- Relaxed Cleavage Specificity of Hyperactive Variants of Escherichia coli RNase E on RNA I
-
Dayeong Bae , Hana Hyeon , Eunkyoung Shin , Ji&# , Kangseok Lee
-
J. Microbiol. 2023;61(2):211-220. Published online February 22, 2023
-
DOI: https://doi.org/10.1007/s12275-023-00013-z
-
-
85
View
-
0
Download
-
1
Web of Science
-
1
Crossref
-
 Abstract
-
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.
-
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
- Transcript-specific selective translation by specialized ribosomes bearing genome-encoded heterogeneous rRNAs in V. vulnificus CMCP6
-
Younkyung Choi , Minju Joo , Wooseok Song , Minho Lee , Hana Hyeon , Hyun-Lee Kim , Ji-Hyun Yeom , Kangseok Lee , Eunkyoung Shin
-
J. Microbiol. 2022;60(12):1162-1167. Published online November 24, 2022
-
DOI: https://doi.org/10.1007/s12275-022-2437-9
-
-
83
View
-
0
Download
-
2
Web of Science
-
2
Crossref
-
Abstract
-
Ribosomes composed of genome-encoded heterogeneous
rRNAs are implicated in the rapid adaptation of bacterial
cells to environmental changes. A previous study showed that
ribosomes bearing the most heterogeneous rRNAs expressed
from the rrnI operon (I-ribosomes) are implicated in the preferential
translation of a subset of mRNAs, including hspA
and tpiA, in Vibrio vulnificus CMCP6. In this study, we show
that HspA nascent peptides were predominantly bound to
I-ribosomes. Specifically, I-ribosomes were enriched more
than two-fold in ribosomes that were pulled down by immunoprecipitation
of HspA peptides compared with the proportion
of I-ribosomes in crude ribosomes and ribosomes pulled
down by immunoprecipitation of RNA polymerase subunit
ß peptides in the wild-type (WT) and rrnI-completed strains.
Other methods that utilized the incorporation of an affinity
tag in 23S rRNA or chimeric rRNA tethering 16S and 23S
rRNAs, which generated specialized functional ribosomes
in Escherichia coli, did not result in functional I-ribosomes
in V. vulnificus CMCP6. This study provides direct evidence
of the preferential translation of hspA mRNA by I-ribosomes.
-
Citations
Citations to this article as recorded by - Functional conservation of specialized ribosomes bearing genome-encoded variant rRNAs in Vibrio species
Younkyung Choi, Eunkyoung Shin, Minho Lee, Ji-Hyun Yeom, Kangseok Lee, Bashir Sajo Mienda
PLOS ONE.2023; 18(12): e0289072. CrossRef - Relaxed Cleavage Specificity of Hyperactive Variants of Escherichia coli RNase E on RNA I
Dayeong Bae, Hana Hyeon, Eunkyoung Shin, Ji-Hyun Yeom, Kangseok Lee
Journal of Microbiology.2023; 61(2): 211. CrossRef
- Gold nanoparticle-DNA aptamer-assisted delivery of antimicrobial peptide effectively inhibits Acinetobacter baumannii infection in mice
-
Jaeyeong Park , Eunkyoung Shin , Ji-Hyun Yeom , Younkyung Choi , Minju Joo , Minho Lee , Je Hyeong Kim , Jeehyeon Bae , Kangseok Lee
-
J. Microbiol. 2022;60(1):128-136. Published online December 29, 2021
-
DOI: https://doi.org/10.1007/s12275-022-1620-3
-
-
169
View
-
0
Download
-
15
Web of Science
-
15
Crossref
-
Abstract
-
Acinetobacter baumannii causes multidrug resistance, leading
to fatal infections in humans. In this study, we showed that
Lys AB2 P3-His–a hexahistidine-tagged form of an antimicrobial
peptide (AMP) loaded onto DNA aptamer-functionalized
gold nanoparticles (AuNP-Apt)–can effectively inhibit
A. baumannii infection in mice. When A. baumannii-infected
mice were intraperitoneally injected with AuNP-Apt loaded
with Lys AB2 P3-His, a marked reduction in A. baumannii
colonization was observed in the mouse organs, leading to
prominently increased survival time and rate of the mice compared
to those of the control mice treated with AuNP-Apt or
Lys AB2 P3-His only. This study shows that AMPs loaded
onto AuNP-Apt could be an effective therapeutic tool against
infections caused by multidrug-resistant pathogenic bacteria
in humans.
