Review
Genetics & Heredity
Bruce A. Stanton
Summary: This brief review highlights the key role of noncoding regulatory RNAs in extracellular vesicles in facilitating inter-kingdom communication between bacteria and mammalian host cells. These RNAs modulate immune responses and bacterial interactions, demonstrating a novel mechanism of bidirectional communication. Further research is needed to fully understand the impact of noncoding regulatory RNAs and microRNAs in extracellular vesicles on inter-kingdom communication.
Article
Multidisciplinary Sciences
Ori Heyman, Dror Yehezkel, Camilla Ciolli Mattioli, Neta Blumberger, Gili Rosenberg, Aryeh Solomon, Dotan Hoffman, Noa Bossel Ben-Moshe, Roi Avraham
Summary: Encounters between host cells and intracellular bacterial pathogens lead to complex phenotypes that determine the outcome of infection. Single-cell RNA sequencing (scRNA-seq) has limited capacity to analyze the role of bacterial factors. The scPAIR-seq method developed in this study enables functional analysis of mutant-dependent changes in host transcriptomes, providing insights into bacterial virulence strategies and their interplay with host defense strategies.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Biochemistry & Molecular Biology
Meysam Sarshar, Daniela Scribano, Anna Teresa Palamara, Cecilia Ambrosi, Andrea Masotti
Summary: Research on bacterial small RNAs (sRNAs) has been accelerated due to advances in RNA-seq technologies. These regulatory sRNAs play important roles in controlling physiological processes and surviving antimicrobial challenges. Secreted RNAs from bacterial pathogens have gained attention, especially in the context of infection. This review discusses how secreted sRNAs interact with targets in infected cells, providing a novel perspective on host cell manipulation during bacterial infection. Recent findings on sRNA regulation in A. baumannii are also summarized, highlighting the role of sRNAs in its adaptation and pathogenicity.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Review
Microbiology
Zhongyou Li, Bruce A. Stanton
Summary: Microbes regulate host gene expression and immune response by releasing tRNA fragments, promoting chronic infection. Further research is needed to understand the specific roles and mechanisms of microbial tRNA fragments in host infection response.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Plant Sciences
Annelies Haegeman, Yoika Foucart, Kris De Jonghe, Thomas Goedefroit, Maher Al Rwahnih, Neil Boonham, Thierry Candresse, Yahya Z. A. Gaafar, Oscar P. Hurtado-Gonzales, Zala Kogej Zwitter, Denis Kutnjak, Janja Lamovsek, Marie Lefebvre, Martha Malapi, Irena Mavric Plesko, Serkan Onder, Jean-Sebastien Reynard, Ferran Salavert Pamblanco, Olivier Schumpp, Kristian Stevens, Chandan Pal, Lucie Tamisier, Cigdem Ulubas Serce, Inge van Duivenbode, David W. Waite, Xiaojun Hu, Heiko Ziebell, Sebastien Massart
Summary: High-throughput sequencing of plant tissues is a crucial tool for plant virologists to detect plant viruses. However, during the analysis of the data, researchers often neglect sequences without homologies to viruses, which may contain traces of other pathogens. In this study, we re-analyzed RNA-seq datasets and found non-viral plant pathogens, including fungi, insects, and mites. This highlights the potential of using total RNA-seq data for detecting various plant pathogens.
Review
Microbiology
Ayesha Ayesha, Franklin Wang-Ngai Chow, Polly Hang-Mei Leung
Summary: Legionella pneumophila, an intracellular pathogen, utilizes OMVs to communicate with and modulate host immune response, playing a crucial role in disease pathogenesis. Understanding the functions of OMVs provides valuable insights for combating Legionnaires' disease.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
David W. McKellar, Iwijn De Vlaminck
Summary: Spatial total RNA-sequencing (STRS) combines in situ polyadenylation with existing spatial transcriptomics technologies, providing a comprehensive view of the transcriptome in tissues. This technique was used to spatially map coding, noncoding and nonhost RNAs in skeletal muscle regeneration and viral myocarditis models.
