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Optimizations of siRNA design for the activation of gene transcription by targeting the TATA-box motif.

Small interfering RNAs (siRNAs) are widely used to repress gene expression by targeting mRNAs. Some reports reveal that siRNAs can also activate or inhibit gene expression through targeting the gene promoters. Our group has found that microRNAs (miRNAs) could activate gene transcription via interact... Full description

Journal Title: PloS one 2014, Vol.9(9), p.e108253
Main Author: Fan, Miaomiao
Other Authors: Zhang, Yijun , Huang, Zhuoqiong , Liu, Jun , Guo, Xuemin , Zhang, Hui , Luo, Haihua
Format: Electronic Article Electronic Article
Language: English
Subjects:
ID: E-ISSN: 1932-6203 ; DOI: 10.1371/journal.pone.0108253
Link: http://search.proquest.com/docview/1566825609/?pq-origsite=primo
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title: Optimizations of siRNA design for the activation of gene transcription by targeting the TATA-box motif.
format: Article
creator:
  • Fan, Miaomiao
  • Zhang, Yijun
  • Huang, Zhuoqiong
  • Liu, Jun
  • Guo, Xuemin
  • Zhang, Hui
  • Luo, Haihua
subjects:
  • Animals–Metabolism
  • Base Sequence–Genetics
  • Cd4-Positive T-Lymphocytes–Genetics
  • Cells, Cultured–Genetics
  • Hek293 Cells–Genetics
  • Humans–Genetics
  • Interleukin-2–Genetics
  • Jurkat Cells–Genetics
  • Mice–Genetics
  • RNA, Small Interfering–Genetics
  • Tata Box–Genetics
  • Transcriptional Activation–Genetics
  • Transfection–Genetics
  • Interleukin-2
  • RNA, Small Interfering
ispartof: PloS one, 2014, Vol.9(9), p.e108253
description: Small interfering RNAs (siRNAs) are widely used to repress gene expression by targeting mRNAs. Some reports reveal that siRNAs can also activate or inhibit gene expression through targeting the gene promoters. Our group has found that microRNAs (miRNAs) could activate gene transcription via interaction with the TATA-box motif in gene promoters. To investigate whether siRNA targeting the same region could upregulate the promoter activity, we test the activating efficiency of siRNAs targeting the TATA-box motif of 16 genes and perform a systematic analysis to identify the common features of the functional siRNAs for effective activation of gene promoters. Further, we try various modifications to improve the activating efficiency of siRNAs and find that it is quite useful to design the promoter-targeting activating siRNA by following several rules such as (a) complementary to the TATA-box-centered region; (b) UA usage at the first two bases of the antisense strand; (c) twenty-three nucleotides (nts) in length; (d) 2′-O-Methyl (2′-OMe) modification at the 3′ terminus of the antisense strand; (e) avoiding mismatches at the 3′ end of the antisense strand. The optimized activating siRNAs potently enhance the expression of interleukin-2 ( IL-2 ) gene in human and mouse primary CD4 + T cells with a long-time effect. Taken together, our study provides a guideline for rational design the promoter-targeting siRNA to sequence-specifically enhance gene expression.
language: eng
source:
identifier: E-ISSN: 1932-6203 ; DOI: 10.1371/journal.pone.0108253
fulltext: fulltext
issn:
  • 19326203
  • 1932-6203
url: Link


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titleOptimizations of siRNA design for the activation of gene transcription by targeting the TATA-box motif.
creatorFan, Miaomiao ; Zhang, Yijun ; Huang, Zhuoqiong ; Liu, Jun ; Guo, Xuemin ; Zhang, Hui ; Luo, Haihua
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identifierE-ISSN: 1932-6203 ; DOI: 10.1371/journal.pone.0108253
subjectAnimals–Metabolism ; Base Sequence–Genetics ; Cd4-Positive T-Lymphocytes–Genetics ; Cells, Cultured–Genetics ; Hek293 Cells–Genetics ; Humans–Genetics ; Interleukin-2–Genetics ; Jurkat Cells–Genetics ; Mice–Genetics ; RNA, Small Interfering–Genetics ; Tata Box–Genetics ; Transcriptional Activation–Genetics ; Transfection–Genetics ; Interleukin-2 ; RNA, Small Interfering
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descriptionSmall interfering RNAs (siRNAs) are widely used to repress gene expression by targeting mRNAs. Some reports reveal that siRNAs can also activate or inhibit gene expression through targeting the gene promoters. Our group has found that microRNAs (miRNAs) could activate gene transcription via interaction with the TATA-box motif in gene promoters. To investigate whether siRNA targeting the same region could upregulate the promoter activity, we test the activating efficiency of siRNAs targeting the TATA-box motif of 16 genes and perform a systematic analysis to identify the common features of the functional siRNAs for effective activation of gene promoters. Further, we try various modifications to improve the activating efficiency of siRNAs and find that it is quite useful to design the promoter-targeting activating siRNA by following several rules such as (a) complementary to the TATA-box-centered region; (b) UA usage at the first two bases of the antisense strand; (c) twenty-three nucleotides (nts) in length; (d) 2′-O-Methyl (2′-OMe) modification at the 3′ terminus of the antisense strand; (e) avoiding mismatches at the 3′ end of the antisense strand. The optimized activating siRNAs potently enhance the expression of interleukin-2 ( IL-2 ) gene in human and mouse primary CD4 + T cells with a long-time effect. Taken together, our study provides a guideline for rational design the promoter-targeting siRNA to sequence-specifically enhance gene expression.
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titleOptimizations of siRNA design for the activation of gene transcription by targeting the TATA-box motif.
authorFan, Miaomiao ; Zhang, Yijun ; Huang, Zhuoqiong ; Liu, Jun ; Guo, Xuemin ; Zhang, Hui ; Luo, Haihua
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