Identifying Hfq-binding small RNA targets in Escherichia coli.
The Hfq-binding small RNAs (sRNAs) have recently drawn much attention as regulators of translation in Escherichia coli. We attempt to identify the targets of this class of sRNAs in genome scale and gain further insight into the complexity of translational regulation induced by Hfq-binding sRNAs. Using a new alignment algorithm, most known negatively regulated targets of Hfq-binding sRNAs were identified. The results also show several interesting aspects of the regulatory function of Hfq-binding sRNAs.
Zhang
Yong
Y
Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.
Sun
Shiwei
S
Wu
Tao
T
Wang
Jie
J
Liu
Changning
C
Chen
Lan
L
Zhu
Xiaopeng
X
Zhao
Yi
Y
Zhang
Zhihua
Z
Shi
Baochen
B
Lu
Hongchao
H
Chen
Runsheng
R
D000465:Algorithms; D004926:Escherichia coli / Q000235:genetics* / Q000378:metabolism; D029968:Escherichia coli Proteins / Q000378:metabolism*; D015964:Gene Expression Regulation, Bacterial; D006418:Heme / Q000031:analogs & derivatives / Q000096:biosynthesis; D035001:Host Factor 1 Protein / Q000378:metabolism*; D009876:Operon; D012329:RNA, Bacterial / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D022661:RNA, Untranslated / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism
D029968:Escherichia coli Proteins; C087373:Hfq protein, E coli; D035001:Host Factor 1 Protein; D012329:RNA, Bacterial; D022661:RNA, Untranslated; C069808:heme O; D006418:Heme; C009272:siroheme