-
Citations
Citations to this article as recorded by - Challenges and Emerging Molecular Approaches in Combating Antimicrobial Resistance
Gene Philip Levee Ynion, Christian Jay Rosal, Arvin Zulueta, Angelo Ordanel, Christopher Marlowe Caipang
Journal of Bacteriology and Virology.2024; 54(1): 12. CrossRef - Gold Nanoparticles and Antimicrobial Peptides: A Novel Combination
Şule Balcı, Bengü Ergüden
ChemistrySelect.2024;[Epub] CrossRef - Aptamers: A Cutting-Edge Approach for Gram-Negative Bacterial Pathogen Identification
María Guadalupe Córdova-Espinoza, Rosa González-Vázquez, Rolando Rafik Barron-Fattel, Raquel Gónzalez-Vázquez, Marco Antonio Vargas-Hernández, Exsal Manuel Albores-Méndez, Ana Laura Esquivel-Campos, Felipe Mendoza-Pérez, Lino Mayorga-Reyes, María Angélica
International Journal of Molecular Sciences.2024; 25(2): 1257. CrossRef - Antimicrobial Peptide Delivery Systems as Promising Tools Against Resistant Bacterial Infections
Kamila Botelho Sampaio de Oliveira, Michel Lopes Leite, Nadielle Tamires Moreira Melo, Letícia Ferreira Lima, Talita Cristina Queiroz Barbosa, Nathalia Lira Carmo, Douglas Afonso Bittencourt Melo, Hugo Costa Paes, Octávio Luiz Franco
Antibiotics.2024; 13(11): 1042. CrossRef - Optimizing Treatment for Carbapenem-Resistant Acinetobacter baumannii Complex Infections: A Review of Current Evidence
Seong Jin Choi, Eu Suk Kim
Infection & Chemotherapy.2024; 56(2): 171. CrossRef - Advances in skin gene therapy: utilizing innovative dressing scaffolds for wound healing, a comprehensive review
Fatemeh Karimzadeh, Elahe Soltani Fard, Akram Nadi, Rahim Malekzadeh, Fatemeh Elahian, Seyed Abbas Mirzaei
Journal of Materials Chemistry B.2024; 12(25): 6033. CrossRef - Colistin Resistance Mechanism and Management Strategies of Colistin-Resistant Acinetobacter baumannii Infections
Md Minarul Islam, Da Eun Jung, Woo Shik Shin, Man Hwan Oh
Pathogens.2024; 13(12): 1049. CrossRef - Progress in Programmable DNA-Aided Self-Assembly of the Master Frame of a Drug Delivery System
Gary Q. Yang, Weibin Cai, Zhiwen Zhang, Yujun Wang
ACS Applied Bio Materials.2023; 6(12): 5125. CrossRef - Neglected Zoonotic Diseases: Advances in the Development of Cell-Penetrating and Antimicrobial Peptides against Leishmaniosis and Chagas Disease
Sara M. Robledo, Silvia Pérez-Silanes, Celia Fernández-Rubio, Ana Poveda, Lianet Monzote, Víctor M. González, Paloma Alonso-Collado, Javier Carrión
Pathogens.2023; 12(7): 939. CrossRef - Applications and Challenges of Bacteriostatic Aptamers in the Treatment of Common Pathogenic Bacteria Infections
Diandian Li, Yuan Su, Jie Li, Rong Liu, Bing Fang, Jingjing He, Wentao Xu, Longjiao Zhu
Biomacromolecules.2023; 24(11): 4568. CrossRef - Promising Acinetobacter baumannii Vaccine Candidates and Drug Targets in Recent Years
Yong Chiang Tan, Chandrajit Lahiri
Frontiers in Immunology.2022;[Epub] CrossRef - Advances and Perspective on Antimicrobial Nanomaterials for Biomedical Applications
Preeti Garg, Prerna Attri, Rohit Sharma, Moondeep Chauhan, Ganga Ram Chaudhary
Frontiers in Nanotechnology.2022;[Epub] CrossRef - Aptamer Decorated Emodin Nanoparticles-Assisted Delivery of Dermcidin-Derived Peptide DCD-1L: Photoactive Bio-Theragnostic Agent for Enterococcus Faecalis Biofilm Destruction
Maryam Pourhajibagher, Abbas Bahador
SSRN Electronic Journal .2022;[Epub] CrossRef - Development of DNA aptamers specific for small therapeutic peptides using a modified SELEX method
Jaemin Lee, Minkyung Ryu, Dayeong Bae, Hong-Man Kim, Seong-il Eyun, Jeehyeon Bae, Kangseok Lee
Journal of Microbiology.2022; 60(7): 659. CrossRef - Aptamer decorated emodin nanoparticles-assisted delivery of dermcidin-derived peptide DCD-1L: Photoactive bio-theragnostic agent for Enterococcus faecalis biofilm destruction
