Article
Clinical Neurology
Pelle Trier Petersen, Jacob Bodilsen, Micha Phill Gronholm Jepsen, Lykke Larsen, Merete Storgaard, Birgitte Ronde Hansen, Jannik Helweg-Larsen, Lothar Wiese, Hans Rudolf Luttichau, Christian Ostergaard Andersen, Henrik Nielsen, Christian Thomas Brandt
Summary: In a nationwide study of 1066 Danish adults with viral meningitis, incomplete recovery persists in one in five patients 30 days after discharge. Female patients in particular have an increased risk of an unfavourable outcome, whereas the type of virus is not associated with the prognosis.
Article
Biochemistry & Molecular Biology
Chao Wu, Nicole D. Wagner, Austin B. Moyle, Annie Feng, Nitin Sharma, Sarah H. Stubbs, Callie Donahue, Robert A. Davey, Michael L. Gross, Daisy W. Leung, Gaya K. Amarasinghe
Summary: This study reveals the components and mechanisms of viral inclusion body (IB) formation during Ebola virus (EBOV) infection using a combined biophysical and cellular approach. The phase separation of the eNP0VP35 complex is reversible and modulated by ionic strength, with the multivalency of eVP35 being critical for phase separation. Over-expression of an eVP35 peptide disrupts IB formation, leading to reduced frequency of IB formation and limited viral infection.
JOURNAL OF MOLECULAR BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Jingru Fang, Guillaume Castillon, Sebastien Phan, Sara McArdle, Chitra Hariharan, Aiyana Adams, Mark H. Ellisman, Ashok A. Deniz, Erica Ollmann Saphire
Summary: Ebola virus infection induces the formation of biomolecular condensates called viral factories, which coordinate viral transcription, replication, and assembly. The authors characterized the phase separation properties and internal structures of intracellular viral factories induced by Ebola virus, and correlated these properties to important steps of viral biogenesis.
NATURE COMMUNICATIONS
(2023)
Article
Virology
Rebecca Johnson, Beata Boczkowska, Kendra Alfson, Taylor Weary, Heather Menzie, Jenny Delgado, Gloria Rodriguez, Ricardo Carrion, Anthony Griffiths
Summary: This study found that defective viral genomes (DVGs) accumulate in nonhuman primates infected with Ebola virus (EBOV) and Sudan virus (SUDV), particularly in the testes of infected NHPs. The presence of these DVGs in the viral infections indicates a potential role in EBOV and SUDV pathogenesis, and further research is needed to understand their significance in disease persistence.
JOURNAL OF VIROLOGY
(2021)
Article
Biochemistry & Molecular Biology
Coralie Valle, Baptiste Martin, Francois Ferron, Veronique Roig-Zamboni, Aline Desmyter, Francoise Debart, Jean-Jacques Vasseur, Bruno Canard, Bruno Coutard, Etienne Decroly
Summary: This study presents the crystal structure of the Ebola virus methyltransferase domain, revealing key amino acids involved in internal adenosine-2'-O-methylation and providing a framework for investigating the effects of epitranscriptomic modifications and designing potential antiviral drugs against the Filoviridae family.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Monica L. Husby, Souad Amiar, Laura Prugar, Emily A. David, Caroline B. Plescia, Kathleen E. Huie, Jennifer M. Brannan, John M. Dye, Elsje Pienaar, Robert Stahelin
Summary: Phosphatidylserine (PS) plays a crucial role in the assembly and spread of lipid-enveloped viruses. The Ebola virus matrix protein eVP40 induces clustering of PS and promotes viral budding in vitro, while the FDA-approved drug fendiline reduces PS clustering and inhibits virus budding and entry. Fendiline decreases PS content in mammalian cells and the plasma membrane, leading to a significant decrease in the ability of VP40 to form new virus particles. Moreover, particles formed from fendiline-treated cells have altered morphology and cannot efficiently infect or enter cells. These findings provide insights into the mechanism by which PS clustering enhances viral assembly, budding, and spread, and lay the foundation for potential drug targeting strategies.
Article
Pharmacology & Pharmacy
Dongrong Yi, Quanjie Li, Han Wang, Kai Lv, Ling Ma, Yujia Wang, Jing Wang, Yongxin Zhang, Mingliang Liu, Xiaoyu Li, Jianxun Qi, Yi Shi, George F. Gao, Shan Cen
Summary: Berbamine hydrochloride effectively inhibits the replication of Ebola virus by disrupting the fusion of viral and cellular membranes. Targeting the viral glyco-protein provides a potential strategy for developing anti-Ebola virus drugs, and the repurposing of berbamine hydrochloride holds great promise.
