Article
Chemistry, Analytical
Mengyun Zhou, Chuan Fan, Lirong Wang, Tailin Xu, Xueji Zhang
Summary: This study reports an integrated microdroplet array platform composed of an ultrasonic unit and minipillar array for enhanced RPA detection of SARS-CoV-2. The independent microvolume reactions and microstreaming driven by ultrasound greatly accelerate the amplification and increase the sensitivity, while reducing reagent consumption.
ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Analytical
Ian T. Hull, Enos C. Kline, Gaurav K. Gulati, Jack Henry Kotnik, Nuttada Panpradist, Kamal G. Shah, Qin Wang, Lisa Frenkel, James Lai, Joanne Stekler, Barry R. Lutz
Summary: The study presents a novel quantitative detection method for HIV DNA or RNA using a combination of recombinase polymerase amplification and lateral flow detection technologies, allowing for rapid and accurate testing in low-resource healthcare settings, with the potential to improve the quality of HIV treatment.
ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Analytical
Fangchi Shao, Joon Soo Park, Guojie Zhao, Kuangwen Hsieh, Tza-Huei Wang
Summary: Developing assays that combine CRISPR/Cas and isothermal nucleic acid amplification is a growing research area, with potential for point-of-care applications. Current research mainly focuses on appending different CRISPR/Cas effectors to isothermal nucleic acid amplification methods, but few studies have integrated both components into single-step assays. We conducted a systematic investigation and found that adding CRISPR/Cas12a enhances signal amplification but hinders recombinase polymerase amplification (RPA). We developed a PAM-free CRISPR/Cas12a-assisted RPA assay that outperforms other assays in design, signal, sensitivity, and speed. Our study provides new insights and can facilitate further advances in CRISPR/Cas-based assays.
ANALYTICAL CHEMISTRY
(2023)
Article
Medicine, General & Internal
Md Anik Ashfaq Khan, Khaledul Faisal, Rajashree Chowdhury, Prakash Ghosh, Faria Hossain, Manfred Weidmann, Dinesh Mondal, Ahmed Abd El Wahed
Summary: This study developed a quantification method to assess the absolute quantification ability of isothermal recombinase polymerase amplification (RPA) assay for parasite genomes. The findings suggest the potential of Q-RPA assay in monitoring parasite load and developing rapid assays for other infectious diseases.
Review
Chemistry, Analytical
Jocelyn Reynolds, Reid S. Loeffler, Preston J. Leigh, Hannah A. Lopez, Jeong-Yeol Yoon
Summary: Isothermal nucleic acid amplification tests, which only require a constant temperature and simplify the amplification process, have gained popularity over PCR. Paper microfluidics have been extensively used for automated nucleic acid extraction, amplification, and detection in these isothermal amplification tests.
Review
Biotechnology & Applied Microbiology
Xiaolei Mao, Minghui Xu, Shuyin Luo, Yi Yang, Jiaye Zhong, Jiawei Zhou, Huayan Fan, Xiaoping Li, Zhi Chen
Summary: In the field of pathogen detection, isothermal amplification technology is an important alternative to traditional PCR due to its speed, accuracy, and sensitivity. This paper explores the principles and current status of recombinase polymerase amplification (RPA) and recombinase-aid amplification (RAA), as well as the integration of the CRISPR-Cas system with these techniques. Furthermore, the paper reviews the combination of isothermal amplification and CRISPR-Cas technology and its practical applications in pathogen detection, highlighting the significant advancements it brings to research and clinical implementation.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Radhika Biyani, Kirti Sharma, Kenji Kojima, Madhu Biyani, Vishnu Sharma, Tarun Kumawat, Kevin Maafu Juma, Itaru Yanagihara, Shinsuke Fujiwara, Eiichi Kodama, Yuzuru Takamura, Masahiro Takagi, Kiyoshi Yasukawa, Manish Biyani
Summary: This new isothermal nucleic acid amplification assay, called RICCA, allows for rapid and direct detection of viruses with low viral loads. It has shown high sensitivity in detecting RNA viruses directly from saliva samples and synthetic templates of SARS-CoV-2. The assay can be used in real-time point-of-care testing and has a total assay time of 15-30 minutes for detecting heat-inactivated SARS-CoV-2 virus in human saliva.
