Identification of novel small RNAs in tomato (Solanum lycopersicum)
Identification of novel small RNAs in tomato (Solanum lycopersicum)
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DOI：
10.1007/s00425-007-0518-y
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发表时间：
2007-08-01
期刊：
影响因子：
4.3
通讯作者：
Dalmay, Tamas
中科院分区：
文献类型：
--
作者：
Pilcher, Rachel L. Rusholme;Moxon, Simon;Dalmay, Tamas
迄今为止，大多数植物小RNA（sRNA）已在水稻、白杨和拟南芥中被鉴定。为了鉴定可能参与番茄特定过程如果实发育和/或成熟的新型番茄sRNA，我们从成熟绿色阶段的番茄果实组织中克隆了4，018个sRNA。从这个sRNA库中，我们检测到9种已知miRNA的番茄同源物，包括miR 482;一种在拟南芥或水稻中不保守的白杨miRNA。我们鉴定了三种新的推定的miRNA，其侧翼序列可以折叠成茎环前体结构，并积累为19- 24 nt RNA。其中一个推定的miRNAs（Put-miRNA 3）在果实中的表达显著高于叶组织，表明在果实发育过程中的特定作用。我们还鉴定了9个在番茄中积累为19- 24 nt RNA种类的sRNA，但这些位点的基因组序列不可用。9个sRNA或3个推定的miRNA在拟南芥中没有一个同源物具有预测的茎环结构或积累为sRNA种类的前体，这表明我们在番茄中鉴定的12个sRNA可能在该模式水果物种中具有物种特异性作用。
To date, the majority of plant small RNAs (sRNA) have been identified in rice, poplar and Arabidopsis. To identify novel tomato sRNAs potentially involved in tomato specific processes such as fruit development and/or ripening, we cloned 4,018 sRNAs from tomato fruit tissue at the mature green stage. From this pool of sRNAs, we detected tomato homologues of nine known miRNAs, including miR482; a poplar miRNA not conserved in Arabidopsis or rice. We identified three novel putative miRNAs with flanking sequence that could be folded into a stem-loop precursor structure and which accumulated as 19-24nt RNA. One of these putative miRNAs (Put-miRNA3) exhibited significantly higher expression in fruit compared with leaf tissues, indicating a specific role in fruit development processes. We also identified nine sRNAs that accumulated as 19-24nt RNA species in tomato but genome sequence was not available for these loci. None of the nine sRNAs or three putative miRNAs possessed a homologue in Arabidopsis that had a precursor with a predicted stem-loop structure or that accumulated as a sRNA species, suggesting that the 12 sRNAs we have identified in tomato may have a species specific role in this model fruit species.