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Open Access Research article

Physical mapping and BAC-end sequence analysis provide initial insights into the flax (Linum usitatissimum L.) genome

Raja Ragupathy1, Rajkumar Rathinavelu2 and Sylvie Cloutier13*

Author Affiliations

1 Cereal Research Centre, Agriculture and Agri-Food Canada, 195 Dafoe Rd, Winnipeg, MB, R3T 2M9, Canada

2 Genomics & Bioinformatics Division, ITC Research & Development Centre, Bangalore, India

3 Department of Plant Science, University of Manitoba, 66 Dafoe Rd, Winnipeg, MB, R3T 2N2, Canada

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BMC Genomics 2011, 12:217  doi:10.1186/1471-2164-12-217

Published: 9 May 2011

Additional files

Additional file 1:

Table S1: Physical map of flax Linum usitatissimum L. cultivar CDC Bethune. The details of the FPC contigs are provided in this spreadsheet. The table columns detail, from left to right: contig number, length of contigs (in Consensus Band-CB units), estimated physical length (bp), number of buried clones in a given contig, total number of clones and number of integrated genetic markers in a given contig.

Format: XLS Size: 152KB Download file

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Additional file 2:

Table S2: SSR abundance and composition of sequenced plant genomes and flax BES. Data regarding SSRs mined from whole genome assemblies of apple, soybean, maize, grapevine, poplar, papaya, sorghum, rice, castor bean, cucumber, Brachypodium distachyon, Arabidopsis thaliana and the BES of flax are given in this spreadsheet. The table columns detail, from left to right: plant genome name, genome size (Mb), total size of examined sequences (bp), total number of identified motifs, number of dinucleotide motifs, number of trinucleotide motifs, number of tetranucleotide motifs, number of other motifs, the predominant dinucleotide motif, the predominant trinucleotide motif, the predominant tetranucleotide motif and the reference.

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Additional file 3:

Table S3: Summary of putative protein hits based on BLASTx homology searches of BES against the nr database.

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Additional file 4:

Table S4: List of BES associated with oil metabolism deduced from BLASTx homology searches.

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Additional file 5:

Table S5: Summary of mapping of putative proteins from BLASTx homology searches against UniProt entries for GO terms.

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Additional file 6:

Table S6: Distribution of GO annotation of functional classes of gene products encoded from BAC-End sequences.

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Additional file 7:

Table S7: Distribution of GO annotation of biological processes associated with gene products from BAC-End sequences.

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Additional file 8:

Table S8: Distribution of GO annotation of cellular locations of gene products from BAC-End sequences.

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Additional file 9:

Table S9: Mobile genetic elements content in the sequenced plant genomes and flax BES.

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