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Phylogenomic analysis and a systematic view of ABC transporter family in rice
- 언어ENG
- URLhttps://db.koreascholar.com/Article/Detail/298247
ATP-binding cassette (ABC) proteins comprise a large superfamily and play as key in the physiology and development of plants but it is highly likely that more functions for members of this interesting family are still in dark. Thus systematic analysis for this family will be helpful to design effective experimental plans for functional analysis of each of ABC family in rice. To do this, we performed phylogenomic analysis of integrating anatomy and stress meta-profiling data based on a large collection of rice affymetrix array data which provide useful clues to study functions of ABC transporter family in rice in term of anatomy and stress response. Then, we processed Significance analysis for Microarray to identify ABC transporters involved in water stress such as drought and salt. Subsequently, we identified 23 genes showing significant upregulation or downregulation by both drought and salt. Finally, we developed the interaction network mediated by six of them and then integrated diverse data such as co-expression patterns, putative functions and sub-cellular localization to the network and the network was further refined based on coexpression patterns in response to drought and salt stresses. Our analysis will provide molecular basis to study diverse biological phenomena mediated by ABC family in rice, a major model crop plant.
