Data release policy | Downloads | About the project | Mt1.0 Mt2.0

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The MT3 assemblies on chromosome 2,3,5,7 were finalized on 12-February-2009, using BACs frozen on 06-February-2009.

The MT3 assemblies on chromosome 1,4,6,8 were finalized on 15-March-2009, using BACs frozen on 14-March-2009.

For additional information, please visit these other sites: OU, TIGR, MIPS, and INRA-Toulouse.

Data Release Policy

The Medicago Genome Sequence Consortium (MGSC) is pleased to release assembly Mt3.0.

This assembly may be freely downloaded, used in analyses, and repackaged in databases with appropriate attribution and with the following conditions:

1. Users are free to use the data in scientific papers analyzing specific genes and genome regions, provided that the MGSC is properly acknowledged.


2. The MGSC reserves the right to publish the initial large-scale analyses of the dataset, including large-scale characterization of regions of evolutionary interest and large-scale genomic assembly. Large-scale refers to regions 1 Mbp or more.


3. Mt3.0 is incomplete and should be regarded as preliminary. Data characteristics and limitations are described in the README and Fact Sheet (for Mt1.0).

Downloads:

• MT3 Genome Assembly Download:  —  Medicago_3.0_all_sequences.fa.tar.gz
  This file contains all of the MT3.0 sequences (8 pseudochromosome sequences, 148 unanchored BAC sequences PLUS the fpc256 sequence) together with the pseudo golden path file based on which the sequences were generated.


• MT3 Genome Annotation Download:  —  Medicago_3.0_annotation.tar.gz (TIGRXML last updated on October 12 2009)
  This file contains the IMGAG gene predictions on the 8 pseudochromosome sequences plus the unanchored BACs; The annotation is available in FASTA, TIGRXML and MIPS GFF format.
  
  Note: the TIGRXML files were updated on October 12, 2009: a few hundred gene models contained CDS spans in 3'UTR areas where only exon spans should have been. Only models with extended 3'UTR were affected; The cds/protein sequences given in the TIGRXMLs were not affected.


• MT3 Individual BAC Sequences Download:  —  MT3_all_BACs.tar.gz
  This file contains sequences for all of the 2633 BACs that were used in the MT3 assemblies.


• MT3 GOs annotation:  —  medicago_3.0_Simap_GOs.tbl
  This file contains GOs annotaions on genecalls.

About the sequencing project

The Medicago truncatula sequencing project was initiated with a generous grant from Samuel Roberts Noble Foundation to the University of Oklahoma. Beginning in 2003 (and renewed in 2006), the National Science Foundation and the European Union's Sixth Framework Programme provided funding to complete sequencing of the remaining euchromatic genespace.

 

Among the eight chromosomes in Medicago, six are being sequenced by NSF project "Sequencing the Gene Space of the Model Legume, Medicago Truncatula," and two are being sequenced by partners in Europe.

 

Nevin Young (University of Minnesota), Bruce Roe (ACGT, University of Oklahoma; chromosomes 1, 4, 6, 8), and Chris Town (TIGR; chromosomes 2, 7) are principal investigators of the U.S. project. In Europe, collaborators include Giles Oldroyd (John Innes Center) coordinating sequencing of chromosome 3 at the Sanger Center, and Frederic Deballe (INRA-CNRS) coordinating sequencing of chromosome 5 at Genoscope.

 

The genome annotation was carried out by the International Medicago Genome Annotation Group (IMGAG), which involves participants from TIGR, INRA-CNRS, MIPS, UMN, Ghent University and NCGR.

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