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  1. Article ; Online: Epistatic pathways can drive HIV-1 escape from integrase strand transfer inhibitors.

    Hikichi, Yuta / Grover, Jonathan R / Schäfer, Alicia / Mothes, Walther / Freed, Eric O

    Science advances

    2024  Volume 10, Issue 9, Page(s) eadn0042

    Abstract: People living with human immunodeficiency virus (HIV) receiving integrase strand transfer inhibitors (INSTIs) have been reported to experience virological failure in the absence of resistance mutations in integrase. To elucidate INSTI resistance ... ...

    Abstract People living with human immunodeficiency virus (HIV) receiving integrase strand transfer inhibitors (INSTIs) have been reported to experience virological failure in the absence of resistance mutations in integrase. To elucidate INSTI resistance mechanisms, we propagated HIV-1 in the presence of escalating concentrations of the INSTI dolutegravir. HIV-1 became resistant to dolutegravir by sequentially acquiring mutations in the envelope glycoprotein (Env) and the nucleocapsid protein. The selected Env mutations enhance the ability of the virus to spread via cell-cell transfer, thereby increasing the multiplicity of infection (MOI). While the selected Env mutations confer broad resistance to multiple classes of antiretrovirals, the fold resistance is ~2 logs higher for INSTIs than for other classes of drugs. We demonstrate that INSTIs are more readily overwhelmed by high MOI than other classes of antiretrovirals. Our findings advance the understanding of how HIV-1 can evolve resistance to antiretrovirals, including the potent INSTIs, in the absence of drug-target gene mutations.
    MeSH term(s) Humans ; Raltegravir Potassium/pharmacology ; HIV Integrase Inhibitors/pharmacology ; HIV-1/genetics ; HIV-1/metabolism ; HIV Integrase/genetics ; HIV Integrase/metabolism ; Mutation
    Chemical Substances Raltegravir Potassium (43Y000U234) ; HIV Integrase Inhibitors ; HIV Integrase (EC 2.7.7.-)
    Language English
    Publishing date 2024-03-01
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2810933-8
    ISSN 2375-2548 ; 2375-2548
    ISSN (online) 2375-2548
    ISSN 2375-2548
    DOI 10.1126/sciadv.adn0042
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Proof-of-concept studies with a computationally designed M

    Papini, Christina / Ullah, Irfan / Ranjan, Amalendu P / Zhang, Shuo / Wu, Qihao / Spasov, Krasimir A / Zhang, Chunhui / Mothes, Walther / Crawford, Jason M / Lindenbach, Brett D / Uchil, Pradeep D / Kumar, Priti / Jorgensen, William L / Anderson, Karen S

    Proceedings of the National Academy of Sciences of the United States of America

    2024  Volume 121, Issue 17, Page(s) e2320713121

    Abstract: As the SARS-CoV-2 virus continues to spread and mutate, it remains important to focus not only on preventing spread through vaccination but also on treating infection with direct-acting antivirals (DAA). The approval of Paxlovid, a SARS-CoV-2 main ... ...

    Abstract As the SARS-CoV-2 virus continues to spread and mutate, it remains important to focus not only on preventing spread through vaccination but also on treating infection with direct-acting antivirals (DAA). The approval of Paxlovid, a SARS-CoV-2 main protease (M
    MeSH term(s) Humans ; Animals ; Mice ; Antiviral Agents/pharmacology ; Hepatitis C, Chronic ; Clinical Protocols ; Ritonavir ; Hydroxylamines ; Cytidine/analogs & derivatives ; Nitriles ; Drug Combinations ; Leucine ; Proline ; Lactams
    Chemical Substances nirmatrelvir and ritonavir drug combination ; molnupiravir (YA84KI1VEW) ; Antiviral Agents ; Ritonavir (O3J8G9O825) ; Hydroxylamines ; Cytidine (5CSZ8459RP) ; Nitriles ; Drug Combinations ; Leucine (GMW67QNF9C) ; Proline (9DLQ4CIU6V) ; Lactams
    Language English
    Publishing date 2024-04-15
    Publishing country United States
    Document type Journal Article
    ZDB-ID 209104-5
    ISSN 1091-6490 ; 0027-8424
    ISSN (online) 1091-6490
    ISSN 0027-8424
    DOI 10.1073/pnas.2320713121
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Bioluminescence imaging reveals enhanced SARS-CoV-2 clearance in mice with combinatorial regimens.