SCIENTIFIC REPORTS
(2021)
Article
Medicine, Legal
Seiji Kubo, Keito Amai, Jin Tanaka, Hideki Niimi
Summary: This study reports a one-tube, two-step isothermal amplification assay for rapid and sensitive screening of saliva samples. The assay can be performed in a closed tube and the products are detected using real-time fluorescence analysis. The strategy shows promise for screening saliva from forensic samples.
FORENSIC SCIENCE INTERNATIONAL
(2023)
Article
Chemistry, Multidisciplinary
Gaihua Cao, Jiangbo Dong, Xiaolong Chen, Peng Lu, Yifan Xiong, Lan Peng, Jiawei Li, Danqun Huo, Changjun Hou
Summary: In this study, a strategy (MPT-Cas12a/13a) was developed that combines CRISPR/Cas12a and Cas13a for simultaneous detection of CaMV35S and T-nos. This strategy utilizes multiplex PCR and transcription to achieve simultaneous detection with different signals in the same space. The MPT-Cas12a/13a showed excellent sensitivity, with detection limits as low as 11 copies of T-nos and 13 copies of CaMV35S, and demonstrated outstanding specificity and anti-interference ability in actual sample analysis. Therefore, it has the potential to be used for the detection of GM crops.
CHEMICAL COMMUNICATIONS
(2022)
Article
Biophysics
Ting Zheng, Xianming Li, Yanjun Si, Minjin Wang, Yuzhen Zhou, Yusheng Yang, Na Liang, Binwu Ying, Peng Wu
Summary: In this study, an accurate point-of-care testing (POCT) platform was proposed by specific recognition of target amplicons with peptide nucleic acid (PNA, assisted by T7 Exonuclease), which efficiently eliminated false positives and showed high sensitivity and specificity for detecting SARS-CoV-2.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Immunology
Yufang Guo, Hongming Xia, Tingting Dai, Tingli Liu
Summary: A detection assay using recombinase polymerase amplification (RPA) combined with CRISPR/Cas12a system was developed for Phytophthora sojae. The method was highly specific and sensitive, and showed potential for monitoring soybean root rot in the field.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2023)
Review
Microbiology
Cassandra Suther, Sloane Stoufer, Yanjiao Zhou, Matthew D. Moore
Summary: Foodborne and enteric viruses impose a significant burden on public health and economy globally. Real time PCR, although considered a gold standard, has limitations in terms of portability, sample processing, and time to result. Isothermal amplification methods have shown promise as portable, sensitive, and rapid alternatives to PCR for detecting these viruses.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Adrian Butterworth, Pratibha Pratibha, Andreas Marx, Damion K. Corrigan
Summary: This study demonstrates the development of a nucleic acid-based assay for antibiotic resistance genes through a modified RPA reaction and electrochemical measurement. Results show that important gene sequences can be detected by incorporating labeled nucleotides into amplified DNA strands using reagents from a standard RPA reaction kit.
