Skip to main content
U.S. Department of Energy
Office of Scientific and Technical Information

Small RNA-mediated regulation of host–pathogen interactions

Journal Article · · Virulence
DOI:https://doi.org/10.4161/viru.26119· OSTI ID:1628710
 [1];  [2];  [2];  [2]
  1. Los Alamos National Laboratory (LANL), Los Alamos, NM (United States); DOE/OSTI
  2. Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
The rise in antimicrobial drug resistance, alongside the failure of conventional research to discover new antibiotics, will inevitably lead to a public health crisis that can drastically curtail our ability to combat infectious disease. Thus, there is a great global health need for development of antimicrobial countermeasures that target novel cell molecules or processes. RNA represents a largely unexploited category of potential targets for antimicrobial design. For decades, control of cellular behavior was thought to be the exclusive purview of protein-based regulators. The recent discovery of small RNAs (sRNAs) as a universal class of powerful RNA-based regulatory biomolecules has the potential to revolutionize our understanding of gene regulation in practically all biological functions. In general, sRNAs regulate gene expression by base-pairing with multiple downstream target mRNAs to prevent translation of mRNA into protein. In this review, we will discuss recent studies that document discovery of bacterial, viral, and human sRNAs and their molecular mechanisms in regulation of pathogen virulence and host immunity. Illuminating the functional roles of sRNAs in virulence and host immunity can provide the fundamental knowledge for development of next-generation antibiotics using sRNAs as novel targets.
Research Organization:
Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
Sponsoring Organization:
USDOE Laboratory Directed Research and Development (LDRD) Program; USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division
Grant/Contract Number:
AC52-06NA25396
OSTI ID:
1628710
Journal Information:
Virulence, Journal Name: Virulence Journal Issue: 8 Vol. 4; ISSN 2150-5594
Publisher:
Taylor & FrancisCopyright Statement
Country of Publication:
United States
Language:
English

References (137)

