Nature Genetics，doi:10.1038/ng.282A transcriptome atlas of rice cell types uncovers cellular, functional and developmental hierarchies
Yuling Jiao1,3,4, S Lori Tausta1,4, Neeru Gandotra1,4, Ning Sun2,4, Tie Liu1,3,4, Nicole K Clay1,3, Teresa Ceserani1,3, Meiqin Chen1,3, Ligeng Ma1,3, Matthew Holford2, Hui-yong Zhang1,3, Hongyu Zhao2, Xing-Wang Deng1 & Timothy Nelson1
The functions of the plant body rely on interactions among distinct and nonequivalent cell types. The comparison of transcriptomes from different cell types should expose the transcriptional networks that underlie cellular attributes and contributions. Using laser microdissection and microarray profiling, we have produced a cell type transcriptome atlas that includes 40 cell types from rice (Oryza sativa) shoot, root and germinating seed at several developmental stages, providing patterns of cell specificity for individual genes and gene classes. Cell type comparisons uncovered previously unrecognized properties, including cell-specific promoter motifs and coexpressed cognate binding factor candidates, interaction partner candidates and hormone response centers. We inferred developmental regulatory hierarchies of gene expression in specific cell types by comparison of several stages within root, shoot and embryo.
