The developmental dynamics of the maize leaf transcriptome
Pinghua Lia, Lalit Ponnalab, Neeru Gandotrac, Lin Wanga, Yaqing Sid, S. Lori Taustac, Tesfamichael H. Kebroma, Nicholas James Provarte f, Rohan V. Patele f, Christopher R. Myersb, Edwin J. Reidelg, Robert Turgeong, Peng Liud, Qi Sunb, Timothy Mark Nelsonc, Thomas P. Brutnella g✉
- aBoyce Thompson Institute, Cornell University, Ithaca, New York, USA
- bComputational Biology Service Unit, Cornell University, Ithaca, New York, USA
- cDepartment of Molecular, Cellular and Developmental Biology, Yale University, New Haven, Connecticut, USA
- dDepartment of Statistics and Statistical Laboratory, Iowa State University, Ames, Iowa, USA
- eCentre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, Ontario, Canada
- fDepartment of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
- gDepartment of Plant Biology, Cornell University, Ithaca, New York, USA
- ✉Corresponding author
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Abstract
We have analyzed the maize leaf transcriptome using Illumina sequencing. We mapped more than 120 million reads to define gene structure and alternative splicing events and to quantify transcript abundance along a leaf developmental gradient and in mature bundle sheath and mesophyll cells. We detected differential mRNA processing events for most maize genes. We found that 64% and 21% of genes were differentially expressed along the developmental gradient and between bundle sheath and mesophyll cells, respectively. We implemented Gbrowse, an electronic fluorescent pictograph browser, and created a two-cell biochemical pathway viewer to visualize datasets. Cluster analysis of the data revealed a dynamic transcriptome, with transcripts for primary cell wall and basic cellular metabolism at the leaf base transitioning to transcripts for secondary cell wall biosynthesis and C(4) photosynthetic development toward the tip. This dataset will serve as the foundation for a systems biology approach to the understanding of photosynthetic development.
TL;DRA dynamic transcriptome is revealed, with transcripts for primary cell wall and basic cellular metabolism at the leaf base transitioning to transcripts for secondary cell wall biosynthesis and C4 photosynthetic development toward the tip. (Semantic Scholar)