MicroRNA signatures in Helicobacter pylori-infected gastric mucosa journal March 2010
Correlation between structure and pathogenicity of potato spindle tuber viroid (PSTV) journal September 1985
Apamin administration impact on miR-219 and miR-155-3p expression in cuprizone induced multiple sclerosis model journal November 2020
Separation of 32 P-labelled ribonucleic acid components. The use of polyethylenimine-cellulose (TLC) as a second dimension in separating oligoribonucleotides of ‘4.5 S’ and 5 S from E. coli journal June 1971
Identifying Hfq-binding small RNA targets in Escherichia coli journal May 2006
RNAi suppressors encoded by pathogenic human viruses journal January 2008
Regulatory RNAs in Bacteria journal February 2009
The Human DiGeorge Syndrome Critical Region Gene 8 and Its D. melanogaster Homolog Are Required for miRNA Biogenesis journal December 2004
miRNA profiling of cancer journal February 2013
Foxp3-Dependent MicroRNA155 Confers Competitive Fitness to Regulatory T Cells by Targeting SOCS1 Protein journal January 2009
Regulation by Small RNAs in Bacteria: Expanding Frontiers journal September 2011
Prediction of Mammalian MicroRNA Targets journal December 2003
Counting Small RNA in Pathogenic Bacteria journal April 2013
miR-21 plays a pivotal role in gastric cancer pathogenesis and progression journal September 2008
Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs journal January 2005
RNA interference is an antiviral defence mechanism in Caenorhabditis elegans journal August 2005
Interferon modulation of cellular microRNAs as an antiviral mechanism journal October 2007
Transgenerational gene silencing causes gain of virulence in a plant pathogen journal January 2013
Innate immune recognition of viral infection journal January 2006
Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? journal February 2008
Current prospects for RNA interference-based therapies journal April 2011
Nuclear export of chimeric mRNAs depends on an lncRNA-triggered autoregulatory loop in blood malignancies journal July 2020
MicroRNA genes are transcribed by RNA polymerase II journal September 2004
Interferon antagonist proteins of influenza and vaccinia viruses are suppressors of RNA silencing journal January 2004
Tracking down noncoding RNAs journal February 2005
RNA silencing of host transcripts by cauliflower mosaic virus requires coordinated action of the four Arabidopsis Dicer-like proteins journal December 2006
MicroRNA-155 is induced during the macrophage inflammatory response journal January 2007
Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing journal February 2009
Global discovery of small RNAs in Yersinia pseudotuberculosis identifies Yersinia-specific small, noncoding RNAs required for virulence journal August 2011
Mycobacterium tuberculosis lipomannan blocks TNF biosynthesis by regulating macrophage MAPK-activated protein kinase 2 (MK2) and microRNA miR-125b journal October 2011
RNA virus microRNA that mimics a B-cell oncomiR journal January 2012
A Cellular Micro-RNA, let-7i, Regulates Toll-like Receptor 4 Expression and Contributes to Cholangiocyte Immune Responses against Cryptosporidium parvum Infection journal September 2007
TargetRNA: a tool for predicting targets of small RNA action in bacteria journal May 2008
Characterization of homologs of the small RNA SgrS reveals diversity in function journal July 2009
miRBase: integrating microRNA annotation and deep-sequencing data journal October 2010
Deep sequencing of virus-infected cells reveals HIV-encoded small RNAs journal September 2011
Respiratory syncytial virus modifies microRNAs regulating host genes that affect virus replication journal November 2012
Host microRNA molecular signatures associated with human H1N1 and H3N2 influenza A viruses reveal an unanticipated antiviral activity for miR-146a journal May 2013
The influenza A virus NS1 protein binds small interfering RNAs and suppresses RNA silencing in plants journal April 2004
Dicer functions in RNA interference and in synthesis of small RNA involved in developmental timing in C. elegans journal October 2001
Most mammalian mRNAs are conserved targets of microRNAs journal October 2008
Inhibition of Cell Growth and Shoot Development by a Specific Nucleotide Sequence in a Noncoding Viroid RNA journal May 2003
A Csr-type regulatory system, including small non-coding RNAs, regulates the global virulence regulator RovA of Yersinia pseudotuberculosis through RovM journal June 2008
Identification of two small regulatory RNAs linked to virulence in Brucella abortus 2308: Brucella small RNAs are required for virulence journal June 2012
A Cellular Function for the RNA-Interference Enzyme Dicer in the Maturation of the let-7 Small Temporal RNA journal July 2001
Identification of Virus-Encoded MicroRNAs journal April 2004
A Cellular MicroRNA Mediates Antiviral Defense in Human Cells journal April 2005
A Plant miRNA Contributes to Antibacterial Resistance by Repressing Auxin Signaling journal April 2006
Requirement of bic/microRNA-155 for Normal Immune Function journal April 2007
Enhanced Susceptibility to Citrobacter rodentium Infection in MicroRNA-155-Deficient Mice journal December 2012
Hfq, a Novel Pleiotropic Regulator of Virulence-Associated Genes in Francisella tularensis journal February 2009
The Second RNA Chaperone, Hfq2, Is Also Required for Survival under Stress and Full Virulence of Burkholderia cenocepacia J2315 journal January 2011
Global Small RNA Chaperone Hfq and Regulatory Small RNAs Are Important Virulence Regulators in Erwinia amylovora journal February 2013
The RNA-Binding Protein Hfq of Listeria monocytogenes: Role in Stress Tolerance and Virulence journal June 2004
Vaccination of Pigs against Swine Influenza Viruses by Using an NS1-Truncated Modified Live-Virus Vaccine journal November 2006
MicroRNA Expression and Virulence in Pandemic Influenza Virus-Infected Mice journal January 2010
A Structured Viroid RNA Serves as a Substrate for Dicer-Like Cleavage To Produce Biologically Active Small RNAs but Is Resistant to RNA-Induced Silencing Complex-Mediated Degradation journal January 2007
Suppression of RNA Interference by Adenovirus Virus-Associated RNA journal August 2005
The Biology of Viroid-Host Interactions journal September 2009
The Yersinia pestis gcvB gene encodes two small regulatory RNA molecules journal June 2006
HIV-1 Tat interaction with Dicer: requirement for RNA journal December 2006
A status report on RNAi therapeutics journal January 2010
Helicobacter pylori interferes with an embryonic stem cell micro RNA cluster to block cell cycle progression journal January 2011
The roles of binding site arrangement and combinatorial targeting in microRNA repression of gene expression journal January 2007
Tethering of human Ago proteins to mRNA mimics the miRNA-mediated repression of protein synthesis journal October 2004
Human microRNAs are processed from capped, polyadenylated transcripts that can also function as mRNAs journal December 2004
Involvement of the Post-Transcriptional Regulator Hfq in Yersinia pestis Virulence journal July 2009
Comparative miRNA Expression Profiles in Individuals with Latent and Active Tuberculosis journal October 2011
Serum MicroRNA Signatures Identified by Solexa Sequencing Predict Sepsis Patients’ Mortality: A Prospective Observational Study journal June 2012