    Ullah, Irfan / Escudie, Fanny / Scandale, Ivan / Gilani, Zoela / Gendron-Lepage, Gabrielle / Gaudette, Fleur / Mowbray, Charles / Fraisse, Laurent / Bazin, Renée / Finzi, Andrés / Mothes, Walther / Kumar, Priti / Chatelain, Eric / Uchil, Pradeep D

    iScience

    2024  Volume 27, Issue 3, Page(s) 109049

    Abstract: Direct acting antivirals (DAAs) represent critical tools for combating severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern (VOCs) that have escaped vaccine-elicited spike-based immunity and future coronaviruses with pandemic ... ...

    Abstract Direct acting antivirals (DAAs) represent critical tools for combating severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern (VOCs) that have escaped vaccine-elicited spike-based immunity and future coronaviruses with pandemic potential. Here, we used bioluminescence imaging to evaluate therapeutic efficacy of DAAs that target SARS-CoV-2 RNA-dependent RNA polymerase (favipiravir, molnupiravir) or main protease (nirmatrelvir) against Delta or Omicron VOCs in K18-hACE2 mice. Nirmatrelvir displayed the best efficacy followed by molnupiravir and favipiravir in suppressing viral loads in the lung. Unlike neutralizing antibody treatment, DAA monotherapy regimens did not eradicate SARS-CoV-2 in mice, but combining molnupiravir with nirmatrelvir exhibited superior additive efficacy and led to virus clearance. Furthermore, combining molnupiravir with caspase-1/4 inhibitor mitigated inflammation and lung pathology whereas combining molnupiravir with COVID-19 convalescent plasma demonstrated synergy, rapid virus clearance, and 100% survival. Thus, our study provides insights into
    Language English
    Publishing date 2024-01-30
    Publishing country United States
    Document type Journal Article
    ISSN 2589-0042
    ISSN (online) 2589-0042
    DOI 10.1016/j.isci.2024.109049
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Book: Seeing is believing

    Mothes, Walther

    visualizing individual steps of the retroviral life cycle

    (David Derse memorial lecture and award ; 3)

    2014  

    Abstract: ... of innovative ideas that he was well known for promoting throughout his scientific career. Walther Mothes, Ph.D ...

    Institution HIV Drug Resistance Program (U.S.),
    Author's details Walther Mothes
    Series title David Derse memorial lecture and award ; 3
    Abstract (CIT): Third Annual David Derse Memorial Lecture and Award The HIV Drug Resistance Program, Center for Cancer Research, National Cancer Institute is hosting the Annual David Derse Memorial Lecture & Award to honor the outstanding research accomplishments of David Derse and to stimulate the exchange of innovative ideas that he was well known for promoting throughout his scientific career. Walther Mothes, Ph.D. (Yale University School of Medicine) will deliver the third lecture in this annual series. The title of his presentation is "Seeing Is Believing - Visualizing Individual Steps of the Retroviral Life Cycle.".
    MeSH term(s) Retroviridae/growth & development ; Life Cycle Stages
    Language English
    Size 1 online resource (1 streaming video file (1 hr., 11 min.)) :, color, sound.
    Document type Book
    Note Closed-captioned. ; Title from title screen.
    Database Catalogue of the US National Library of Medicine (NLM)

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  5. Article ; Online: Illuminating the virus life cycle with single-molecule FRET imaging.

    Lu, Maolin / Ma, Xiaochu / Mothes, Walther

    Advances in virus research

    2019  Volume 105, Page(s) 239–273

    Abstract: Single-molecule Förster resonance energy transfer (smFRET) imaging has emerged as a powerful tool to probe conformational dynamics of viral proteins, identify novel structural intermediates that are hiding in averaging population-based measurements, ... ...

