ITP OpenIR  > 理论物理所科研产出  > SCI期刊论文
Hao, Y; Zhang, ZJ; Erickson, DW; Huang, M; Huang, YW; Li, JB; Hwa, T; Shi, HL; Shi, HL (reprint author), Univ Calif San Diego, Div Biol Sci, Mol Biol Sect, La Jolla, CA 92093 USA.
Quantifying the sequence-function relation in gene silencing by bacterial small RNAs
Source PublicationPROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Language英语
KeywordSmall Regulatory Rnas Small Noncoding Rnas Messenger-rna Escherichia-coli Binding-sites Soluble-rna Translational Initiation Vibrio-cholerae Outer-membrane Hfq-binding
AbstractSequence-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.
2011
ISSN0027-8424
Volume108Issue:30Pages:12473-12478
Subject AreaPhysics
Indexed BySCI
Funding OrganizationNational Institutes of Health [R01-GM77298]; National Natural Science Foundation of China [10428409, 90403140]; National Basic Research Program of China [2007CB814800] ; National Institutes of Health [R01-GM77298]; National Natural Science Foundation of China [10428409, 90403140]; National Basic Research Program of China [2007CB814800] ; National Institutes of Health [R01-GM77298]; National Natural Science Foundation of China [10428409, 90403140]; National Basic Research Program of China [2007CB814800] ; National Institutes of Health [R01-GM77298]; National Natural Science Foundation of China [10428409, 90403140]; National Basic Research Program of China [2007CB814800]
Citation statistics
Cited Times:37[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.itp.ac.cn/handle/311006/14315
Collection理论物理所科研产出_SCI期刊论文
Corresponding AuthorShi, HL (reprint author), Univ Calif San Diego, Div Biol Sci, Mol Biol Sect, La Jolla, CA 92093 USA.
Recommended Citation
GB/T 7714
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.
APA Hao, Y.,Zhang, ZJ.,Erickson, DW.,Huang, M.,Huang, YW.,...&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 Hao, Y,et al."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.
Files in This Item:
File Name/Size DocType Version Access License
Quantifying the sequ(552KB) 开放获取LicenseApplication Full Text
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Hao, Y]'s Articles
[Zhang, ZJ]'s Articles
[Erickson, DW]'s Articles
Baidu academic
Similar articles in Baidu academic
[Hao, Y]'s Articles
[Zhang, ZJ]'s Articles
[Erickson, DW]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Hao, Y]'s Articles
[Zhang, ZJ]'s Articles
[Erickson, DW]'s Articles
Terms of Use
No data!
Social Bookmark/Share
All comments (0)
No comment.
 

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.