Maryam Pourhajibagher, Abbas Bahador
Photodiagnosis and Photodynamic Therapy.2022; 39: 103020. CrossRef
- Regulator of ribonuclease activity modulates the pathogenicity of Vibrio vulnificus
-
Jaejin Lee , Eunkyoung Shin , Jaeyeong Park , Minho Lee , Kangseok Lee
-
J. Microbiol. 2021;59(12):1133-1141. Published online November 9, 2021
-
DOI: https://doi.org/10.1007/s12275-021-1518-5
-
-
84
View
-
0
Download
-
4
Web of Science
-
5
Crossref
-
Abstract
-
RraA, a protein regulator of RNase E activity, plays a unique
role in modulating the mRNA abundance in Escherichia coli.
The marine pathogenic bacterium Vibrio vulnificus also possesses
homologs of RNase E (VvRNase E) and RraA (VvRraA1
and VvRraA2). However, their physiological roles have not
yet been investigated. In this study, we demonstrated that
VvRraA1 expression levels affect the pathogenicity of V. vulnificus.
Compared to the wild-type strain, the VvrraA1-deleted
strain (ΔVvrraA1) showed decreased motility, invasiveness,
biofilm formation ability as well as virulence in mice; these
phenotypic changes of ΔVvrraA1 were restored by the exogenous
expression of VvrraA1. Transcriptomic analysis indicated
that VvRraA1 expression levels affect the abundance
of a large number of mRNA species. Among them, the halflives
of mRNA species encoding virulence factors (e.g., smcR
and htpG) that have been previously shown to affect VvrraA1
expression-dependent phenotypes were positively correlated
with VvrraA1 expression levels. These findings suggest that
VvRraA1 modulates the pathogenicity of V. vulnificus by regulating
the abundance of a subset of mRNA species.
-
Citations
Citations to this article as recorded by -
Identification of the global regulatory roles of RraA via the integrative transcriptome and proteome in
Vibrio alginolyticus
Huizhen Chen, Qian Gao, Bing Liu, Ying Zhang, Jianxiang Fang, Songbiao Wang, Youqi Chen, Chang Chen, Nicolas E. Buchler
mSphere.2024;[Epub] CrossRef - Comparative Transcriptomic Analysis of Flagellar-Associated Genes in Salmonella Typhimurium and Its rnc Mutant
Seungmok Han, Ji-Won Byun, Minho Lee
Journal of Microbiology.2024; 62(1): 33. CrossRef - Eco-Evolutionary Drivers of Vibrio parahaemolyticus Sequence Type 3 Expansion: Retrospective Machine Learning Approach
Amy Marie Campbell, Chris Hauton, Ronny van Aerle, Jaime Martinez-Urtaza
JMIR Bioinformatics and Biotechnology.2024; 5: e62747. CrossRef - Relaxed Cleavage Specificity of Hyperactive Variants of Escherichia coli RNase E on RNA I
Dayeong Bae, Hana Hyeon, Eunkyoung Shin, Ji-Hyun Yeom, Kangseok Lee
Journal of Microbiology.2023; 61(2): 211. CrossRef - Regulator of RNase E activity modulates the pathogenicity of Salmonella Typhimurium
Jaejin Lee, Eunkyoung Shin, Ji-Hyun Yeom, Jaeyoung Park, Sunwoo Kim, Minho Lee, Kangseok Lee
Microbial Pathogenesis.2022; 165: 105460. CrossRef
- MINIREVIEW] Regulation of Escherichia coli RNase III activity
-
Boram Lim , Minji Sim , Howoon Lee , Seogang Hyun , Younghoon Lee , Yoonsoo Hahn , Eunkyoung Shin , Kangseok Lee
-
J. Microbiol. 2015;53(8):487-494. Published online July 31, 2015
-
DOI: https://doi.org/10.1007/s12275-015-5323-x
-
-
100
View
-
0
Download
-
12
Crossref
-
Abstract
-
Bacterial cells respond to changes in the environment by
adjusting their physiological reactions. In cascades of cellular
responses to stresses of various origins, rapid modulation
of RNA function is known to be an effective biochemical
adaptation. Among many factors affecting RNA function,
RNase III, a member of the phylogenetically highly conserved
endoribonuclease III family, plays a key role in posttranscriptional
regulatory pathways in Escherichia coli. In
this review, we provide an overview of the factors affecting
RNase III activity in E. coli.
