Quantifying the sequence-function relation in gene silencing by bacterial small RNAs
文献类型：期刊论文
| 作者 | Shi, HL
|
| 刊名 | PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
 |
| 出版日期 | 2011 |
| 卷号 | 108期号:30页码:12473-12478 |
| 关键词 | SMALL REGULATORY RNAS SMALL NONCODING RNAS MESSENGER-RNA ESCHERICHIA-COLI BINDING-SITES SOLUBLE-RNA TRANSLATIONAL INITIATION VIBRIO-CHOLERAE OUTER-MEMBRANE HFQ-BINDING |
| ISSN号 | 0027-8424 |
| 通讯作者 | Shi, HL (reprint author), Univ Calif San Diego, Div Biol Sci, Mol Biol Sect, La Jolla, CA 92093 USA. |
| 英文摘要 | Sequence-function relations for small RNA (sRNA)-mediated gene silencing were quantified for the sRNA RyhB and some of its mRNA targets in Escherichia coli. Numerous mutants of RyhB and its targets were generated and their in vivo functions characterized at various levels of target and RyhB expression. Although a core complementary region is required for repression by RyhB, variations in the complementary sequences of the core region gave rise to a continuum of repression strengths, correlated exponentially with the computed free energy of RyhB-target duplex formation. Moreover, sequence variations in the linker region known to interact with the RNA chaperone Hfq also gave rise to a continuum of repression strengths, correlated exponentially with the computed energy cost of keeping the linker region open. These results support the applicability of the thermodynamic model in predicting sRNA-mRNA interaction and suggest that sequences at these locations may be used to fine-tune the degree of repression. Surprisingly, a truncated RyhB without the Hfq-binding region is found to repress multiple targets of the wild-type RyhB effectively, both in the presence and absence of Hfq, even though the former is required for the activity of wild-type RyhB itself. These findings challenge the commonly accepted model concerning the function of Hfq in gene silencing-both in providing stability to the sRNAs and in catalyzing the target mRNAs to take on active conformations-and raise the intriguing question of why many endogenous sRNAs subject their functions to Hfq-dependences. |
| 学科主题 | Physics |
| 收录类别 | SCI |
| 资助信息 | National Institutes of Health [R01-GM77298]; National Natural Science Foundation of China [10428409, 90403140]; National Basic Research Program of China [2007CB814800] |
| 原文出处 | http://dx.doi.org/10.1073/pnas.1100432108 |
| 语种 | 英语 |
| WOS记录号 | WOS:000293129900056 |
| 公开日期 | 2013-05-17 |
| 源URL | [http://ir.itp.ac.cn/handle/311006/14315]  |
| 专题 | 理论物理研究所_理论物理所1978-2010年知识产出 |
| 推荐引用方式 GB/T 7714 | Shi, HL. Quantifying the sequence-function relation in gene silencing by bacterial small RNAs[J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,2011,108(30):12473-12478. |
| APA | Shi, HL.(2011).Quantifying the sequence-function relation in gene silencing by bacterial small RNAs.PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,108(30),12473-12478. |
| MLA | Shi, HL."Quantifying the sequence-function relation in gene silencing by bacterial small RNAs".PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 108.30(2011):12473-12478. |
入库方式： OAI收割
来源：理论物理研究所
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