Article
Microbiology
David C. Alexander, Robert M. Taylor, Irene Martin, Heather Adam, Philippe Lagace-Wiens, Peter Pieroni, James A. Karlowsky, Paul Van Caeseele
Summary: This study compared the performance of microscopy, culture, and the Hologic Aptima Combo 2 (AC2) assay for detecting Neisseria gonorrhoeae in joint fluid specimens. The results showed that AC2 was more sensitive than culture for diagnosing gonococcal arthritis.
JOURNAL OF CLINICAL MICROBIOLOGY
(2022)
Article
Chemistry, Analytical
Xiaoyu Zhao, Yuxin Huang, Xiang Li, Weihao Yang, Yaoyi Lv, Wei Sun, Jiajun Huang, Shengli Mi
Summary: Researchers have developed a centrifugal microfluidic chip integrated with chitosan-modified magnetic microspheres for pH-induced nucleic acid extraction. The system demonstrates comparable performance in terms of nucleic acid concentration and purity, detection specificity and stability, and fast detection duration. This development is significant for portable, efficient, and simple nucleic acid diagnosis, especially under resource-limited conditions.
Article
Chemistry, Analytical
Alexandra Bogozalec Kosir, Dane Luznik, Viktorija Tomic, Mojca Milavec
Summary: The detection and quantification of DNA biomarkers heavily depend on the yield and quality of DNA extracted from various matrices. In this study, five extraction methods were compared for their efficiency in extracting DNA from sputum samples containing three different Gram-negative bacteria using digital PCR. The evaluation revealed that although the GXT NA extraction kit and CTAB method had the highest DNA yield, they did not meet the strict criteria for repeatability, intermediate precision, and measurement uncertainty. Despite this, considering the limited availability of clinical samples, the GXT NA extraction kit was determined to be the preferred method. The study also highlighted the usefulness of dPCR in assessing extraction method repeatability and the impact of DNA extraction methods on measurement uncertainty.
Article
Oncology
Taoran Cui, Ke Nie, Jiahua Zhu, Shabbar Danish, Joseph Weiner, Anupama Chundury, Nisha Ohri, Yin Zhang, Irina Vergalasova, Ning Yue, Xiao Wang
Summary: The purpose of this study was to compare the performance of the inverse planning algorithm in Gamma Knife Lightning Treatment Planning System to manual forward planning for different types of targets, as well as between experienced and inexperienced users. The results showed that the inverse optimized plans outperformed the clinical plans for all sites, and there were no noticeable differences in plan qualities among the plans created by the novice and experienced planners.
FRONTIERS IN ONCOLOGY
(2022)
Article
Infectious Diseases
Lei Hong, Jingyuan Li, Junping Lv, Siqi Chao, Yaqing Xu, Dayang Zou, Junjie Du, Binan Lu, Zongran Pang, Wenfeng Li, Wei Liu, Yuehua Ke, Shuxun Hou
Summary: The LAMP assay developed in this study can rapidly and accurately detect the three most prevalent HAdV genotypes in China, suitable for resource-limited settings, and showing highly consistent results with the gold standard RT-PCR method.
DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE
(2021)
Article
Biochemistry & Molecular Biology
Nicole L. Welch, Meilin Zhu, Catherine Hua, Juliane Weller, Marzieh Ezzaty Mirhashemi, Tien G. Nguyen, Sreekar Mantena, Matthew R. Bauer, Bennett M. Shaw, Cheri M. Ackerman, Sri Gowtham Thakku, Megan W. Tse, Jared Kehe, Marie-Martine Uwera, Jacqueline S. Eversley, Derek A. Bielwaski, Graham McGrath, Joseph Braidt, Jeremy Johnson, Felecia Cerrato, Gage K. Moreno, Lydia A. Krasilnikova, Brittany A. Petros, Gabrielle L. Gionet, Ewa King, Richard C. Huard, Samantha K. Jalbert, Michael L. Cleary, Nicholas A. Fitzgerald, Stacey B. Gabriel, Glen R. Gallagher, Sandra C. Smole, Lawrence C. Madoff, Catherine M. Brown, Matthew W. Keller, Malania M. Wilson, Marie K. Kirby, John R. Barnes, Daniel J. Park, Katherine J. Siddle, Christian T. Happi, Deborah T. Hung, Michael Springer, Bronwyn L. MacInnis, Jacob E. Lemieux, Eric Rosenberg, John A. Branda, Paul C. Blainey, Pardis C. Sabeti, Cameron Myhrvold
Summary: A microfluidic CRISPR-based platform called mCARMEN enables multiplexed and high-throughput identification of a wide range of respiratory viruses, including specific SARS-CoV-2 variants. The platform combines cost-effectiveness, diagnostic-grade performance, and a streamlined workflow for clinical use.