Article
Immunology
Bo Zhu, Juan Hu, Xuelian Li, Xiaomin Li, Lei Wang, Shihui Fan, Xin Jin, Kun Wang, Weiguo Zhao, Wenjun Zhu, Cheng Chen, Zilu Wang, Yingzhi Lu
Summary: Enterococcus faecalis is a serious issue in hospitals, necessitating the development of rapid and accurate detection methods. In this study, a visualized isothermal amplification method using RPA-LFS was developed for E. faecalis detection, showing fast, accurate, specific, and compatible results.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Biophysics
Hyo Eun Kim, Ariadna Schuck, See Hi Lee, Yunjong Lee, Minhee Kang, Yong-Sang Kim
Summary: The study presents an electrochemical biosensor combined with RPA for rapid and sensitive detection of SARS-CoV-2. It allows the detection of multiple target genes, has low limits of detection, short sample-to-answer times, and can potentially serve as a point-of-care test for COVID-19 diagnosis.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Biochemical Research Methods
Andree F. Maheux, Stephanie Brodeur, Eve Berube, Dominique K. Boudreau, Jehane Y. Abed, Maurice Boissinot, Luc Bissonnette, Michel G. Bergeron
JOURNAL OF MICROBIOLOGICAL METHODS
(2018)
Article
Microbiology
Frederic Raymond, Maurice Boissinot, Amin Ahmed Ouameur, Maxime Deraspe, Pier-Luc Plante, Sewagnouin Rogia Kpanou, Eve Berube, Ann Huletsky, Paul H. Roy, Marc Ouellette, Michel G. Bergeron, Jacques Corbeil
Article
Biochemical Research Methods
Florence Roux-Dalvai, Clarisse Gotti, Mickael Leclercq, Marie-Claude Helie, Maurice Boissinot, Tabiwang N. Arrey, Claire Dauly, Frederic Fournier, Isabelle Kelly, Judith Marcoux, Julie Bestman-Smith, Michel G. Bergeron, Arnaud Droit
MOLECULAR & CELLULAR PROTEOMICS
(2019)
Article
Veterinary Sciences
Cheyenne C. Conrad, Rana K. Daher, Kim Stanford, Kingsley K. Amoako, Maurice Boissinot, Michel G. Bergeron, Trevor Alexander, Shaun Cook, Brenda Ralston, Rahat Zaheer, Yan D. Niu, Tim McAllister
FRONTIERS IN VETERINARY SCIENCE
(2020)
Article
Microbiology
Andree F. Maheux, Dominique K. Boudreau, Jehane Y. Abed, Eve Berube, Stephanie Brodeur, Kathryn A. Bernard, Ameena Hashimi, Eloise Ducrey, Emilie F. Guay, Frederic Raymond, Jacques Corbeil, Marc-Christian Domingo, Paul H. Roy, Maurice Boissinot, Elitza Tocheva, Rabeea F. Omar
Summary: A rod-shaped, motile anaerobic bacterium, designated CCRI-22567(T), was isolated from a vaginal sample of a woman diagnosed with bacterial vaginosis. Based on phylogenetic analysis, chemotaxonomy, and other phenotypic properties, strain CCRI-22567(T) represents a new genus and species within the family Peptostreptococcaceae, named Criibacterium bergeronii gen. nov., sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Infectious Diseases
Jehane Y. Abed, Maxime Deraspe, Eve Berube, Matthew D'Iorio, Ken Dewar, Maurice Boissinot, Jacques Corbeil, Michel G. Bergeron, Paul H. Roy
Summary: Carbapenemase-producing Enterobacterales, including KPC-2 producers, have become a major clinical problem. During an outbreak in Quebec City, Canada, KPC-2-producing Klebsiella michiganensis and Citrobacter farmeri were isolated from a patient six weeks apart. Both isolates carried nearly identical IncN2 plasmids with blaKPC-2 on a Tn4401b element. This suggests recent plasmid transfer between the two species and a recent transposition event.
