Journal
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Volume 110, Issue 6, Pages 2395-2400Publisher
NATL ACAD SCIENCES
DOI: 10.1073/pnas.1213958110
Keywords
transcriptome; phenome; Agilent custom microarray; transgenic plant; peptide hormone
Categories
Funding
- Program for Promotion of Basic and Applied Researches for Innovations in Bio-oriented Industry
- Japan Science and Technology Agency (JST)
- RIKEN Plant Science Center, Special Postdoctoral Researcher's Program from RIKEN
- Japan Society for the Promotion of Science for Young Scientists
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It is likely that many small ORFs (sORFs; 30-100 amino acids) are missed when genomes are annotated. To overcome this limitation, we identified similar to 8,000 sORFs with high coding potential in intergenic regions of the Arabidopsis thaliana genome. However, the question remains as to whether these coding sORFs play functional roles. Using a designed array, we generated an expression atlas for 16 organs and 17 environmental conditions among 7,901 identified coding sORFs. A total of 2,099 coding sORFs were highly expressed under at least one experimental condition, and 571 were significantly conserved in other land plants. A total of 473 coding sORFs were overexpressed; similar to 10% (49/473) induced visible pheno-typic effects, a proportion that is approximately seven times higher than that of randomly chosen known genes. These results indicate that many coding sORFs hidden in plant genomes are associated with morphogenesis. We believe that the expression atlas will contribute to further study of the roles of sORFs in plants.
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