Review
Medicine, General & Internal
Hwa Chia Chai, Kek Heng Chua
Summary: Blood remains the preferred specimen for malaria diagnosis, but efforts should continue in developing non-invasive methods for Plasmodium detection using saliva and urine in resource-limited endemic areas.
Article
Virology
Allen Wing-Ho Chu, Cyril Chik-Yan Yip, Wan-Mui Chan, Anthony Chin-Ki Ng, Dream Lok-Sze Chan, Ryan Ho-Ping Siu, Cheuk Yiu Tenny Chung, Jessica Pui-Ling Ng, Harsha Kittur, Garrett Lee Mosley, Rosana Wing-Shan Poon, Ricky Yin-To Chiu, Kelvin Kai-Wang To
Summary: This study compared the efficiency of an automated high-throughput liquid-based RNA extraction (LRE) platform with a widely used magnetic bead-based total nucleic acid extraction (MBTE) platform in detecting SARS-CoV-2 in pooled specimens. Results showed no significant differences in Ct values and overall RT-PCR positive rates between the two platforms, but a slightly higher positive rate for LRE in pooled saliva specimens.
Article
Chemistry, Multidisciplinary
Kefan Yang, Daniel N. Schuder, Arlene K. Ngor, John C. Chaput
Summary: The SARS-CoV-2 virus has developed new strains that are more transmissible and less susceptible to vaccines. To address the rapid spread of these harmful strains worldwide, researchers have designed a novel genotyping assay called REVEALR, which accurately detects major SARS-CoV-2 strains in the United States. In experimental tests, REVEALR demonstrated 100% accuracy in identifying the correct variant in patient samples.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Biochemical Research Methods
Xiaoli Zhao, Qianyi Wan, Jian Zhang, Yake Duan, Yong Li, Jingrong Ma, Chao Shi, Cuiping Ma
Summary: Here, we developed an ultra-fast and visual single-tube nucleic acid detection approach that combines the self-settling characteristics of chitosan-functionalized diatomaceous earth (CDE) and accelerated PCR (AC-PCR). This method not only improves the sensitivity and specificity of detection, but also allows for the completion of the entire process in a short period of time, with results visible to the naked eyes.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Biochemical Research Methods
Xiaoli Zhao, Yong Li, Ritong Sun, Yaofang Fan, Xiaofeng Mu, Ye Wang, Chao Shi, Cuiping Ma
Summary: This study presents a novel strategy for miRNA extraction based on electrical potential-assisted DNA-RNA hybridization. The entire extraction process is rapid and sensitive, with the advantages of simplicity and specificity. Satisfactory results were achieved for miRNA extraction in serum.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Kevin M. Koo, Matt Trau
Summary: This study describes an accurate method for analyzing gene fusion mutant variants in patient liquid biopsy samples. The method involves the enrichment of multiple mutant variants using locker probes and the use of magneto-bioelectrocatalytic cycling readout for signal enhancement. This approach shows potential for non-invasive liquid biopsies in cancer screening, diagnostics, and therapeutics.
Article
Pathology
Prachi R. Bapat, Sridhar Epari, Pradnya Joshi, Dipika S. Dhanavade, Rachna H. Rumde, Mamta Y. Gurav, Omshree A. Shetty, Sangeeta B. Desai
Summary: The in-house developed FFPE extraction buffer outperforms other methods in terms of suitability for downstream applications, time, cost-efficiency, and ease of performance. It yields higher DNA quantity and quality, preserves DNA integrity and fragment size in a greater number of samples, and shows a significantly higher target PCR amplification rate with interpretable sequencing results in 98% of the samples.
AMERICAN JOURNAL OF CLINICAL PATHOLOGY
(2022)
Article
Chemistry, Analytical
Sebastian Hin, Nils Paust, Markus Rombach, Jan Lueddecke, Mara Specht, Roland Zengerle, Konstantinos Mitsakakis
Summary: Centrifugal microfluidics enables automated molecular diagnostics, but integrating solid-phase nucleic acid extraction remains challenging. We developed a magnetophoresis technique under continuous rotation for magnetic bead-based extraction, achieving easy cartridge integration and high yield and purity of nucleic acid extraction.
