Faq

Questions

Answers

  • Sequencing
    1. How big are the Fusarium genomes?

      FV3: Our current total unique contig length is 41.7 Mb
      FG3: Our current total unique contig length is 36.2 Mb.
      FO2: Out current total unique contig length is 59.9Mb.

    2. What strains were sequenced?

      FV3: Fusarium verticillioides strain FGSC 7600 (FRC M3125 = NRRL 20956).
      FG3: Fusarium graminearum strain PH-1 (NRRL 31084)
      FO2: Fusarium oxysporum strain FGSC 4286 (NRRL 34936)

    3. What is the current state of the assemblies?

      FV3: The current assembly contains 210 sequence contigs in 36 supercontigs (scaffolds). See Assembly for detail.
      FG3: The current assembly contains 433 sequence contigs in 31 supercontigs.
      FO2: The current assembly contains 1361 sequence contigs in 113 supercontigs.

    4. How was the sequence generated for the Fusarium projects?

      FV3: The current release consists of over 517,343 individual sequencing reads, among them 235,738 were generated at Syngenta. See Assembly for details.
      FG3: The current release consists of over 675,870 individual sequencing reads obtained by sequencing both ends of 4-and 10-kb plasmids and 40-kb Fosmids from randomly sheared genomic libraries.
      FO2:The current release consists of over 647,150 individual sequencing reads obtained by sequencing the ends of 4-and 10-kb plasmids and 40-kb Fosmids from randomly sheared genomic libraries.

    5. What data are available?

      FV3, FG3 and FO2: In this version of our data release, all sequence contigs and supercontigs are available. Sequence data can be accessed in several ways: either through searching with BLASTN or TBLASTN, retrieving 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. An AGP file describing the supercontigs and contigs in this assembly and a file listing coordinates of paired endreads are also available for download..

    6. This sequence release looks different from previous releases, such as Neurospora crassa. What's different?

      Important information about this release can be found here.

    7. What are the plans for annotation?

      FV3, FG3 and FO2: Automated annotation has been conducted on these 8X, 11X and 6.8X respectively sequence coverage assemblies. This process is described in Gene Structure Prediction.

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

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

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

      Our email address is annotation-webmaster@broad.mit.edu.