A comprehensive expression profile of microRNAs and other classes of non-coding small RNAs in barley under phosphorous-deficient and -sufficient conditions.
A comprehensive expression profile of microRNAs and other classes of non-coding small RNAs in barley under phosphorous-deficient and -sufficient conditions.
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DOI：
10.1093/dnares/dss037
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发表时间：
2013-04
期刊：
影响因子：
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通讯作者：
Langridge P
中科院分区：
文献类型：
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作者：
Hackenberg M;Huang PJ;Huang CY;Shi BJ;Gustafson P;Langridge P
磷（P）是植物生长所必需的。microRNA（miRNAs）在磷酸盐稳态中起着关键作用。然而，关于磷对大麦（Hordeum vulgare L.）中miRNA表达的影响还知之甚少。在这项研究中，我们使用Illumina的下一代测序技术对在磷缺乏和磷充足条件下生长的大麦中的小RNA（sRNA）进行测序。我们鉴定了221个保守的miRNAs和12个新的miRNAs，其中55个仅在缺磷处理中存在，32个仅在磷充足处理中存在。两种P处理组之间共有47种miRNAs表达差异显著（|log2|> 1）。我们还鉴定了许多其他类型的sRNA，包括正义和反义sRNA、重复相关sRNA、转运RNA（tRNA）衍生的sRNA和叶绿体衍生的sRNA，其中一些在两种P处理之间也显著差异表达。在所有鉴定的sRNA中，反义sRNA是两种P处理中最丰富的sRNA类别。令人惊讶的是，大约四分之一的sRNA来自叶绿体基因组，并且叶绿体编码的tRNA衍生的sRNA是所有测序的sRNA中最丰富的sRNA。我们的数据为理解sRNA的性质提供了有价值的线索，并对miRNAs和其他类型的sRNA在磷酸盐稳态控制中的潜在作用提供了新的见解。
Phosphorus (P) is essential for plant growth. MicroRNAs (miRNAs) play a key role in phosphate homeostasis. However, little is known about P effect on miRNA expression in barley (Hordeum vulgare L.). In this study, we used Illumina's next-generation sequencing technology to sequence small RNAs (sRNAs) in barley grown under P-deficient and P-sufficient conditions. We identified 221 conserved miRNAs and 12 novel miRNAs, of which 55 were only present in P-deficient treatment while 32 only existed in P-sufficient treatment. Total 47 miRNAs were significantly differentially expressed between the two P treatments (|log2| > 1). We also identified many other classes of sRNAs, including sense and antisense sRNAs, repeat-associated sRNAs, transfer RNA (tRNA)-derived sRNAs and chloroplast-derived sRNAs, and some of which were also significantly differentially expressed between the two P treatments. Of all the sRNAs identified, antisense sRNAs were the most abundant sRNA class in both P treatments. Surprisingly, about one-fourth of sRNAs were derived from the chloroplast genome, and a chloroplast-encoded tRNA-derived sRNA was the most abundant sRNA of all the sRNAs sequenced. Our data provide valuable clues for understanding the properties of sRNAs and new insights into the potential roles of miRNAs and other classes of sRNAs in the control of phosphate homeostasis.