Article
Infectious Diseases
Paul B. L. George, Florent Rossi, Magali-Wen St-Germain, Pierre Amato, Thierry Badard, Michel G. Bergeron, Maurice Boissinot, Steve J. Charette, Brenda L. Coleman, Jacques Corbeil, Alexander Culley, Marie-Lou Gaucher, Matthieu Girard, Stephane Godbout, Shelley P. Kirychuk, Andre Marette, Allison McGeer, Patrick T. O'Shaughnessy, E. Jane Parmley, Serge Simard, Richard J. Reid-Smith, Edward Topp, Luc Trudel, Maosheng Yao, Patrick Brassard, Anne-Marie Delort, Araceli D. Larios, Valerie Letourneau, Valerie E. Paquet, Marie-Helene Pedneau, Emilie Pic, Brooke Thompson, Marc Veillette, Mary Thaler, Ilaria Scapino, Maria Lebeuf, Mahsa Baghdadi, Alejandra Castillo Toro, Amelia Belanger Cayouette, Marie-Julie Dubois, Alicia F. Durocher, Sarah B. Girard, Andrea Katherin Carranza Diaz, Asmaa Khalloufi, Samantha Leclerc, Joanie Lemieux, Manuel Perez Maldonado, Genevieve Pilon, Colleen P. Murphy, Charly A. Notling, Daniel Ofori-Darko, Juliette Provencher, Annabelle Richer-Fortin, Nathalie Turgeon, Caroline Duchaine
Summary: Antimicrobial resistance (AMR) is a growing global problem that affects public health, agriculture, and the environment. The mechanism of aerial transport of antimicrobial-resistant bacteria via bioaerosols is not well understood. This ongoing project in Canada aims to assess the presence and fate of AMR in bioaerosols, including the emissions of antibiotic resistance genes, their long-distance transport, and dissemination models. A multidisciplinary approach is necessary to understand the role of bioaerosols in the spread of AMR.
Article
Biology
Jehane Y. Abed, Thibaud Godon, Fadwa Mehdaoui, Pier-Luc Plante, Maurice Boissinot, Michel G. Bergeron, Richard E. Belanger, Gina Muckle, Natalia Poliakova, Pierre Ayotte, Jacques Corbeil, Elsa Rousseau
Summary: This study used comparative metagenomics to investigate the unique gut microbiome of Nunavik Inuit, revealing a higher diversity and distinctive taxonomic and functional characteristics compared to other populations. The findings indicate a potentially important role of gut microbiome in the health of Nunavik Inuit.
COMMUNICATIONS BIOLOGY
(2022)
Article
Health Care Sciences & Services
Mentor Ali Ber Lucien, Martin S. Forde, Marc R. Isabel, Maurice Boissinot, Sandra Isabel
Summary: This study evaluates the SARS-CoV-2 genomic sequencing capacity in the Caribbean region and highlights the need for improving regional genomics surveillance capabilities, which are crucial for effective health interventions against infectious diseases.
LANCET REGIONAL HEALTH-AMERICAS
(2023)
Article
Chemistry, Analytical
Karel Boissinot, Regis Peytavi, Sebastien Chapdelaine, Matthias Geissler, Maurice Boissinot, Eric A. Martel, David Beliveau-Viel, Jean-Francois Gravel, Lidija Malic, Teodor Veres, Denis Boudreau, Michel G. Bergeron
Summary: The understanding of DNA hybridization on solid supports lags behind that in aqueous phases, and predictive mathematical models are lacking. Ongoing research has identified important parameters but remains incomplete in accounting for all interactions. A novel instrument has been developed for real-time monitoring of DNA hybridization, allowing for exploration of the impact of the length of overhanging ends and rapid validation of microarray capture probes.
Article
Education, Scientific Disciplines
Jean-Luc Simard, Rabeea F. Omar, Maurice Boissinot, Michel G. Bergeron
JOURNAL OF MICROBIOLOGY & BIOLOGY EDUCATION
(2019)
Article
Microbiology
Andree F. Maheux, Dominique K. Boudreau, Eve Berube, Maurice Boissinot, Philippe Cantin, Frederic Raymond, Jacques Corbeil, Rabeea F. Omar, Michel G. Bergeron
GENOME ANNOUNCEMENTS
(2017)
Article
Microbiology
Andree F. Maheux, Dominique K. Boudreau, Eve Berube, Maurice Boissinot, Frederic Raymond, Stephanie Brodeur, Jacques Corbeil, Sandra Isabel, Rabeea F. Omar, Michel G. Bergeron
GENOME ANNOUNCEMENTS
(2017)
Article
Microbiology
Andree F. Maheux, Dominique K. Boudreau, Eve Berube, Maurice Boissinot, Frederic Raymond, Stephanie Brodeur, Jacques Corbeil, Gale Brightwell, Dorota Broda, Rabeea F. Omar, Michel G. Bergeron
GENOME ANNOUNCEMENTS
(2017)