Identification of a Novel Small RNA Modulating Francisella tularensis Pathogenicity journal July 2012
The Ebola Virus VP35 Protein Is a Suppressor of RNA Silencing journal June 2007
Six RNA Viruses and Forty-One Hosts: Viral Small RNAs and Modulation of Small RNA Repertoires in Vertebrate and Invertebrate Systems journal February 2010
Viral Small Interfering RNAs Target Host Genes to Mediate Disease Symptoms in Plants journal May 2011
Control of Virulence by Small RNAs in Streptococcus pneumoniae journal July 2012
miRBase: tools for microRNA genomics. text January 2008
Identification by cDNA cloning of abundant sRNAs in a human-avirulent Yersinia pestis strain grown under five different growth conditions journal April 2012
MicroRNA-155 Is Essential for the T Cell-Mediated Control of Helicobacter pylori Infection and for the Induction of Chronic Gastritis and Colitis journal August 2011
miR-451 Regulates Dendritic Cell Cytokine Responses to Influenza Infection journal November 2012
Micro-RNA 155 Is Required for Optimal CD8 + T Cell Responses to Acute Viral and Intracellular Bacterial Challenges journal December 2012
Computational Small RNA Prediction in Bacteria journal January 2013
Detection of avocado sunblotch viroid variants using fluorescent single-strand conformation polymorphism analysis journal February 2001
Prediction of Mammalian MicroRNA Targets journal December 2003
MicroRNAs journal January 2004
Hfq journal January 2002
Counting Small RNA in Pathogenic Bacteria journal January 2014
E2F1-Regulated MicroRNAs Impair TGFβ-Dependent Cell-Cycle Arrest and Apoptosis in Gastric Cancer journal March 2008
Identification of bacterial small non-coding RNAs: experimental approaches journal June 2007
Cellular MicroRNA and P Bodies Modulate Host-HIV-1 Interactions journal June 2009
Analysis of the host microRNA response to Salmonella uncovers the control of major cytokines by the let-7 family: MicroRNA and bacterial infection journal April 2011
The nuclear RNase III Drosha initiates microRNA processing journal September 2003
The role of site accessibility in microRNA target recognition journal September 2007
Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions journal August 2006
The Brucella abortus host factor I (HF-I) protein contributes to stress resistance during stationary phase and is a major determinant of virulence in mice journal November 1999
From The Cover: Fast and reliable prediction of noncoding RNAs journal January 2005
NF- B-dependent induction of microRNA miR-146, an inhibitor targeted to signaling proteins of innate immune responses journal August 2006
MicroRNA-155 modulates the interleukin-1 signaling pathway in activated human monocyte-derived dendritic cells journal February 2009
Influenza A virus-generated small RNAs regulate the switch from transcription to replication journal June 2010
Two small RNAs encoded by Epstein-Barr virus can functionally substitute for the virus-associated RNAs in the lytic growth of adenovirus 5. journal August 1983
A Cellular Micro-RNA, let-7i, Regulates Toll-like Receptor 4 Expression and Contributes to Cholangiocyte Immune Responses against Cryptosporidium parvum Infection journal September 2007
Induction of microRNA‐155 during Helicobacter pylori Infection and Its Negative Regulatory Role in the Inflammatory Response journal September 2009
MicroRNA maturation: stepwise processing and subcellular localization journal September 2002
miRBase: microRNA sequences, targets and gene nomenclature journal January 2006
miRBase: tools for microRNA genomics journal December 2007
Dispatched Homolog 2 is targeted by miR-214 through a combination of three weak microRNA recognition sites journal June 2008
Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions journal November 2011
Differential activation and functional specialization of miR-146 and miR-155 in innate immune sensing journal November 2012
Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs journal December 2003
Regulation of the Germinal Center Response by MicroRNA-155 journal April 2007
Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells journal July 2010
Enhanced Susceptibility to Citrobacter rodentium Infection in MicroRNA-155-Deficient Mice journal December 2012
Hfq, a Novel Pleiotropic Regulator of Virulence-Associated Genes in Francisella tularensis journal February 2009
The Second RNA Chaperone, Hfq2, Is Also Required for Survival under Stress and Full Virulence of Burkholderia cenocepacia J2315 journal January 2011
Global Small RNA Chaperone Hfq and Regulatory Small RNAs Are Important Virulence Regulators in Erwinia amylovora journal February 2013
The RNA-Binding Protein Hfq of Listeria monocytogenes: Role in Stress Tolerance and Virulence journal June 2004
Vaccination of Pigs against Swine Influenza Viruses by Using an NS1-Truncated Modified Live-Virus Vaccine journal November 2006
Kaposi's Sarcoma-Associated Herpesvirus Encodes an Ortholog of miR-155 journal September 2007
MicroRNA Expression and Virulence in Pandemic Influenza Virus-Infected Mice journal January 2010
A Structured Viroid RNA Serves as a Substrate for Dicer-Like Cleavage To Produce Biologically Active Small RNAs but Is Resistant to RNA-Induced Silencing Complex-Mediated Degradation journal January 2007
Suppression of RNA Interference by Adenovirus Virus-Associated RNA journal August 2005
A status report on RNAi therapeutics journal January 2010
Helicobacter pylori interferes with an embryonic stem cell micro RNA cluster to block cell cycle progression journal January 2011
sRNATarBase: A comprehensive database of bacterial sRNA targets verified by experiments journal September 2010
Deep Sequencing Analysis of Small Noncoding RNA and mRNA Targets of the Global Post-Transcriptional Regulator, Hfq journal August 2008
MiR-155 Induction by F. novicida but Not the Virulent F. tularensis Results in SHIP Down-Regulation and Enhanced Pro-Inflammatory Cytokine Response journal December 2009
Helicobacter pylori Induces miR-155 in T Cells in a cAMP-Foxp3-Dependent Manner journal March 2010
sTarPicker: A Method for Efficient Prediction of Bacterial sRNA Targets Based on a Two-Step Model for Hybridization journal July 2011
Listeria monocytogenes Infection in Macrophages Induces Vacuolar-Dependent Host miRNA Response journal November 2011
A Viral Satellite RNA Induces Yellow Symptoms on Tobacco by Targeting a Gene Involved in Chlorophyll Biosynthesis using the RNA Silencing Machinery journal May 2011
miRBase: microRNA sequences, targets and gene nomenclature. text January 2006
Innate Immune recognition of viral infection journal January 2006
microRNA Response to Listeria monocytogenes Infection in Epithelial Cells journal January 2012
Cutting Edge: The Foxp3 Target miR-155 Contributes to the Development of Regulatory T Cells journal February 2009
Modulation of miR-155 and miR-125b Levels following Lipopolysaccharide/TNF-α Stimulation and Their Possible Roles in Regulating the Response to Endotoxin Shock journal October 2007
Computational Small RNA Prediction in Bacteria journal January 2013
Identification and characterization of small RNAs in Yersinia pestis journal March 2013
MicroRNA-155 is essential for the T cell-mediated control of Helicobacter pylori infection and for the induction of chronic gastritis and colitis text January 2011
microRNAs as Therapeutic Targets to Combat Diverse Human Diseases book December 2011

