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ITP OpenIR  > 理论物理所2011年知识产出  > 期刊论文
题名: Quantifying the sequence-function relation in gene silencing by bacterial small RNAs
作者: Hao, Y ;  Zhang, ZJ ;  Erickson, DW ;  Huang, M ;  Huang, YW ;  Li, JB ;  Hwa, T ;  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
学科分类: Physics
通讯作者: Shi, HL (reprint author), Univ Calif San Diego, Div Biol Sci, Mol Biol Sect, La Jolla, CA 92093 USA.
部门归属: [Zhang, Zhongge J.; Hwa, Terence] Univ Calif San Diego, Div Biol Sci, Mol Biol Sect, La Jolla, CA 92093 USA; [Hao, Yue; Huang, Min; Shi, Hualin] Chinese Acad Sci, Inst Theoret Phys, Beijing 100190, Peoples R China; [Li, Junbai] Chinese Acad Sci, Inst Chem, Beijing 100190, Peoples R China; [Erickson, David W.; Hwa, Terence] Univ Calif San Diego, Ctr Theoret Biol Phys, La Jolla, CA 92093 USA; [Erickson, David W.; Hwa, Terence] Univ Calif San Diego, Dept Phys, La Jolla, CA 92093 USA; [Huang, Yingwu] Tsinghua Univ, Dept Biol Sci & Biotechnol, Beijing 100084, Peoples R China
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.
资助者: National Institutes of Health [R01-GM77298]; National Natural Science Foundation of China [10428409, 90403140]; National Basic Research Program of China [2007CB814800]
收录类别: SCI
原文出处: 查看原文
语种: 英语
WOS记录号: WOS:000293129900056
Citation statistics: 
内容类型: 期刊论文
URI标识: http://ir.itp.ac.cn/handle/311006/14315
Appears in Collections:理论物理所2011年知识产出_期刊论文

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Recommended Citation:
Hao, Y,Zhang, ZJ,Erickson, DW,et al. 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.
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