DNA motif prediction of Shrub Willow (suchowensis) through comparative genetic approach

Abstract

Background: As a convenient experimental target with high research value, willow (salix) has been sequenced recently, and related research based on comparative genetics developed correspondingly. Materials and Methods: In this paper, the strength of completeness of model specie, Arabidopsis thaliana, is applied to the innovative prediction, and by using verified protein database and motif annotation in homologous analysis, motif of Salix suchowensis is annotated. Result: We published a genome-wide DNA motif prediction of S. suchowensis, and manually verified the first 100 genes with the homologous Arabidopsis thaliana motif annotations. Unexpectedly, several motif predictions are detected in the intron region and an interesting but conflicting finding shows that the common belief of that, the motifs are in the region of 100∼1000bp upstream the gene, awaits further verifying. Conclusion: This new DNA motif prediction of willow is helpful for constructing a scaffolding guideline in regulatory network study of forestry plants, and the further research of related findings is needed.