News

10/28/2013    The release of our RNAseq-based annotation for 11 strains of Fusarium oxysporum

Strain Name Total Genes Accession Submission Date
Fusarium oxysporum CL57 18,238 AGNB01000000 10/28/2013
Fusarium oxysporum NRRL32931 (formerly FOSC 3-a) 17,280 AFML01000000 10/28/2013
Fusarium oxysporum Cotton 18,905 AGNC01000000 10/28/2013
Fusarium oxysporum Fo47 18,191 AFMM01000000 10/28/2013
Fusarium oxysporum HDV247 19,623 AGBI01000000 10/28/2013
Fusarium oxysporum II5 16,634 AGND01000000 10/28/2013
Fusarium oxysporum f. sp. melonis 26406 19,661 AGNE01000000 10/28/2013
Fusarium oxysporum MN25 17,931 AGBH01000000 10/28/2013
Fusarium oxysporum PHW808 19,854 AGNF01000000 10/28/2013
Fusarium oxysporum PHW815 19,306 AGNG01000000 10/28/2013
Fusarium oxysporum 5176 21,087 AFQF01000000 10/28/2013

This annotated release presents:

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

10/28/2013    The release of our Updated RNAseq-based annotation for 2 strains of Fusarium

Strain Name Total Genes Accession Submission Date
Fusarium oxysporum f. sp. lycopersici 4287 20,925 AAXH01000000 10/28/2013
Fusarium verticillioides 7600 15,869 AAIM02000000 10/28/2013

This annotated release presents:

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

10/28/2013    Release of our genome assembly of 1 strain of Fusarium oxysporum

The assembled sequences for the following strains have been deposited at DDBJ/EMBL/GenBank:

Strain Name Coverage Accession Submission Date
F. oxysporum 5176 x (454) AFQF01000000 10/28/2013

The assembly 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.

A full summary can be found here.

11/18/2011    Release of our genome assemblies of 6 strains of Fusarium oxysporum

The assembled sequences for the following strains have been deposited at DDBJ/EMBL/GenBank:

Strain Name Coverage Accession Submission Date
F. oxysporum f. sp. radicis-lycopersici 26381 (CL57) 188x (Illumina) AGNB01000000 11/18/2011
F. oxysporum f. sp. vasinfectum 25433 (Cotton) 165x (Illumina) AGNC01000000 11/18/2011
F. oxysporum f. sp. cubense tropical race 4 54006 (II5) 206x (Illumina) AGND01000000 11/18/2011
F. oxysporum f. sp. melonis 26406 (melonis) 157x (Illumina) AGNE01000000 11/18/2011
F. oxysporum f. sp. conglutinans, race 2 54008 (PHW808) 124x (Illumina) AGNF01000000 11/18/2011
F. oxysporum f. sp. Raphani 54005 (PHW815) 145x (Illumina) AGNG01000000 11/18/2011

The assembly 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.

A full summary can be found here.

10/12/2011    Release of our genome assemblies of 2 strains of Fusarium

The assembled sequences for the following strains have been deposited at DDBJ/EMBL/GenBank:

Strain Name Coverage Accession Submission Date
F. oxysporum HDV247 242x (Illumina) AGBI01000000 10/12/2011
F. oxysporum MN25 210x (Illumina) AGBH01000000 10/12/2011

The assembly 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.

A full summary can be found here.

6/29/2011    Release of our genome assemblies of 2 strains of Fusarium

The assembled sequences for the following strains have been deposited at DDBJ/EMBL/GenBank:

Strain Name Coverage Accession Submission Date
Fusarium oxysporum NRRL32931 (formerly FOSC 3-a) 195x AFML01000000 6/29/2011
Fusarium oxysporum Fo47 138x AFMM01000000 6/29/2011

The assembly 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.

A full summary can be found here.

3/18/2010    Fusarium gene sets updated

The gene sets for our Fusarium genomes F. oxysporum, F. verticillioides, and F. graminearum, have been updated according to the latest NCBI guidelines.

This is a summary of the changes:

Genome Total Genes Unchanged Added Gene structure Changed Deleted Merged Split
F. oxysporum 17708 17173 10 489 25 20 8
F. verticillioides 14188 14098 4 67 14 0 0
F. graminearum 13322 13245 0 72 8 2 0

For more information regarding the gene set changes, please refer to the 'F_x_Changes_NewGeneCall_2010.csv' files in the supplementary downloads section.

3/19/2007    Initial release of the Fusarium comparative genomics web site, the assembly and annotation of F. verticillioides, F. graminearum and F. oxysporum

The first Fusarium group site presents:

The new 10X Assembly and annotation of Fusarium graminearum, FG3, which includes:

  • A predicted protein gene set of 13,332 genes (A file listing the changes between Fusarium graminearum version 1 and version 3 annotoation can be found in the supplementary downloads section)
  • Protein BLAST databases
  • Precomputed results of BlastX and HMMer Analyses
  • Alternative proteins predicted by various gene callers (GeneID, FGeneSH)
  • Gene Transfers mapped from FG1 (MIPS) and FV3
  • tRNA predictions
  • RFam features
  • Search and visualizations for all the features
  • A full summary can be found here. Click here for a description of how the Gene Structure Prediction were generated.

The initial release of 6.8X assembly and annotation of Fusarium oxysporum, FO2, which includes:

  • A predicted protein gene set of 17,735 genes
  • Protein BLAST databases
  • Precomputed results of BlastX and HMMer Analyses
  • Alternative proteins predicted by various gene callers (GeneID, FGeneSH)
  • Gene Transfers mapped from FV3
  • tRNA predictions
  • RFam features
  • Search and visualizations for all the features
  • A full summary can be found here. Click here for a description of how the Gene Structure Prediction were generated.

December 2006    The results of Automated Annotation of F. verticillioides

This FV3 annotated release presents:
  • A predicted protein gene set of 14,206 genes
  • Protein BLAST databases
  • Precomputed results of BlastX and HMMer Analyses
  • Alternative proteins predicted by various gene callers (GeneID, FGeneSH)
  • tRNA predictions
  • RFam features
  • Search and visualizations for all the features
  • A full summary can be found here. Click here for a description of how the Gene Structure Prediction were generated.

10/03/2006    Initial release of 8x genome assembly of F. verticillioides

The public release of the Fusarium verticillioides genome assembly with 8X sequence coverage. This assembly combines 4X the sequence reads generated at the Broad and 4X sequence reads contributed by Syngenta. The traces of all reads can be downloaded from the NCBI trace repository. This assembly has been deposited at GenBank under the project accession AAIM02000000.

Important information about this release can be found here.

This release allows:

  • BLAST searches against the 8X genome assembly
  • Downloads of the consensus sequence and additional files for the genome assembly
  • Search and visualize features including Blast, EST, Hmmer, Rfam, tRNA and Repeats.
  • Integration of the assembly to the genetic Maps

7/1/2005    Initial release of 4x genome assembly of F. verticillioides

The initial release of the Fusarium verticillioides genome assembly with 4X sequence coverage. The sequence reads were generated at Syngenta and assembled at the Broad Institute. The traces of all reads can be downloaded from the download page. This assembly has been deposited at GenBank under the project accession AAIM02000000.

Important information about this release can be found here.

This initial release allows:

  • BLAST searches against the 4X genome assembly
  • Downloads of the consensus sequence and additional files for the genome assembly
  • Search and download a particular region of the genome assembly