Research Topics
Genomes and Genes | Hiroji AibaSummaryAffiliation: Nagoya University Country: Japan Publications
| Collaborators
|
Detail Information
Publications
Bacterial SsrA system plays a role in coping with unwanted translational readthrough caused by suppressor tRNAsKoji Ueda
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Genes Cells 7:509-19. 2002..The aim of the present study is to examine how translational readthrough by suppressor tRNAs affects trans-translation in Escherichia coli...- Mechanism of RNA silencing by Hfq-binding small RNAsHiroji Aiba
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Curr Opin Microbiol 10:134-9. 2007..Hfq accelerates the rate of duplex formation between SgrS and the target mRNA. Membrane localization of target mRNA contributes to efficient SgrS action by competing with ribosome loading... 
RNase E-based ribonucleoprotein complexes: mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAsTeppei Morita
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Genes Dev 19:2176-86. 2005..The formation of ribonucleoprotein complexes containing RNases could be a general way by which small RNAs destabilize target mRNAs in both prokaryotes and eukaryotes...- RNA, but not protein partners, is directly responsible for translational silencing by a bacterial Hfq-binding small RNAKimika Maki
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Proc Natl Acad Sci U S A 105:10332-7. 2008..This simple mechanism is in striking contrast to miRNA action in eukaryote in which the RNA is believed to act only as a guide of protein partners... - Implication of membrane localization of target mRNA in the action of a small RNA: mechanism of post-transcriptional regulation of glucose transporter in Escherichia coliHiroshi Kawamoto
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Genes Dev 19:328-38. 2005.... - Metabolic block at early stages of the glycolytic pathway activates the Rcs phosphorelay system via increased synthesis of dTDP-glucose in Escherichia coliWaleed El-Kazzaz
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464-8602, Japan
Mol Microbiol 51:1117-28. 2004..Taken together, we conclude that an increased synthesis of dTDP-glucose activates the Rcs phosphorelay system, presumably by affecting the synthesis of oligosaccharides for enterobacterial common antigen and O-antigen... - Base-pairing requirement for RNA silencing by a bacterial small RNA and acceleration of duplex formation by HfqHiroshi Kawamoto
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 61:1013-22. 2006..We also showed in vitro that SgrS forms a stable duplex with the ptsG mRNA, and that Hfq markedly facilitates the rate of duplex formation... - Nascent-peptide-mediated ribosome stalling at a stop codon induces mRNA cleavage resulting in nonstop mRNA that is recognized by tmRNATakafumi Sunohara
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
RNA 10:378-86. 2004.... 
Hfq binding at RhlB-recognition region of RNase E is crucial for the rapid degradation of target mRNAs mediated by sRNAs in Escherichia coliYoshiki Ikeda
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 79:419-32. 2011..Finally, we demonstrate that overexpression of RhlB partially inhibits the Hfq binding to RNase E and the rapid degradation of ptsG mRNA...- The functional Hfq-binding module of bacterial sRNAs consists of a double or single hairpin preceded by a U-rich sequence and followed by a 3' poly(U) tailHirokazu Ishikawa
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
RNA 18:1062-74. 2012..We also demonstrate that increasing the spacing between the base-pairing region and the Hfq-binding module reduces or impairs the silencing ability. These findings allowed us to design synthetic Hfq-binding sRNAs to target desired mRNAs... - Translational repression is sufficient for gene silencing by bacterial small noncoding RNAs in the absence of mRNA destructionTeppei Morita
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Proc Natl Acad Sci U S A 103:4858-63. 2006..One possible physiological role of mRNA degradation mediated by sRNP is to rid the cell of translationally inactive mRNAs, making gene silencing irreversible... - Cleavage of mRNAs and role of tmRNA system under amino acid starvation in Escherichia coliXia Li
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 68:462-73. 2008..The ribosome-mediated mRNA cleavage along with the tmRNA system is an important mechanism that enables cells to adapt to amino acid starvation conditions... - A minimal base-pairing region of a bacterial small RNA SgrS required for translational repression of ptsG mRNAKimika Maki
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 76:782-92. 2010..Interestingly, the 14 nt oligo efficiently inhibited ptsG translation without the high-temperature pre-treatment, suggesting that remodelling of structured SgrS is an important mechanism by which Hfq promotes the base pairing... - Ribosome stalling during translation elongation induces cleavage of mRNA being translated in Escherichia coliTakafumi Sunohara
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
J Biol Chem 279:15368-75. 2004..We propose that the mRNA cleavage induced by ribosome stalling acts in concert with the tmRNA system as a way to ensure quality control of protein synthesis and possibly to regulate the expression of certain genes... - Analyses of mRNA destabilization and translational inhibition mediated by Hfq-binding small RNAsTeppei Morita
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya, Japan
Methods Enzymol 447:359-78. 2008..Here, we describe major experimental methods and results used to study functions of Hfq-binding small RNAs in our laboratory. These are illustrated using the regulation of ptsG mRNA by SgrS is used as an example... - Enolase in the RNA degradosome plays a crucial role in the rapid decay of glucose transporter mRNA in the response to phosphosugar stress in Escherichia coliTeppei Morita