NATURE BIOTECHNOLOGY
(2023)
Article
Genetics & Heredity
Ruirui Zhu, Xue Feng, Yutong Wei, Duo Guo, Jiaojiao Li, Qingyou Liu, Jianrong Jiang, Deshun Shi, Jieping Huang
Summary: This study identified lncRNA profiles in buffalo adipose and muscle tissues, highlighting a DE lncRNA, lncSAMM50, that enhances fat deposition by promoting adipogenic differentiation without affecting its host gene SAMM50. This suggests that lncSAMM50 plays a significant role in regulating fat deposition in buffalo.
FRONTIERS IN GENETICS
(2021)
Article
Microbiology
Daniel Scheller, Christian Twittenhoff, Franziska Becker, Marcel Holler, Franz Narberhaus
Summary: The study found evidence for a temperature-modulated RNA structure in the 5'-untranslated region of the OmpA transcript, supporting the hypothesis that melting of the RNA structure relieves translational repression. This allows for increased translation of the transcript at higher temperatures, with biochemical experiments showing that melting of the RNA structure permits ribosome binding to the 5'-UTR.
FRONTIERS IN MICROBIOLOGY
(2021)
Review
Immunology
Lina Tingo, Emelie Ahlberg, Lovisa Johansson, Sindre Andre Pedersen, Konika Chawla, Pal Saetrom, Erika Cione, Melanie Rae Simpson
Summary: Breast milk contains a variety of RNA types, including miRNAs, with some miRNAs being widely reported across different fractions. It is currently challenging to determine which factors influence the characteristics of the miRNA profile, but studies suggest that certain miRNAs are highly expressed and stable in breast milk. Future research needs to further explore the biological effects of miRNAs in breast milk and characterize other ncRNAs.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Parasitology
Xiaoxiang Hu, Xiaolei Liu, Chen Li, Yulu Zhang, Chengyao Li, Yanfeng Li, Yingxi Chen, Heng Guo, Xue Bai, Mingyuan Liu
Summary: The gene expression patterns in response to Trichinella infection in murine myocytes were most pronounced during early infection, with a sharp increase in differentially expressed genes at 10 days post-infection. However, the initial reaction steadied in later stages of infection. This dataset provides valuable insight into how pathogens evade host defenses and survive in the mammalian environment.
PARASITES & VECTORS
(2021)
Review
Dentistry, Oral Surgery & Medicine
P. D. Veith, M. D. Glew, D. G. Gorasia, E. Cascales, E. C. Reynolds
Summary: Bacteria in severe periodontitis utilize the T9SS system to release virulence factors that dysregulate the host immune response, leading to chronic inflammatory destruction of tooth supporting tissues. The molecular structure and secretion mechanism of T9SS are crucial for understanding this process.
JOURNAL OF DENTAL RESEARCH
(2022)
Review
Biochemistry & Molecular Biology
Sayedeh Azimeh Hosseini, Alizamen Salehifard Jouneghani, Mahdi Ghatrehsamani, Hajar Yaghoobi, Fatemeh Elahian, Seyed Abbas Mirzaei
Summary: Gastrointestinal cancer (GI) is a global health threat, and understanding its molecular pathogenesis is crucial. High-throughput technologies like CRISPR/Cas9 play a vital role in cancer diagnosis and treatment. This review discusses the various applications of CRISPR/Cas9 in genome editing, and its potential in gastrointestinal cancer modeling and therapy.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Article
Biochemistry & Molecular Biology
Audrey Jacq, Denis Becquet, Maria-Montserrat Bello-Goutierrez, Benedicte Boyer, Severine Guillen, Jean-Louis Franc, Anne-Marie Francois-Bellan
Summary: The long non-coding RNA Neat1 plays a crucial role in paraspeckle formation and may also be involved in regulating circadian rhythms. Deletion of the Neat1 gene affects the expression of a large number of RNAs, including those related to circadian rhythms and key biological processes.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2021)
Article
Biophysics
Ting Zhang, Wenhu Zhou, Xiaoya Lin, Mohammad Rizwan Khan, Sha Deng, Mi Zhou, Guiping He, Chengyong Wu, Ruijie Deng, Qiang He
