Expansion and diversification of the SET domain gene family following whole-genome duplications in Populus trichocarpa
1 State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, the Chinese Academy of Sciences, Beijing 100093, China
2 State Key Laboratory of Genetic Engineering, Institute of Plants Biology, Center for Evolutionary Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
3 Graduate University of the Chinese Academy of Sciences, Beijing 100039, China
BMC Evolutionary Biology 2012, 12:51 doi:10.1186/1471-2148-12-51Published: 12 April 2012
Additional file 1:
Unrooted phylogenetic trees constructed using (A) ML and (B) BI methods based on SET amino acid sequences from Populus and Arabidopsis SET proteins.
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Additional file 2:
Detailed locations of all duplicated pairs of SET genes in Populus from recent and ancient polyploidy events in the syntenic region.
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Additional file 3:
Table-S1 Ks of SET gene pairs in Suv, Ash, Atxr5, E(z) and Trx subfamilies. Table-S2 Raw data from microarray expression analyses for Populus SET genes. Sample abbreviations are defined in Figure 6 and Additional file 4. Table-S3 Raw data from ESTs for Arabidopsis SET genes. Table-S4 Raw data from transcriptome data for soybean SET genes.
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Additional file 4:
Transcript abundance in different subgroups across different tissues, organs, and treatments in Populus based on the genome-wide microarray data. Sample abbreviations are defined in Figure 6
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Additional file 5:
Structure of duplicated gene pairs within the Populus SET gene family. Exons, green filled boxes; introns, black single lines. UTRs are indicated by thick blue lines at both ends. Intron phases 0, 1 and 2 are indicated by numbers 0, 1 and 2 in the figure.
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