News

4/22/2011    The release of our Updated Assembly and its Annotation of Magnaporthe oryzae 70-15

Strain Name Coverage Accession Total Genes Submission Date
M. oryzae 70-15 Finished AACU03000000 12,827 4/22/2011

This release allows:

  • BLAST searches against our genome assemblies
  • Downloads of the consensus sequence and additional files for the genome assembly
  • Search and download a particular region of the genome assembly.

4/22/2011    The release of our Annotation of Gaeumannomyces graminis var. tritici R3-111a-1 and Magnaporthe poae ATCC 64411

Strain Name Total Genes Accession Submission Date
G. graminis var. tritici R3-111a-1 14,463 ADBI01000000 4/22/2011
M. poae ATCC 64411 12,169 ADBL01000000 4/22/2011

The annotated release presents:

A full summary can be found here. Click here for a description of how the gene predictions were generated.

5/10/2010    The release of our Finished genome assembly of Magnaporthe oryzae 70-15 which has been mapped to 7 chromosomes

Strain Name Coverage Accession Submission Date
M. oryzae 70-15 Finished AACU03000000 5/10/2010

This release allows:

  • BLAST searches against our genome assemblies
  • Downloads of the consensus sequence and additional files for the genome assembly
  • Search and download a particular region of the genome assembly.

Please note this release does not yet include an updated annotation.

MG finishing

In July 2008, the partially finished sequence assembly of Magnaporthe oryzae strain 70-15 (MG6) was released through the Broad site. Issues reported with the assembly at that stage included contigs (genes) containing vector sequences, and contigs with N's at either or both ends.

Subsequent Broad efforts to provide an improved sequence included:

  1. Fixing extensive misassemblies resulting from the high retrotransposon content. Sites of misassembly were recognized by the presence of inappropriately placed reads and read pairs, along with discrepancies with the optical map. Misassemblies were removed by breaking the existing assembly at discrepant sites.
  2. Sequencing Fosmid clones from regions of gaps and other problems. We identified a core set of Fosmid clones from problem areas that had both of the end-reads reliably placed in the genome assembly. The assembly was manually extended from these high confidence anchors using both pre-existing sequence data (primarily Fosmid end sequence pairs) and from newly generated sequence generated by "walking" using custom primers, as well as by transposing Fosmid and plasmid clones.
  3. Verification using the optical and physical maps. As an independent check on the manually extended sequence we correlated the sequence with the optical and physical maps.
  4. Incorporating sequence from telomeric Fosmids. We incorporated the draft sequence of the Fosmids that Mark Farman had previously identified as containing telomeric repeats and sequenced into the assembly. We used the draft consensus sequence to recruit additional Broad shotgun data by sequence identity and read mate pairs.
  5. Final quality assessment. We examined the position of all Fosmid mate pairs across the final consensus sequence. Mate pair violations were investigated and corrected when necessary.

5/10/2010    The initial release of 2 assemblies - Gaeumannomyces graminis var. tritici R3-111a-1 and Magnaporthe poae ATCC 64411

Strain Name Coverage Accession Submission Date
G. graminis var. tritici R3-111a-1 46X ADBI01000000 5/10/2010
M. poae ATCC 64411 25X ADBL01000000 5/10/2010

This release allows:

  • BLAST searches against our genome assemblies
  • Downloads of the consensus sequence and additional files for the genome assembly
  • Search and download a particular region of the genome assembly.