Lepe-Soltero Daniel, Armenta-Medina Alma, Xiang Daoquan, Datla Raju, Gillmor C Stewart, Abreu-Goodger Cei
Laboratorio Nacional de Genómica para la Biodiversidad (Langebio), Unidad de Genómica Avanzada, Centro de Investigación y de Estudios Avanzados (CINVESTAV), Irapuato, Guanajuato, Mexico.
Plant Biotechnology Institute, National Research Council, Saskatoon, Saskatchewan, Canada.
Data Brief. 2017 Oct 12;15:642-647. doi: 10.1016/j.dib.2017.10.019. eCollection 2017 Dec.
The genome annotation for the model plant does not include the primary transcripts from which are processed. Here we present and analyze the raw mRNA sequencing data from wild type and globular stage embryos of , ecotype Columbia. Because is required for pri-miRNA processing, these precursors accumulate in mutants, facilitating their detection using standard RNA-Seq protocols. We first use the mapping of the RNA-Seq reads to the reference genome to annotate the potential primary transcripts of expressed in the embryo. We then quantify these pri-miRNAs in wild type and mutants. Finally, we use differential expression analysis to determine which are up-regulated in compared to wild type, to select the best candidates for pri-miRNAs expressed in the globular stage embryos. In addition, we analyze a previously published RNA-Seq dataset of wild type and mutant embryos at the globular stage [1]. Our data are interpreted and discussed in a separate article [2].
模式植物的基因组注释不包括从中加工而来的初级转录本。在这里，我们展示并分析了来自生态型哥伦比亚野生型和球形期胚胎的原始mRNA测序数据。由于pri-miRNA加工需要（某种物质，原文未明确），这些前体在（某种突变体，原文未明确）突变体中积累，便于使用标准RNA-Seq方案进行检测。我们首先将RNA-Seq reads映射到参考基因组，以注释胚胎中表达的（某种物质，原文未明确）的潜在初级转录本。然后，我们对野生型和（某种突变体，原文未明确）突变体中的这些pri-miRNAs进行定量。最后，我们使用差异表达分析来确定与野生型相比，哪些在（某种突变体，原文未明确）中上调，以选择球形期胚胎中表达的pri-miRNAs的最佳候选者。此外，我们分析了之前发表的球形期野生型和（某种突变体，原文未明确）突变体胚胎的RNA-Seq数据集[1]。我们的数据在另一篇文章[2]中进行了解释和讨论。