Article
Chemistry, Analytical
Le Tran Huy Thang, Won Han, Jaeho Shin, Joong Ho Shin
Summary: In this study, a pressure-driven and self-contained cartridge with pre-stored reagents was designed to automate nucleic acid purification. By using pressurized air stored inside the cartridge, reagents were transferred through a microfluidic chip, which reduced operational complexity. The device achieved similar results to the conventional column-based extraction method in terms of concentration, purity, and real-time polymerase chain reaction (qPCR) for Escherichia coli (E. coli) O157:H7 DNA. It also had a detection limit of 103 CFU, similar to the conventional solid-phase extraction method. This novel approach for automating sample preparation can facilitate point-of-care molecular diagnostics.
SENSORS AND ACTUATORS B-CHEMICAL
(2023)
Article
Infectious Diseases
Alexandre Gaymard, Paolo Bosetti, Adeline Feri, Gregory Destras, Vincent Enouf, Alessio Andronico, Sonia Burrel, Sylvie Behillil, Claire Sauvages, Antonin Bal, Florence Morfin, Sylvie Van der Werf, Laurence Josset, Francois Blanquart, Bruno Coignard, Simon Cauchemez, Bruno Lina
Summary: The emergence of the SARS-CoV-2 variant 201/501Y.V1 in France is concerning due to its increased transmissibility. Recent data shows that this variant is 52-69% more transmissible compared to previously circulating lineages, with a prevalence of 6.9% in the Paris region.
Letter
Otorhinolaryngology
Jeremy Guenezan, Magali Garcia, Deidre Strasters, Clement Jousselin, Nicolas Leveque, Denis Frasca, Olivier Mimoz
JAMA OTOLARYNGOLOGY-HEAD & NECK SURGERY
(2021)
Article
Infectious Diseases
Thierry Prazuck, Renaud Verdon, Gwenael Le Moal, Faiza Ajana, Louis Bernard, Simon Sunder, Mariam Roncato-Saberan, Diane Ponscarme, Manuel Etienne, Jean-Paul Viard, Thierry Pasdeloup, Iuliana Darasteanu, Gilles Pialoux, Arnaud de la Blanchardiere, Veronique Avettand-Fenoel, Jean-Jacques Parienti, Laurent Hocqueloux
Summary: The study compared the maintenance effect of tenofovir disoproxil fumarate/emtricitabine with traditional triple therapy in people living with HIV, showing similar viral suppression rates at 48 weeks but a higher incidence of virological failures in the tenofovir disoproxil fumarate/emtricitabine group.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY
(2021)
Letter
Virology
Florent Hubert, Celine Chessa, Agnes Beby-Defaux, Anne Bourgoin, Laurence Boinot, Ursula Noury, Andy Lariviere, Mohammed Benlaassri, Magali Garcia, Nicolas Leveque
JOURNAL OF MEDICAL VIROLOGY
(2021)
Review
Virology
Mathilde Malgras, Magali Garcia, Clement Jousselin, Charles Bodet, Nicolas Leveque
Summary: PARPs are enzymes responsible for a reversible post-translational modification involved in various cellular processes, including DNA damage repair, chromatin remodeling, translation regulation, and cell death. Recent studies have highlighted the role of PARPs in host defense against viruses, as well as strategies developed by viruses to evade their actions.
Article
Infectious Diseases
Amine Benadji, Xavier Duval, Kostas Danis, Bruno Hoen, Bernard Page, Guillaume Beraud, Veronique Vernet-Garnier, Christophe Strady, Nathalie Brieu, Laurence Maulin, Carine Roy, Marie-Cecile Pioy, Jacques Gaillat, Emmanuelle Varon, Sarah Tubiana
Summary: This study found that both host factors and pneumococcal serotypes have an impact on 30-day mortality in invasive pneumococcal disease patients, emphasizing the need for a targeted vaccination strategy for high-risk populations.
Article
Medicine, Research & Experimental
Xavier Duval, Muhamed-Kheir Taha, Isabelle Lamaury, Lelia Escaut, Isabelle Gueit, Pauline Manchon, Sarah Tubiana, Bruno Hoen
Summary: Although most patients with meningococcal meningitis survive, they face substantial long-term burden, emphasizing the importance of prolonged follow-up and preventive strategies, including vaccination.
