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LsRTDv1,一个参考转录数据集,用于精确的转录特异性表达分析在菜.

Mehmet Fatih Kara1, Wenbin Guo2, Runxuan Zhang2

  • 1Biology Department, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK.

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概括
此摘要是机器生成的。

一种新的生菜参考转录组 (LsRTDv1) 通过增加转录异形识别来改善基因表达分析. 该资源增强了RNA测序数据的映射,并揭示了与感染相关的基因表达变化.

关键词:
这种植物叫做Lactuca sativa.对RNA-seq分析进行分析.替代性拼接是一种替代性的拼接.基因表达的基因表达方式菜 菜 菜 菜转录异型的异形.转录的开始和结束地点.转录组 (transcriptome) 是一个转录组.

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科学领域:

  • 基因组学就是基因组学.
  • 分子生物学分子生物学
  • 植物科学 植物科学

背景情况:

  • 准确的基因和转录表达量化对于理解生物过程至关重要.
  • 无对齐RNA测序分析需要高质量的参考转录组.
  • 现有的生菜转录组数据在异形分辨率上有局限性.

研究的目的:

  • 为了生成一个全面的和高可靠的参考成绩单数据集,为生菜 (cv. 萨拉丁 (萨拉丁).萨拉丁).萨拉丁).萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.萨拉丁.
  • 为了提高在生菜中的基因表达分析的准确性和效率.
  • 为了促进对回应刺激的转录和替代拼接调节的研究.

主要方法:

  • 菜的长读和短读测序数据组合.
  • 综合公开可用的转录组注释.
  • 对高可靠度拼接接口和转录起点/终点点的过转录,以创建LsRTDv1.1.

主要成果:

  • LsRTDv1使每个基因的转录异型的平均数量从1.4增加到2.7.
  • LsRTDv1显著提高了RNA-seq数据映射速率.
  • LsRTDv1可检测新型基因 (主要是长非编码RNA) 和对感染有反应的替代拼接事件.

结论:

  • LsRTDv1对于生菜研究来说是一个有价值的基因组资源.
  • 改进的参考数据集增强了基因表达和替代拼接的分析.
  • 本资源有助于了解生菜对生物压力的反应,例如Botrytis cinerea感染.