ACTA PHARMACEUTICA SINICA B
(2022)
Article
Virology
Lisa Wendt, Janine Brandt, Dmitry S. Ushakov, Bianca S. Bodmer, Matthew J. Pickin, Allison Groseth, Thomas Hoenen
Summary: This study reveals the mechanistic details of how Ebola virus (EBOV) and other viruses utilize the nuclear RNA export factor 1 (NXF1) to export viral mRNAs from viral inclusion bodies (IBs). It shows that NXF1 is not only required for the EBOV life cycle but also for other viruses known to replicate in cytoplasmic IBs. These findings suggest NXF1 as a promising target for the development of broadly active antivirals.
JOURNAL OF VIROLOGY
(2022)
Article
Microbiology
Wakako Furuyama, Miako Sakaguchi, Kento Yamada, Asuka Nanbo
Summary: In this study, a novel GP monitoring system was developed to model the Ebola virus lifecycle under non-high biosafety level conditions. The system enables real-time visualization of the glycoprotein during replication, providing a useful tool for studying the molecular mechanisms of Ebola virus replication.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Medicine, General & Internal
Jian Zhou, Dixuan Jiang, Wanchun Wang, Kang Huang, Fang Zheng, Yuanlin Xie, Zhiguo Zhou, Jingjing Sun
Summary: This article reports a case of a COVID-19 patient with cirrhosis, detailing the patient's condition and treatment process. The case analysis suggests that cirrhosis may affect the therapeutic effect of COVID-19, and clinicians need to pay more attention to such patients.
FRONTIERS IN MEDICINE
(2021)
Article
Cell Biology
Gal Shuler, Tzachi Hagai
Summary: This study explores the evolutionary changes in host-virus interactions and highlights the importance of viral mimicry of host-like motifs. The findings demonstrate that viral motifs target conserved and essential host proteins, while rapidly evolving viral-binding human proteins have fewer interactions with cellular proteins and are tissue-specific.
Article
Microbiology
Sarah van Tol, Birte Kalveram, Philipp A. Ilinykh, Adam Ronk, Kai Huang, Leopoldo Aguilera-Aguirre, Preeti Bharaj, Adam Hage, Colm Atkins, Maria Giraldo, Maki Wakamiya, Maria Gonzalez-Orozco, Abbey N. Warren, Alexander Bukreyev, Alexander N. Freiberg, Ricardo Rajsbaum
Summary: This study identified the important role of VP35 ubiquitination in coordinating viral transcription and assembly. Ubiquitination facilitates optimal viral transcriptional polymerase co-factor function without affecting transcriptional initiation. The loss of a basic charge at position 309 further compromises VP35's function through diminished interaction with the viral matrix protein and type-I interferon antagonism. Overall, ubiquitination and retention of a basic residue at VP35 position 309 are critical for viral transcription and assembly.
Article
Microbiology
Yannic C. Bartsch, Carolin Loos, Evan Rossignol, Jesse M. Fajnzylber, Dansu Yuan, Anchalee Avihingsanon, Sasiwimol Ubolyam, Thidarat Jupimai, Bernard Hirschel, Jintanat Ananworanich, Douglas A. Lauffenburger, Jonathan Z. Li, Galit Alter, Boris Julg
Summary: Plasma viremia reoccurs in most HIV-infected individuals once antiretroviral therapy is interrupted, and the kinetics of viral rebound differ significantly between individuals. Antibody features, including Fc functionality and Fc glycosylation, may serve as sensitive indicators of HIV disease activity and could be beneficial for future research.
Article
Immunology
Meghana Nadiger, Prithvi Sendi, Paul A. Martinez, Balagangadhar R. Totapally
Summary: In hospitalized children in the United States, HMPV infection is less common than RSV infection. Complex chronic conditions are more prevalent in children hospitalized with HMPV infection. Hospitalization with HMPV is associated with longer length of stay and higher hospital charges. The adjusted mortality is similar with both infections.
PEDIATRIC INFECTIOUS DISEASE JOURNAL
(2023)
Article
Multidisciplinary Sciences
Manish Gupta, Alexander J. Pak, Gregory A. Voth
Summary: Researchers use molecular dynamics simulations to reveal the molecular mechanism of HIV-1 capsid formation, including the role of IP6. This study shows that IP6 initially promotes curvature generation by trapping pentameric defects and shifts the assembly behavior towards kinetically favored outcomes. Additionally, IP6 can stabilize metastable capsid intermediates and induce structural pleomorphism in mature capsids.