-
Citations
Citations to this article as recorded by - Comparative Transcriptomic Analysis of Flagellar-Associated Genes in Salmonella Typhimurium and Its rnc Mutant
Seungmok Han, Ji-Won Byun, Minho Lee
Journal of Microbiology.2024; 62(1): 33. CrossRef - arfAantisense RNA regulates MscL excretory activity
Rosa Morra, Fenryco Pratama, Thomas Butterfield, Geizecler Tomazetto, Kate Young, Ruth Lopez, Neil Dixon
Life Science Alliance.2023; 6(6): e202301954. CrossRef - Transcriptome and metabolome analyses of response of Synechocystis sp. PCC 6803 to methyl viologen
Xinyu Hu, Tianyuan Zhang, Kai Ji, Ke Luo, Li Wang, Wenli Chen
Applied Microbiology and Biotechnology.2021; 105(21-22): 8377. CrossRef - Endoribonuclease-mediated control of hns mRNA stability constitutes a key regulatory pathway for Salmonella Typhimurium pathogenicity island 1 expression
Minho Lee, Minkyung Ryu, Minju Joo, Young-Jin Seo, Jaejin Lee, Hong-Man Kim, Eunkyoung Shin, Ji-Hyun Yeom, Yong-Hak Kim, Jeehyeon Bae, Kangseok Lee, William Navarre
PLOS Pathogens.2021; 17(2): e1009263. CrossRef - Trans-acting regulators of ribonuclease activity
Jaejin Lee, Minho Lee, Kangseok Lee
Journal of Microbiology.2021; 59(4): 341. CrossRef - RNase III, Ribosome Biogenesis and Beyond
Maxence Lejars, Asaki Kobayashi, Eliane Hajnsdorf
Microorganisms.2021; 9(12): 2608. CrossRef - The rnc Gene Regulates the Microstructure of Exopolysaccharide in the Biofilm of Streptococcus mutans through the β-Monosaccharides
Yangyu Lu, Hongyu Zhang, Meng Li, Mengying Mao, Jiaqi Song, Yalan Deng, Lei Lei, Yingming Yang, Tao Hu
Caries Research.2021; 55(5): 534. CrossRef - Distributive enzyme binding controlled by local RNA context results in 3′ to 5′ directional processing of dicistronic tRNA precursors byEscherichia coliribonuclease P
Jing Zhao, Michael E Harris
Nucleic Acids Research.2019; 47(3): 1451. CrossRef - RNase G controls tpiA mRNA abundance in response to oxygen availability in Escherichia coli
Jaejin Lee, Dong-Ho Lee, Che Ok Jeon, Kangseok Lee
Journal of Microbiology.2019; 57(10): 910. CrossRef - The coordinated action of RNase III and RNase G controls enolase expression in response to oxygen availability in Escherichia coli
Minho Lee, Minju Joo, Minji Sim, Se-Hoon Sim, Hyun-Lee Kim, Jaejin Lee, Minkyung Ryu, Ji-Hyun Yeom, Yoonsoo Hahn, Nam-Chul Ha, Jang-Cheon Cho, Kangseok Lee
Scientific Reports.2019;[Epub] CrossRef - Identification of endoribonuclease specific cleavage positions reveals novel targets of RNase III inStreptococcus pyogenes
Anaïs Le Rhun, Anne-Laure Lécrivain, Johan Reimegård, Estelle Proux-Wéra, Laura Broglia, Cristina Della Beffa, Emmanuelle Charpentier
Nucleic Acids Research.2017; : gkw1316. CrossRef - Regulation and functions of bacterial PNPase
Federica Briani, Thomas Carzaniga, Gianni Dehò
WIREs RNA.2016; 7(2): 241. CrossRef
|
MSK
PDF
