- Relaxed Cleavage Specificity of Hyperactive Variants of Escherichia coli RNase E on RNA I
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Dayeong Bae , Hana Hyeon , Eunkyoung Shin , Ji&# , Kangseok Lee
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J. Microbiol. 2023;61(2):211-220. Published online February 22, 2023
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DOI: https://doi.org/10.1007/s12275-023-00013-z
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 Abstract
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RNase E is an essential enzyme in Escherichia coli. The cleavage site of this single-stranded specific endoribonuclease is
well-characterized in many RNA substrates. Here, we report that the upregulation of RNase E cleavage activity by a mutation
that affects either RNA binding (Q36R) or enzyme multimerization (E429G) was accompanied by relaxed cleavage specificity.
Both mutations led to enhanced RNase E cleavage in RNA I, an antisense RNA of ColE1-type plasmid replication,
at a major site and other cryptic sites. Expression of a truncated RNA I with a major RNase E cleavage site deletion at the
5′-end (RNA I-
5) resulted in an approximately twofold increase in the steady-state levels of RNA I-
5 and the copy number
of ColE1-type plasmid in E. coli cells expressing wild-type or variant RNase E compared to those expressing RNA I. These
results
indicate that RNA I-
5 does not efficiently function as an antisense RNA despite having a triphosphate group at the
5′-end, which protects the RNA from ribonuclease attack. Our study suggests that increased cleavage rates of RNase E lead
to relaxed cleavage specificity on RNA I and the inability of the cleavage product of RNA I as an antisense regulator in vivo
does not stem from its instability by having 5′-monophosphorylated end.
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Citations
Citations to this article as recorded by  - Engineering an Escherichia coli based in vivo mRNA manufacturing platform
Edward Curry, George Muir, Jixin Qu, Zoltán Kis, Martyn Hulley, Adam Brown
Biotechnology and Bioengineering.2024; 121(6): 1912. CrossRef
- Development of DNA aptamers specific for small therapeutic peptides using a modified SELEX method
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Jaemin Lee , Minkyung Ryu , Dayeong Bae , Hong-Man Kim , Seong-il Eyun , Jeehyeon Bae , Kangseok Lee
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J. Microbiol. 2022;60(7):659-667. Published online June 22, 2022
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DOI: https://doi.org/10.1007/s12275-022-2235-4
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1,014
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Aptamers are short single-stranded DNA or RNA oligonucleotides
capable of binding with high affinity and specificity
to target molecules. Because of their durability and ease of synthesis,
aptamers are used in a wide range of biomedical fields,
including the diagnosis of diseases and targeted delivery of
therapeutic agents. The aptamers were selected using a process
called systematic evolution of ligands by exponential enrichment
(SELEX), which has been improved for various research
purposes since its development in 1990. In this protocol,
we describe a modified SELEX method that rapidly produces
high aptamer screening yields using two types of magnetic
beads. Using this method, we isolated an aptamer that
specifically binds to an antimicrobial peptide. We suggest that
by conjugating a small therapeutic-specific aptamer to a gold
nanoparticle-based delivery system, which enhances the stability
and intracellular delivery of peptides, aptamers selected
by our method can be used for the development of therapeutic
agents utilizing small therapeutic peptides.
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Citations
Citations to this article as recorded by - Recent approaches in the application of antimicrobial peptides in food preservation
Satparkash Singh, Bhavna Jha, Pratiksha Tiwari, Vinay G. Joshi, Adarsh Mishra, Yashpal Singh Malik
World Journal of Microbiology and Biotechnology.2024;[Epub] CrossRef - Design and application of microfluidics in aptamer SELEX and Aptasensors
Shikun Zhang, Yingming Zhang, Zhiyuan Ning, Mengxia Duan, Xianfeng Lin, Nuo Duan, Zhouping Wang, Shijia Wu
Biotechnology Advances.2024; 77: 108461. CrossRef - Nanogenosensors based on aptamers and peptides for bioelectrochemical cancer detection: an overview of recent advances in emerging materials and technologies
Babak Mikaeeli Kangarshahi, Seyed Morteza Naghib
Discover Applied Sciences.2024;[Epub] CrossRef - Recent progress of SELEX methods for screening nucleic acid aptamers
Chao Zhu, Ziru Feng, Hongwei Qin, Lu Chen, Mengmeng Yan, Linsen Li, Feng Qu
Talanta.2024; 266: 124998. CrossRef - Aptamer-conjugated gold nanoparticles platform as the intracellular delivery of antibodies for cancer therapy
Ji-Hyun Yeom, Eunkyoung Shin, Hanyong Jin, Haifeng Liu, Yongyang Luo, Youngwoo Nam, Minkyung Ryu, Wooseok Song, Heeyoun Chi, Jeongkyu Kim, Kangseok Lee, Jeehyeon Bae
Journal of Industrial and Engineering Chemistry.2023; 126: 480. CrossRef - Regulation of transforming growth factor-β signaling as a therapeutic approach to treating colorectal cancer
Jana Maslankova, Ivana Vecurkovska, Miroslava Rabajdova, Jana Katuchova, Milos Kicka, Michala Gayova, Vladimir Katuch
World Journal of Gastroenterology.2022; 28(33): 4744. CrossRef
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