title: Nonuniform gene expression pattern detected along the longitudinal axis in the matured rice leaf.
abstract: Rice (Oryza sativa) is a staple crop that supports half the world's population and an important monocot model system. Monocot leaf matures in a basipetal manner, and has a well-defined developmental gradient along the longitudinal axis. However, little is known about its transcriptional dynamics after leaf maturation. In this study, we have reconstructed a high spatial resolution transcriptome for the matured rice leaf by sectioning the leaf into seven 3-cm fragments. We have performed strand-specific Illumina sequencing to generate gene expression profiles for each fragment. We found that the matured leaf contains a longitudinal gene expression gradient, with 6.97% (2,603) of the expressed genes showing differentially expression along the seven sections. The leaf transcriptome showed a gradual transition from accumulating transcripts related to primary cell wall and basic cellular metabolism at the base to those involved in photosynthesis and energy production in the middle, and catabolic metabolism process toward the tip.
authors.affiliation: Key Laboratory of Molecular Epigenetics of the Ministry of Education, Northeast Normal University, Changchun 130024, China.
authors.forename: Ning
authors.initials: N
authors.lastname: Li
authors.affiliation: State Key Laboratory of Agrobiotechnology, the School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Yun-Ru
authors.initials: YR
authors.lastname: Chen
authors.affiliation: The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Hainan, Haikou, P. R. China.
authors.forename: Zehong
authors.initials: Z
authors.lastname: Ding
authors.affiliation: College of Agriculture, Shandong Agricultural University, Shandong, China.
authors.forename: Pinghua
authors.initials: P
authors.lastname: Li
authors.affiliation: Key Laboratory of Molecular Epigenetics of the Ministry of Education, Northeast Normal University, Changchun 130024, China.
authors.forename: Ying
authors.initials: Y
authors.lastname: Wu
authors.affiliation: Key Laboratory of Molecular Epigenetics of the Ministry of Education, Northeast Normal University, Changchun 130024, China.
authors.forename: Ai
authors.initials: A
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Agrobiotechnology, the School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Sheng
authors.initials: S
authors.lastname: Yu
authors.affiliation: Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, NY, USA.
authors.forename: James J
authors.initials: JJ
authors.lastname: Giovannoni
authors.affiliation: Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, NY, USA.
authors.forename: Zhangjun
authors.initials: Z
authors.lastname: Fei
authors.affiliation: Weill Cornell Medical College, Cornell University, NY, USA.
authors.forename: Wei
authors.initials: W
authors.lastname: Zhang
authors.affiliation: Weill Cornell Medical College, Cornell University, NY, USA.
authors.forename: Jenny Z
authors.initials: JZ
authors.lastname: Xiang
authors.affiliation: Key Laboratory of Molecular Epigenetics of the Ministry of Education, Northeast Normal University, Changchun 130024, China.
authors.forename: Chunming
authors.initials: C
authors.lastname: Xu
authors.affiliation: Key Laboratory of Molecular Epigenetics of the Ministry of Education, Northeast Normal University, Changchun 130024, China.
authors.forename: Bao
authors.initials: B
authors.lastname: Liu
authors.affiliation: State Key Laboratory of Agrobiotechnology, the School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Silin
authors.initials: S
authors.lastname: Zhong
mesh_terms: D004734:Energy Metabolism / Q000235:genetics; D018506:Gene Expression Regulation, Plant; D012275:Oryza / Q000235:genetics* / Q000254:growth & development; D018515:Plant Leaves / Q000235:genetics* / Q000254:growth & development; D010940:Plant Proteins / Q000096:biosynthesis* / Q000235:genetics; D014157:Transcription Factors / Q000096:biosynthesis* / Q000235:genetics; D059467:Transcriptome / Q000235:genetics
chemical_list: D010940:Plant Proteins; D014157:Transcription Factors