• 研究課題をさがす
  • 研究者をさがす
  • KAKENの使い方
  1. 課題ページに戻る

2014 年度 実績報告書

5’キャップ構造、アンチセンス、プロモーター近傍RNAの機能の解明

研究課題

研究課題/領域番号 23710222
研究機関独立行政法人理化学研究所

研究代表者

DE・HOON MICHIEL  独立行政法人理化学研究所, ライフサイエンス技術基盤研究センター, ユニットリーダー (70525617)

研究期間 (年度) 2011-04-28 – 2015-03-31
キーワードNon-coding RNA / Antisense transcripts / CAGE
研究実績の概要

Our project focuses on understanding the biological role of CASPARs, a novel family of capped short transcripts that overlap coding genes near their promoter region in the antisense orientation. As overexpression of CASPARs by lentivirus transfection of CASPARs in the THP-1 cells was unsuccessful because of the immune response of the cells, in this fiscal year we tried instead to knockdown the CASPAR transcripts using antisense oligos (ASOs), using 2 ASOs for each of the 13 CASPARs. For most knockdowns, we found an upregulation or downregulation of the sense gene (as measured by qPCR), suggesting that the CASPARs are functional. We developed a strand-specific qPCR protocol to verify the knockdown efficiency of the CASPAR itself. The strand-specific qPCR confirmed the knockdown efficiency for three CASPARs. We will now proceed to perform CAGE expression profiling on the knockdown samples to assess the genome-wide transcriptome response of the CASPAR knockdown.
We also subjected THP-1 cells to PMA stimulation, causing the THP-1 monoblast cells to differentiate into monocytes, and extracted RNA at several time points during this differentiation process. We produced CAGE libraries from these RNA samples, using a novel protocol under development in our laboratory to enrich the CAGE library for short transcripts. We performed paired-end sequencing of a test library on a MiSeq sequencer, confirming that this protocol can detect CASPAR transcripts. Next, we will apply single-end sequencing to these libraries to measured the CAGE expression dynamics of the CASPARs.

URL: 

公開日: 2016-06-01  

サービス概要 検索マニュアル よくある質問 お知らせ 利用規程 科研費による研究の帰属

Powered by NII kakenhi