Article
Immunology
Manel Essaidi-Laziosi, Catia Alvarez, Olha Puhach, Pascale Sattonnet-Roche, Giulia Torriani, Caroline Tapparel, Laurent Kaiser, Isabella Eckerle
Summary: The study revealed that rhinovirus and influenza virus can inhibit the replication of SARS-CoV-2, while SARS-CoV-2 has no impact on the replication of these seasonal respiratory viruses. Factors such as immune response and interferon induction play a key role in regulating the interaction between SARS-CoV-2 and seasonal respiratory viruses.
EMERGING MICROBES & INFECTIONS
(2022)
Article
Infectious Diseases
Debashish Das, Ranitha Vongpromek, Thanawat Assawariyathipat, Ketsanee Srinamon, Kalynn Kennon, Kasia Stepniewska, Aniruddha Ghose, Abdullah Abu Sayeed, M. Abul Faiz, Rebeca Linhares Abreu Netto, Andre Siqueira, Serge R. Yerbanga, Jean Bosco Ouedraogo, James J. Callery, Thomas J. Peto, Rupam Tripura, Felix Koukouikila-Koussounda, Francine Ntoumi, John Michael Ong'echa, Bernhards Ogutu, Prakash Ghimire, Jutta Marfurt, Benedikt Ley, Amadou Seck, Magatte Ndiaye, Bhavani Moodley, Lisa Ming Sun, Laypaw Archasuksan, Stephane Proux, Sam L. Nsobya, Philip J. Rosenthal, Matthew P. Horning, Shawn K. McGuire, Courosh Mehanian, Stephen Burkot, Charles B. Delahunt, Christine Bachman, Ric N. Price, Arjen M. Dondorp, Francois Chappuis, Philippe J. Guerin, Mehul Dhorda
Summary: The EasyScan Go microscopy device shows promising results in automated parasite detection and quantification. It achieves a high level of accuracy in parasite species identification, but improvement is needed in sensitivity for low parasite density and parasite density estimation.
Article
Multidisciplinary Sciences
Meriem Bekliz, Kenneth Adea, Pauline Vetter, Christiane S. Eberhardt, Krisztina Hosszu-Fellous, Diem-Lan Vu, Olha Puhach, Manel Essaidi-Laziosi, Sophie Waldvogel-Abramowski, Caroline Stephan, Arnaud G. L'Huillier, Claire-Anne Siegrist, Arnaud M. Didierlaurent, Laurent Kaiser, Benjamin Meyer, Isabella Eckerle
Summary: Emerging SARS-CoV-2 variants pose concerns about protective immunity, as convalescent sera from individuals infected with different variants show reduced neutralization against Omicron-BA.1. However, vaccine-breakthrough infections with Omicron-BA.1 or Delta lead to robust neutralization against both variants. Understanding the antigenic relationship between variants is crucial due to the complexity of population immunity resulting from prior infections and vaccinations.
NATURE COMMUNICATIONS
(2022)
Article
Infectious Diseases
Vered Daitch, Dana Yelin, Muhammad Awwad, Giovanni Guaraldi, Jovana Milic, Cristina Mussini, Marco Falcone, Giusy Tiseo, Laura Carrozzi, Francesco Pistelli, Mayssam Nehme, Idris Guessous, Laurent Kaiser, Pauline Vetter, Jaume Bordas-Martinez, Xavier Dura-Miralles, Dolores Peleato-Catalan, Carlota Gudiol, Irit Shapira-Lichter, Donna Abecasis, Leonard Leibovici, Dafna Yahav, Ili Margalit
Summary: This study investigated the long-term symptoms of COVID-19 in the elderly population and found that fatigue and dyspnea were common symptoms. Older adults were more likely to have respiratory impairment compared to younger individuals. Female gender and obesity were identified as risk factors for long-term COVID-19 symptoms. Further research is needed to understand the natural progression of long-COVID in the elderly population and explore interventions to promote rehabilitation and well-being.
INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES
(2022)
Article
Multidisciplinary Sciences
Elsa Lorthe, Mathilde Bellon, Gregoire Michielin, Julie Berthelot, Maria-Eugenia Zaballa, Francesco Pennacchio, Meriem Bekliz, Florian Laubscher, Fatemeh Arefi, Javier Perez-Saez, Andrew S. Azman, Arnaud G. L'Huillier, Klara M. Posfay-Barbe, Laurent Kaiser, Idris Guessous, Sebastian J. Maerkl, Isabella Eckerle, Silvia Stringhini
Summary: This study reports the findings of a prospective epidemiological, virological, and serological investigation of a SARS-CoV-2 outbreak in a primary school. The results demonstrate child-to-child and child-to-adult transmission of SARS-CoV-2, as well as its introduction into households. Effective measures to limit transmission in schools have the potential to reduce community circulation.