Cited By (19)

PresRAT: a server for identification of bacterial small-RNA sequences and their targets with probable binding region journal October 2020
Transcriptomic analysis of staphylococcal sRNAs: insights into species-specific adaption and the evolution of pathogenesis journal July 2016
A Small Regulatory RNA Controls Cell Wall Biosynthesis and Antibiotic Resistance journal December 2018
Transcriptomic Profiling of Yersinia pseudotuberculosis Reveals Reprogramming of the Crp Regulon by Temperature and Uncovers Crp as a Master Regulator of Small RNAs journal March 2015
Regulation of Hfq mRNA and Protein Levels in Escherichia coli and Pseudomonas aeruginosa by the Burkholderia cenocepacia MtvR sRNA journal June 2014
Non-coding RNA regulation in pathogenic bacteria located inside eukaryotic cells journal November 2014
Genome-Wide Identification of Destruxin A-Responsive Immunity-Related MicroRNAs in Diamondback Moth, Plutella xylostella journal February 2018
Trans-generational Immune Priming in Invertebrates: Current Knowledge and Future Prospects journal August 2019
Two separate modules of the conserved regulatory RNA AbcR1 address multiple target mRNAs in and outside of the translation initiation region journal May 2014
Biodefense journal November 2013
Viral immune surveillance: Toward a TH17/TH9 gate to the central nervous system journal January 2015
A comparative study of sequence- and structure-based features of small RNAs and other RNAs of bacteria journal November 2017
sRNAtoolbox: an integrated collection of small RNA research tools journal May 2015
BTB-BACK Domain E3 Ligase MdPOB1 Suppresses Plant Pathogen Defense against Botryosphaeria dothidea by Ubiquitinating and Degrading MdPUB29 Protein in Apple journal May 2019
Innate immune memory: An evolutionary perspective journal April 2018
Regulation of Bacterial Virulence by Csr (Rsm) Systems journal June 2015
MicroRNAs of Toxocara canis and their predicted functional roles journal April 2016
Single-cell correlations of mRNA and protein content in a human monocytic cell line after LPS stimulation journal April 2019
Application of Transcriptomics to Enhance Early Diagnostics of Mycobacterial Infections, with an Emphasis on Mycobacterium avium ssp. paratuberculosis journal June 2019

Similar Records

Differential expression of small RNAs from Burkholderia thailandensis in response to varying environmental and stress conditions
Journal Article · Sun May 18 20:00:00 EDT 2014 · BMC Genomics · OSTI ID:1626434

Steps toward broad-spectrum therapeutics: discovering virulence-associated genes present in diverse human pathogens
Journal Article · Wed Oct 28 20:00:00 EDT 2009 · BMC Genomics · OSTI ID:1626404

Structural model of an mRNA in complex with the bacterial chaperone Hfq
Journal Article · Sun Nov 16 19:00:00 EST 2014 · Proceedings of the National Academy of Sciences of the United States of America · OSTI ID:1168867