Identification and characterization of novel amphioxus microRNAs by Solexa sequencing.
Identification and characterization of novel amphioxus microRNAs by Solexa sequencing.
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通过 Solexa 测序鉴定和表征新型文昌鱼 microRNA
DOI：
10.1186/gb-2009-10-7-r78
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发表时间：
2009
期刊：
影响因子：
12.3
通讯作者：
Zhang CY
中科院分区：
文献类型：
--
作者：
Chen X;Li Q;Wang J;Guo X;Jiang X;Ren Z;Weng C;Sun G;Wang X;Liu Y;Ma L;Chen JY;Wang J;Zen K;Zhang J;Zhang CY
研究背景microRNAs(MiRNAs)是在转录后水平调节基因表达的内源性非编码小RNA。虽然已知的人类和小鼠miRNAs的数量不断增加，但关于文昌鱼等其他物种的miRNAs的信息仍然有限。结果我们将Solexa测序与计算技术相结合，在文昌鱼物种B中鉴定了新的miRNAs。贝尔切里(格雷)。这种方法使我们能够识别113个文昌鱼miRNA基因。其中55个是跨物种保守的，编码45个非冗余的成熟miRNAs；58个是文昌鱼特有的，编码53个成熟的miRNAs。用微阵列和茎环定量RT-PCR验证了我们的结果，表明SolexA测序是发现miRNA的有力工具。分析文昌鱼miRNAs的进化史，我们发现文昌鱼拥有许多脊索动物和脊椎动物所特有的miRNAs，这可能代表了从头索动物到脊椎动物进化过程中的关键步骤。我们还发现文昌鱼与脊椎动物的miRNA系统发育史上更接近于被囊动物。结论综合我们的结果，SolexA测序可以高精度和高效率地成功地从文昌鱼中发现新的miRNAs。更重要的是，我们的研究提供了一个机会来破译在脊索进化过程中发生的miRNA谱系的细化如何有助于脊椎动物身体计划的进化。
BackgroundmicroRNAs (miRNAs) are endogenous small non-coding RNAs that regulate gene expression at the post-transcriptional level. While the number of known human and murine miRNAs is continuously increasing, information regarding miRNAs from other species such as amphioxus remains limited.ResultsWe combined Solexa sequencing with computational techniques to identify novel miRNAs in the amphioxus speciesB. belcheri(Gray). This approach allowed us to identify 113 amphioxus miRNA genes. Among them, 55 were conserved across species and encoded 45 non-redundant mature miRNAs, whereas 58 were amphioxus-specific and encoded 53 mature miRNAs. Validation of our results with microarray and stem-loop quantitative RT-PCR revealed that Solexa sequencing is a powerful tool for miRNA discovery. Analyzing the evolutionary history of amphioxus miRNAs, we found that amphioxus possesses many miRNAs unique to chordates and vertebrates, and these may thus represent key steps in the evolutionary progression from cephalochordates to vertebrates. We also found that amphioxus is more similar to vertebrates than are tunicates with respect to their miRNA phylogenetic histories.ConclusionsTaken together, our results indicate that Solexa sequencing allows the successful discovery of novel miRNAs from amphioxus with high accuracy and efficiency. More importantly, our study provides an opportunity to decipher how the elaboration of the miRNA repertoire that occurred during chordate evolution contributed to the evolution of the vertebrate body plan.
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影响因子：
10.5
作者：
Chen, PY;Manninga, H;Tuschl, T
通讯作者：
Tuschl, T
影响因子：
14.9
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作者：
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通讯作者：
Bentwich, Z
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作者：
Ng, Kwang Loong Stanley;Mishra, Santosh K.
通讯作者：
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