Computational identification of anthocyanin-specific transcription factors using a rice microarray and maximum boundary range algorithm

Chang Kug Kim; Shoshi Kikuchi; Jang Ho Hahn; Soo Chul Park; Yong Hwan Kim; Byun Woo Lee
January 2010
Evolutionary Bioinformatics;2010, Issue 6, p133
Academic Journal
This study identifies 2,617 candidate genes related to anthocyanin biosynthesis in rice using microarray analysis and a newly developed maximum boundary range algorithm. Three seed developmental stages were examined in white cultivar and two black Dissociation insertion mutants. The resultant 235 transcription factor genes found to be associated with anthocyanin were classified into nine groups. It is compared the 235 genes by transcription factor analysis and 593 genes from among clusters of COGs related to anthocyanin functions. Total 32 genes were found to be expressed commonly. Among these, 9 unknown and hypothetical genes were revealed to be expressed at each developmental stage and were verified by RT-PCR. These genes most likely play regulatory roles in either anthocyanin production or metabolism during flavonoid biosynthesis. While these genes require further validation, our results underline the potential usefulness of the newly developed algorithm.


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