Article
Immunology
Mayssam Nehme, Pauline Vetter, Francois Chappuis, Laurent Kaiser, Idris Guessous
Summary: This study evaluates the prevalence of symptoms and functional impairment 12 weeks after Omicron variants (BA.1 and BA.2) infection and compares it with negative controls. The results show that the prevalence of symptoms after 12 weeks of Omicron infection is relatively low, and vaccination can reduce the occurrence of post-COVID symptoms.
CLINICAL INFECTIOUS DISEASES
(2023)
Article
Biochemistry & Molecular Biology
Dmitry Kuznetsov, Fredrik Tegenfeldt, Mose Manni, Mathieu Seppey, Matthew Berkeley, Evgenia Kriventseva, Evgeny M. Zdobnov
Summary: OrthoDB provides evolutionary and functional annotations of genes in a diverse range of organisms. It offers a comprehensive coverage of species diversity by sampling diverse organisms with high-quality genomic data. The update of underlying data and the scalability of the OrthoLoger software enhance the accuracy of ortholog delineation and allow mapping of novel gene sets. The web interface of OrthoDB has been further developed, providing a pairwise orthology view between any gene and other sampled species.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Cell Biology
Sarah A. Nadeau, Timothy G. Vaughan, Christiane Beckmann, Ivan Topolsky, Chaoran Chen, Emma Hodcroft, Tobias Schaer, Ina Nissen, Natascha Santacroce, Elodie Burcklen, Pedro Ferreira, Kim Philipp Jablonski, Susana Posada-Cespedes, Vincenzo Capece, Sophie Seidel, Noemi Santamaria de Souza, Julia M. Martinez-Gomez, Phil Cheng, Philipp P. Bosshard, Mitchell P. Levesque, Verena Kufner, Stefan SchmutzSchmutz, Maryam Zaheri, Michael Huber, Alexandra Trkola, Samuel Cordey, Florian Laubscher, Ana Rita Goncalves, Sebastien Aeby, Trestan Pillonel, Damien Jacot, Claire Bertelli, Gilbert Greub, Karoline Leuzinger, Madlen Stange, Alfredo Mari, Tim Roloff, Helena Seth-Smith, Hans H. Hirsch, Adrian Egli, Maurice Redondo, Olivier Kobel, Christoph Noppen, Louis du Plessis, Niko Beerenwinkel, Richard A. Neher, Christian Beisel, Tanja Stadler
Summary: Genome sequencing of SARS-CoV-2 in Switzerland revealed the number and persistence of virus introductions. Border closures in Switzerland significantly reduced case introductions, with up to a 98% reduction during the strictest measures. The partial lockdown in 2020 also shortened the time for introductions to die out. The study demonstrates the importance of genome sequencing data in understanding transmission dynamics.
SCIENCE TRANSLATIONAL MEDICINE
(2023)
Article
Immunology
Amandine Pradier, Samuel Cordey, Marie-Celine Zanella, Astrid Melotti, Sisi Wang, Anne-Claire Mamez, Yves Chalandon, Stavroula Masouridi-Levrat, Laurent Kaiser, Federico Simonetta, Diem-Lan Vu
Summary: This study reveals a potential association between the non-pathogenic HPgV-1 virus and immunomodulation after allo-HSCT, suggesting that HPgV-1 may impair NK cell immune-reconstitution. This provides initial evidence for the potential impact of HPgV-1 infection.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Ecology
Jaspreet S. Saini, Mose Manni, Christel Hassler, Rachel N. Cable, Melissa B. Duhaime, Evgeny M. Zdobnov
Summary: This study presents the first near-complete genome of a photosynthetic microbial eukaryote from the chemocline of Lake Cadagno. The findings suggest the cooperation of this microorganism with phototrophic sulfur bacteria via carbon, sulfur, and nitrogen metabolism, aiding their collective persistence in the lake's chemocline.
