Open Access Research article

Contrasted patterns of selective pressure in three recent paralogous gene pairs in the Medicago genus (L.)

Joan Ho-Huu1, Joëlle Ronfort1, Stéphane De Mita12, Thomas Bataillon3, Isabelle Hochu1, Audrey Weber1 and Nathalie Chantret1*

Author Affiliations

1 INRA - Institut National de la Recherche Agronomique, UMR AGAP, Montpellier, 34060, France

2 INRA - Institut National de la Recherche Agronomique, UMR IAM, Nancy, France

3 Bioinformatics Research Center (BiRC), Aarhus University, Aarhus, Denmark

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BMC Evolutionary Biology 2012, 12:195  doi:10.1186/1471-2148-12-195

Published: 1 October 2012

Additional files

Additional file 1:

Sequencing results. Table in PDF format presenting sequencing results for the five genes on the 17 species and GenBank accession numbers. Lengths are indicated in base pairs. The percentage that each sequence represents relative to the complete alignment is indicated in brackets when less than 100%. “na” and “ns” are indicated when an amplification failed and when the sequence was too short to be included in the analyses, respectively. Four sequences presented either point mutations resulting in a stop codon (Pg11c of M. laciniata), or a deletions inducing a frame shift in the coding sequence (Pg11c of M. ciliaris) or resulting in the appearance of a premature stop codon (for three sequences: Pg11c of M. orbicularis and Pg3 of M. littoralis and M. tricycla) are indicated by “pseudo”. Sequences with an unexpected position in the phylogeny are noted as “phylo_excluded”.

Format: DOC Size: 57KB Download file

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Additional file 2:

List of species used. Table in PDF format with list of sample used, germplasm accession number, life history, geographical area and ploidy level.

Format: DOC Size: 43KB Download file

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Additional file 3:

List of primers used. Table in PDF format with names and sequences of primers used for amplification and sequencing.

Format: DOC Size: 81KB Download file

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Additional file 4:

Schematic representation of genes and primers positions. Figure in PDF format with schematic representation of the intron/exon structure of the 5 sequenced genes on M. truncatula (A17) and position of the primers used for the amplification and sequencing, names and sequences of primers used for amplification and sequencing.

Format: DOC Size: 117KB Download file

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Open Data

Additional file 5:

Lax gene Nucleotide alignment. Nucleotide alignment of Lax genes in phyml format.

Format: PHY Size: 29KB Download file

Open Data

Additional file 6:

Laxgene amino acid alignment. Amino acid alignment of Lax genes in phyml format.

Format: PHY Size: 10KB Download file

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Additional file 7:

Pggene nucleotide alignment. Nucleotide alignment of Pg genes in phyml format.

Format: PHY Size: 29KB Download file

Open Data

Additional file 8:

Pg gene amino acid alignment. Amino acid alignment of Pg genes in phyml format.

Format: PHY Size: 10KB Download file

Open Data