Summary: This study developed a new detection system that can accurately distinguish viable pathogenic bacteria without the need for reverse transcription, nucleic acid amplification, or labeled substrates. By utilizing CRISPR-Cas13a and a light-up RNA aptamer, it enables rapid detection and precise quantification of viable pathogens.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Biochemical Research Methods
Abderrahim Benmoussa, Clarisse Gotti, Sylvie Bourassa, Caroline Gilbert, Patrick Provost
JOURNAL OF PROTEOMICS
(2019)
Review
Food Science & Technology
Abderrahim Benmoussa, Patrick Provost
COMPREHENSIVE REVIEWS IN FOOD SCIENCE AND FOOD SAFETY
(2019)
Article
Agriculture, Dairy & Animal Science
Abderrahim Benmoussa, Jonathan Laugier, Charles Joly Beauparlant, Marine Lambert, Arnaud Droit, Patrick Provost
JOURNAL OF DAIRY SCIENCE
(2020)
Article
Biochemistry & Molecular Biology
Idrissa Diallo, Jeffrey Ho, Benoit Laffont, Jonathan Laugier, Abderrahim Benmoussa, Marine Lambert, Zeinab Husseini, Geoff Soule, Robert Kozak, Gary P. Kobinger, Patrick Provost
Summary: This study compared the miRNA transcriptome of human liver cells infected with different EBOV strains, revealing specific miRNA-based immunity pathways and substantial differences between strains. These findings shed new light on the molecular signature of liver cells upon EBOV infection and provide insights into miRNA-based virus attack and host defense strategy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Mohamed Karim Maghraby, Bo Li, Lijun Chi, Catriona Ling, Abderrahim Benmoussa, Patrick Provost, Andrea C. Postmus, Abdirahman Abdi, Agostino Pierro, Celine Bourdon, Robert H. J. Bandsma
Summary: The study revealed that EVs enriched from milk have the potential to improve intestinal barrier dysfunction caused by malnutrition and enhance cellular proliferation and intestinal structure restoration.
SCIENTIFIC REPORTS
(2021)
Article
Microbiology
Myriam Vaillancourt, Audrey Hubert, Caroline Subra, Julien Boucher, Wilfried Wenceslas Bazie, Julien Vitry, Sofiane Berrazouane, Jean-Pierre Routy, Sylvie Trottier, Cecile Tremblay, Mohammad-Ali Jenabian, Abderrahim Benmoussa, Patrick Provost, Philippe A. Tessier, Caroline Gilbert
Summary: This study compares different density and velocity gradients, along with commercial kits, for separating EVs from HIV particles and contaminating protein, to evaluate the suitability of current plasma EV analysis techniques in identifying new biomarkers of HIV-1 immune activation. The findings reveal the optimal separation of EVs from viruses and free proteins using iodixanol velocity gradient, and the identification of a new population of large EVs enriched in miR-155 and mitochondrial DNA, paving the way for a deeper understanding of HIV-1 pathogenesis.
Article
Biochemistry & Molecular Biology
Marine Lambert, Abderrahim Benmoussa, Idrissa Diallo, Katheryn Ouellet-Boutin, Veronique Dorval, Nathalie Majeau, Charles Joly-Beauparlant, Arnaud Droit, Alain Bergeron, Bernard Tetu, Yves Fradet, Frederic Pouliot, Patrick Provost
Summary: A new family of unusually short RNAs, called doRNAs, has been discovered and found to potentially be more abundant and important than microRNAs. These doRNAs interact with hnRNPs in the cytoplasm and have differential expression in prostate cancer cells, possibly regulating cell migration.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Idrissa Diallo, Zeinab Husseini, Sara Guellal, Elodie Vion, Jeffrey Ho, Robert A. Kozak, Gary P. Kobinger, Patrick Provost
Summary: This study characterized the miRNA transcriptome of human liver cells infected with different variants of Ebola virus and identified two viral miRNAs, miR-MAY-251 and miR-MAK-403. These miRNAs have potential regulatory effects on host genes involved in the hemorrhagic phenotype, regulation of viral replication, and modulation of host immune defense.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Cardiac & Cardiovascular Systems
Idrissa Diallo, Abderrahim Benmoussa, Jonathan Laugier, Abdimajid Osman, Walter E. Hitzler, Patrick Provost
FRONTIERS IN CARDIOVASCULAR MEDICINE
(2020)
Review
Biochemistry & Molecular Biology
Marine Lambert, Abderrahim Benmoussa, Patrick Provost
Article
Biology
Abderrahim Benmoussa, Sara Michel, Caroline Gilbert, Patrick Provost