesy of Tom Knight
      2. Two agar colonies of Mesoplasma florum exhibiting typical "fried-egg" morphology.

        Courtesy of Tom Knight
      3. A single slice of a three-dimensional reconstruction of a whole Mesoplasma florum cell, quick-frozen in its growth media across a lacey carbon film without any fixative or stain. The reconstruction was calculated from a series of tilted images recorded in a cryo-electron microscope.

        Courtesy of Grant Jensen