Small open reading frames associated with morphogenesis are hidden in plant genomes
Small open reading frames associated with morphogenesis are hidden in plant genomes
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DOI：
10.1073/pnas.1213958110
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发表时间：
2013-02-05
影响因子：
11.1
通讯作者：
Matsui, Minami
中科院分区：
文献类型：
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作者：
Hanada, Kousuke;Higuchi-Takeuchi, Mieko;Matsui, Minami
当对基因组进行注释时，很可能遗漏了许多小的ORF(sORF；30-100个氨基酸)。为了克服这一限制，我们在拟南芥基因组的基因间隔区鉴定了大约8,000个具有高编码潜力的sORF。然而，问题仍然是这些编码的sORF是否发挥功能作用。使用设计的阵列，我们在7901个已鉴定的编码sORF中生成了16个器官和17个环境条件的表达图谱。在至少一个实验条件下，共有2,099个编码的sORF高表达，其中571个在其他陆地植物中显著保守。共有473个编码的sORF过表达；类似于10%(49/473)引起的可见表型效应，这一比例大约是随机选择的已知基因的7倍。这些结果表明，隐藏在植物基因组中的许多编码sORF与形态发生有关。我们相信，该表达图谱将有助于进一步研究sORF在植物中的作用。
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.