Article
Virology
Marie-Celine Zanella, Diem-Lan Vu, Krisztina Hosszu-Fellous, Dionysios Neofytos, Chistian Van Delden, Lara Turin, Antoine Poncet, Federico Simonetta, Stavroula Masouridi-Levrat, Yves Chalandon, Samuel Cordey, Laurent Kaiser
Summary: Metagenomics identified previously unrecognized viruses in allogeneic hematopoietic stem cell transplantation (allo-HSCT) patients, highlighting their potential as sources of infection. This observational cohort study aimed to investigate the prevalence and dynamics of DNA and RNA viruses in the plasma of allo-HSCT recipients for one year post-transplant. TTV infection was observed in 97% of patients, followed by HPgV-1 (prevalence: 26-36%). Viral loads for TTV and HPgV-1 peaked at month 3. Multiple Polyomaviridae viruses were detected in over 10% of patients. HPyV6 and HPyV7 had a prevalence of 27% and 12% respectively at month 3, while CMV had a prevalence of 27%. The other viruses had low prevalence rates, and co-infections were observed in 72% of patients at month 3. Further research is needed to understand the relationship between these viral infections, immune reconstitution, and clinical outcomes.
Article
Multidisciplinary Sciences
Christophe Marti, Christophe Gaudet-Blavignac, Jeremy Martin, Christian Lovis, Jerome Stirnemann, Olivier Grosgurin, Fiona Novotny, Anne Iten, Aline Mendes, Virginie Prendki, Christine Serratrice, Pauline Darbellay Farhoumand, Nour Abidi, Pauline Vetter, Sebastian Carballo, Jean-Luc Reny, Amandine Berner, Angele Gayet-Ageron
Summary: Therapeutic strategies for COVID-19 patients in Switzerland were adapted during the second wave, leading to a reduction in hospital mortality, ICU admission, and length of hospital stay compared to the first wave. These adaptations included the use of corticosteroids therapy and increased admission to the IMCU for non-invasive respiratory support. The increased number of patients admitted during the second wave was accompanied by a higher proportion of medical decisions restraining ICU admission, indicating potential improvement in patient selection or implicit triaging.
SCIENTIFIC REPORTS
(2023)
Article
Biochemistry & Molecular Biology
Adrian Altenhoff, Amos Bairoch, Parit Bansal, Delphine Baratin, Frederic Bastian, Jerven Bolleman, Alan Bridge, Frederic Burdet, Katrin Crameri, Jerome Dauvillier, Christophe Dessimoz, Sebastien Gehant, Natasha Glover, Kristin Gnodtke, Catherine Hayes, Mark Ibberson, Evgenia Kriventseva, Dmitry Kuznetsov, Frederique Lisacek, Florence Mehl, Tarcisio Mendes de Farias, Pierre-Andre Michel, Sebastien Moretti, Anne Morgat, Sabine Osterle, Marco Pagni, Nicole Redaschi, Marc Robinson-Rechavi, Kasun Samarasinghe, Ana-Claudia Sima, Damian Szklarczyk, Orlin Topalov, Vasundra Toure, Deepak Unni, Christian von Mering, Julien Wollbrett, Monique Zahn-Zabal, Evgeny Zdobnov
Summary: This paper introduces the SIB Swiss Institute of Bioinformatics and its 11 databases, which provide semantically enriched data according to the FAIR principles. It also discusses the Swiss Personalized Health Network initiative and how it uses semantic enrichment to manipulate data. Examples and the use of SPARQL query language are provided to show how the existing SIB knowledge graphs can address complex biological or clinical questions.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Virology
Florian Laubscher, Laurent Kaiser, Samuel Cordey
Summary: Anelloviruses are common viruses in humans and are considered to be part of the human virome. The diversity of species and genotypes within the same genus can be detected in individuals, and this diversity increases with age. However, the bioinformatics analysis of this genetic diversity remains complex and constraining for researchers. In this study, we present SCANellome, a user-friendly tool that can investigate the composition of Anelloviruses in metagenomics data generated by the Illumina and Nanopore platforms.
Article
Public, Environmental & Occupational Health
Alexandra U. Scherrer, Anna Traytel, Dominique L. Braun, Alexandra Calmy, Manuel Battegay, Matthias Cavassini, Hansjakob Furrer, Patrick Schmid, Enos Bernasconi, Marcel Stoeckle, Christian Kahlert, Alexandra Trkola, Roger D. Kouyos, Philip Tarr, Catia Marzolini, Gilles Wandeler, Jacques Fellay, Heiner Bucher, Sabine Yerly, Franziska Suter, Hans Hirsch, Michael Huber, Gunter Dollenmaier, Matthieu Perreau, Gladys Martinetti, Andri Rauch, Huldrych F. Guenthard
INTERNATIONAL JOURNAL OF EPIDEMIOLOGY
(2022)