Open Access Research article

Expansion of the gamma-gliadin gene family in Aegilops and Triticum

Svetlana V Goryunova12, Elma MJ Salentijn13, Nadejda N Chikida4, Elena Z Kochieva5, Ingrid M van der Meer36, Luud JWJ Gilissen36 and Marinus JM Smulders136*

Author Affiliations

1 Wageningen UR Plant Breeding, Wageningen UR, P.O. Box 16, Wageningen, NL-6700 AA, The Netherlands

2 Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, 119991, Russia

3 Plant Research International, Wageningen UR, P.O. Box 16, Wageningen, NL-6700 AA, The Netherlands

4 All-Russian Institute of Plant Industry, St. Petersburg, 190000, Russia

5 Bioengineering Center, Moscow, 117312, Russia

6 Allergy Consortium, Wageningen, The Netherlands

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BMC Evolutionary Biology 2012, 12:215  doi:10.1186/1471-2148-12-215

Published: 8 November 2012

Additional files

Additional file 1:

List of all contigs, number of sequences, and Genbank accessions numbers.

Format: XLSX Size: 16KB Download file

Open Data

Additional file 2:

Alignment of gamma-gliadin nucleotide sequences (Nexus format).

Format: TXT Size: 278KB Download file

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Additional file 3:

Alignment of gamma-gliadin amino acid sequences (Nexus format).

Format: TXT Size: 93KB Download file

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Additional file 4:

Maximum-likelihood tree of the gamma-gliadins (based on nucleotide sequences) from diploid species of tribe Triticeae. A maximum-likelihood (ML) analysis was performed with PhyML 3.0 using the GTR-substitution model. SH-like approximate likelihood-ratio test was used for estimation of branch support. Sequences that had length in the alignment less than 600 bp were excluded from the analysis. The gamma-gliadins fall into six groups (1–6 on the right) in two branches (1–2 and 3-4-5-6). Key for the sequence codes in Additional file 1.

Format: TIFF Size: 1015KB Download file

Open Data

Additional file 5:

Ks/Ka ratio of intact and pseudogene gamma-gliadins. Scatter plot of the numbers of synonymous substitutions (Ks) and non-synonymous substitutions (Ka) per site for pairwise comparisons among full open reading frame gamma-gliadins and pseudogene sequences. Linear trendlines with the intercept set to zero are shown both for full-open reading frame (ORF) sequences and pseudogene sequences.

Format: DOCX Size: 51KB Download file

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