ADVANCES IN THERAPY
(2022)
Article
Infectious Diseases
Souade Akroum, Sarah Tubiana, Thomas de Broucker, Nathalie Dournon, Emmanuelle Varon, Marie Cecile Ploy, Bruno Mourvillier, Eric Oziol, Flore Lacassin, Henri Laurichesse, Bruno Hoen, Xavier Duval, Charles Burdet
Summary: This study investigated the prevalence and determinants of neuro-functional disability 12 months after community-acquired bacterial meningitis (CABM) in adult patients. The findings showed that approximately 29.9% of the 281 patients exhibited neuro-functional disability at 12 months, with 28.1% having functional disability and 18.1% having physical disability. Factors associated with neuro-functional disability included pneumococcal meningitis, presence of physical disability at hospital discharge, and presence of behavioral disorders at hospital discharge.
Letter
Infectious Diseases
Guillaume Martin-Blondel, Anne-Genevieve Marcelin, Cathia Soulie, Sofia Kaisaridi, Clovis Lusivika-Nzinga, Celine Dorival, Laura Nailler, Anais Boston, Clea Melenotte, Geraldine Gaube, Christophe Choquet, Roland Liblau, Fabrice Carrat, Youri Yordanov
JOURNAL OF INFECTION
(2022)
Article
Infectious Diseases
Guillaume Beraud, Sarah Tubiana, Marie-Line Erpelding, Vincent Le Moing, Catherine Chirouze, Isabelle Gorenne, Pauline Manchon, Pierre Tattevin, Veronique Vernet, Emmanuelle Varon, Bruno Hoen, Xavier Duval
Summary: The study described patients with coexisting infective endocarditis and bacterial meningitis, finding that the main presentation was meningitis, with most common pathogens being Streptococcus pneumoniae and Staphylococcus aureus. The results of this study are important for the identification and treatment of patients with dual infections.
INFECTIOUS DISEASES AND THERAPY
(2022)
Article
Virology
Celine Chessa, Charles Bodet, Clement Jousselin, Andy Lariviere, Alexia Damour, Julien Garnier, Nicolas Leveque, Magali Garcia
Summary: LL-37 can directly inhibit West Nile virus (WNV), while hBD-3 does not have an inhibitory effect on WNV replication. Both peptides have immunomodulatory properties in WNV-infected keratinocytes.
Article
Immunology
Magali Garcia, Jean Philippe Martellosio, Valentin Giraud, Guillaume Beraud, Melanie Catroux, France Roblot, Gwenael Le Moal
Summary: Doravirine (DOR) has shown good efficacy and safety in adult naive or treated patients, making it a safe and relevant strategy to avoid drug interactions and drugs with poor metabolic tolerance.
AIDS RESEARCH AND HUMAN RETROVIRUSES
(2022)
Article
Immunology
Thierry Prazuck, Philippe Lanotte, Gwenael Le Moal, Laurent Hocqueloux, Simon Sunder, Melanie Catroux, Magali Garcia, Pascale Perfezou, Guillaume Gras, Chloe Plouzeau, Nicolas Leveque, Agnes Beby-Defaux
Summary: Pooling samples from MSM to detect CT, NG, and MG is as sensitive as individual-site testing for these 3 pathogens. Missed infections only occurred for samples with a low bacterial load, which may have a low impact on further transmission.
OPEN FORUM INFECTIOUS DISEASES
(2022)
Article
Immunology
Peggy Blanc, Fabrice Bonnet, Olivier Leleux, Adelaide Perrier, Emilie Bessede, Sabine Pereyre, Charles Cazanave, Didier Neau, Marc-Olivier Vareil, Estibaliz Lazaro, Pierre Duffau, Aurelie Saunier, Katell Andre, Linda Wittkop, Marie-Anne Vandenhende
Summary: This large prospective cohort study examined the types of severe non-AIDS bacterial infections (SBIs) among people with HIV, as well as the bacterial documentation and antibiotic resistance patterns over an 18-year period. The study found that the proportion of Streptococcus pneumoniae infections in HIV patients decreased over time, as did resistance of Staphylococcus aureus and Streptococcus pneumoniae, while resistance of Enterobacteriaceae increased. The use of cotrimoxazole as prophylaxis was associated with an increased risk of antibiotic resistance.
CLINICAL INFECTIOUS DISEASES
(2023)
Article
Chemistry, Medicinal
Clement Jousselin, Hugo Pliego-Cortes, Alexia Damour, Magali Garcia, Charles Bodet, Daniel Robledo, Nathalie Bourgougnon, Nicolas Leveque
Summary: By testing polysaccharide fractions from Halymenia floresii and Solieria chordalis, it was found that the polysaccharide fractions from Halymenia floresii have antiviral activity against SARS-CoV-2, while those from Solieria chordalis do not. This study confirms that carrageenans can be used as a first-line treatment to inhibit the infection and transmission of SARS-CoV-2.