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 54:1063-75. 2004..In addition, we show that PNPase and RhlB within the degradosome cooperate to eliminate short degradation intermediates of ptsG mRNA... - Protein tagging at rare codons is caused by tmRNA action at the 3' end of nonstop mRNA generated in response to ribosome stallingXia Li
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464-8602, Japan
RNA 12:248-55. 2006..We conclude that a ribosome stalled by the rare codon induces mRNA cleavage, resulting in nonstop mRNAs that are recognized by tmRNA... - Membrane localization itself but not binding to IICB is directly responsible for the inactivation of the global repressor Mlc in Escherichia coliYuya Tanaka
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 53:941-51. 2004..We conclude that the IICBGlc-Mlc interaction is dispensable for the inactivation of Mlc, and that membrane localization is directly responsible for the inactivation of Mlc... - SsrA-mediated trans-translation plays a role in mRNA quality control by facilitating degradation of truncated mRNAsYasufumi Yamamoto
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
RNA 9:408-18. 2003..We conclude that the SsrA system not only promotes the degradation of incomplete polypeptides but also minimizes the synthesis of incomplete polypeptides by facilitating the degradation of truncated mRNAs that are produced in cells... - Reduced action of polypeptide release factors induces mRNA cleavage and tmRNA tagging at stop codons in Escherichia coliXia Li
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Mol Microbiol 63:116-26. 2007.... - The C-terminal amino acid sequence of nascent peptide is a major determinant of SsrA tagging at all three stop codonsTakafumi Sunohara
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
RNA 8:1416-27. 2002..We conclude that the amino acid sequence of nascent polypeptide prior to stop codons is a major determinant for the SsrA tagging at all three stop codons... - Analysis of nonstop mRNA translation in the absence of tmRNA in Escherichia coliKazushige Kuroha
Department of Molecular Biology, Graduate School of Science, Nagoya University, Chikusa ku, Nagoya 464 8602, Japan
Genes Cells 14:739-49. 2009..Possible factors involved in the hydrolysis of the peptidyl-tRNAs of nonstop mRNAs are discussed... - PolyU tail of rho-independent terminator of bacterial small RNAs is essential for Hfq actionHironori Otaka
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Proc Natl Acad Sci U S A 108:13059-64. 2011..We conclude that the polyU tail of sRNAs is essential for Hfq action in general. The data also indicate that the terminator polyU tail plays a role in Hfq-dependent stabilization of sRNAs... - SsrA-mediated protein tagging in the presence of miscoding drugs and its physiological role in Escherichia coliTatsuhiko Abo
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
Genes Cells 7:629-38. 2002..The aim of the present study was to address how miscoding antibiotics affect the read-through of stop codons and SsrA-mediated protein tagging... - Small RNAs making a small proteinTeppei Morita
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464-8602, Japan
Proc Natl Acad Sci U S A 104:20149-50. 2007 - Photo-induced regulation of the chromatic adaptive gene expression by Anabaena sensory rhodopsinHiroki Irieda
Division of Biological Science, Graduate School of Science, Nagoya University, Nagoya 464 8602, Japan
J Biol Chem 287:32485-93. 2012..In the future, the ASR activity could be utilized as a tool for arbitrary protein expression in vivo regulated by visible light... - Translation of aberrant mRNAs lacking a termination codon or with a shortened 3'-UTR is repressed after initiation in yeastToshifumi Inada
Department of Molecular Biology, Graduate School of Science, Nagoya University, Nagoya, Japan
EMBO J 24:1584-95. 2005..We also found that translation of aberrant mRNAs with a shortened 3'-UTR was repressed, suggesting that an improper spatial distance between the termination codon and the 3' end of mRNA results in translation repression... - [RNA silencing mediated by small RNAs in Escherichia coli]Teppei Morita
Tanpakushitsu Kakusan Koso 51:2478-83. 2006 - Accumulation of glucose 6-phosphate or fructose 6-phosphate is responsible for destabilization of glucose transporter mRNA in Escherichia coliTeppei Morita
Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
J Biol Chem 278:15608-14. 2003..We conclude that the RNase E-dependent destabilization of ptsG mRNA occurs in response to accumulation of glucose-6-P or fructose-6-P... - An oncoprotein from the plant pathogen agrobacterium has histone chaperone-like activityShinji Terakura
Division of Biological Science, Graduate School of Science, Nagoya University, Nagoya, Aichi, Japan
Plant Cell 19:2855-65. 2007..Our results suggest a relationship between alterations in nucleosome structure and the expression of growth-regulating genes on the one hand and the induction of aberrant cell proliferation on the other... - [When trans-translation occurs?]Tatsuhiko Abo
Tanpakushitsu Kakusan Koso 49:1067-8. 2004 - YeeI, a novel protein involved in modulation of the activity of the glucose-phosphotransferase system in Escherichia coli K-12Ann Katrin Becker
Department of Biology and Chemistry, University of Osnabruck, D 49069 Osnabruck, Germany
J Bacteriol 188:5439-49. 2006..By measuring the surface plasmon resonance, we found that YeeI (proposed gene designation, mtfA) directly interacts with Mlc with high affinity...