    Abstract Single-molecule Förster resonance energy transfer (smFRET) imaging has emerged as a powerful tool to probe conformational dynamics of viral proteins, identify novel structural intermediates that are hiding in averaging population-based measurements, permit access to the energetics of transitions and as such to the precise molecular mechanisms of viral replication. One strength of smFRET is the capability of characterizing biological molecules in their fully hydrated/native state, which are not necessarily available to other structural methods. Elegant experimental design for physiologically relevant conditions, such as intact virions, has permitted the detection of previously unknown conformational states of viral glycoproteins, revealed asymmetric intermediates, and allowed access to the real-time imaging of conformational changes during viral fusion. As more laboratories are applying smFRET, our understanding of the molecular mechanisms and the dynamic nature of viral proteins throughout the virus life cycle are predicted to improve and assist the development of novel antiviral therapies and vaccine design.
    MeSH term(s) Fluorescence Resonance Energy Transfer/methods ; HIV-1/chemistry ; HIV-1/physiology ; Protein Conformation ; Single Molecule Imaging/methods ; Virus Internalization ; env Gene Products, Human Immunodeficiency Virus/chemistry ; env Gene Products, Human Immunodeficiency Virus/metabolism
    Chemical Substances env Gene Products, Human Immunodeficiency Virus
    Language English
    Publishing date 2019-08-20
    Publishing country United States
    Document type Journal Article
    ZDB-ID 195-8
    ISSN 1557-8399 ; 0065-3527
    ISSN (online) 1557-8399
    ISSN 0065-3527
    DOI 10.1016/bs.aivir.2019.07.004
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Cancer Microbiology.

    DiMaio, Daniel / Emu, Brinda / Goodman, Andrew L / Mothes, Walther / Justice, Amy

    Journal of the National Cancer Institute

    2021  Volume 114, Issue 5, Page(s) 651–663

    Abstract: Microbes play important roles in cancer from direct carcinogenic effects to their use in treatment. Cancers caused by microorganisms account for approximately 15% of cancers, primarily in low- and middle-income countries. Unique features of infectious ... ...

    Abstract Microbes play important roles in cancer from direct carcinogenic effects to their use in treatment. Cancers caused by microorganisms account for approximately 15% of cancers, primarily in low- and middle-income countries. Unique features of infectious carcinogens include their transmissibility, mutability, and specific immune interactions, which provide challenges and opportunities for cancer prevention and treatment. For these agents, infection control through exposure reduction, antivirals, antibiotics, and vaccines is cancer control. In addition, developing evidence suggests that microorganisms including the human microbiome can indirectly modulate cancer formation and influence the effectiveness and toxicity of cancer treatments. Finally, microorganisms themselves can be used to prevent or treat cancer. The convergence of these factors signals the emergence of a new field, cancer microbiology. Recognition of cancer microbiology will spur research, stimulate cross-disciplinary training, inform drug development, and improve public health.
    MeSH term(s) Anti-Bacterial Agents ; Carcinogens ; Delivery of Health Care ; Humans ; Microbiota ; Neoplasms/prevention & control
    Chemical Substances Anti-Bacterial Agents ; Carcinogens
    Language English
    Publishing date 2021-11-24
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2992-0
    ISSN 1460-2105 ; 0027-8874 ; 0198-0157
    ISSN (online) 1460-2105
    ISSN 0027-8874 ; 0198-0157
    DOI 10.1093/jnci/djab212
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: SARS-CoV-2 Variants Increase Kinetic Stability of Open Spike Conformations as an Evolutionary Strategy.

    Yang, Ziwei / Han, Yang / Ding, Shilei / Shi, Wei / Zhou, Tongqing / Finzi, Andrés / Kwong, Peter D / Mothes, Walther / Lu, Maolin

    mBio

    2022  Volume 13, Issue 1, Page(s) e0322721

    Abstract: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern (VOCs) harbor mutations in the spike (S) glycoprotein that confer more efficient transmission and dampen the efficacy of COVID-19 vaccines and antibody therapies. S mediates ...

    Abstract Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern (VOCs) harbor mutations in the spike (S) glycoprotein that confer more efficient transmission and dampen the efficacy of COVID-19 vaccines and antibody therapies. S mediates virus entry and is the primary target for antibody responses, with structural studies of soluble S variants revealing an increased propensity toward conformations accessible to the human angiotensin-converting enzyme 2 (hACE2) receptor. However, real-time observations of conformational dynamics that govern the structural equilibriums of the S variants have been lacking. Here, we report single-molecule Förster resonance energy transfer (smFRET) studies of critical mutations observed in VOCs, including D614G and E484K, in the context of virus particles. Investigated variants predominately occupied more open hACE2-accessible conformations, agreeing with previous structures of soluble trimers. Additionally, these S variants exhibited slower transitions in hACE2-accessible/bound states. Our finding of increased S kinetic stability in the open conformation provides a new perspective on SARS-CoV-2 adaptation to the human population.
    MeSH term(s) Humans ; COVID-19 ; COVID-19 Vaccines ; Protein Binding ; Protein Conformation ; Receptors, Virus/metabolism ; SARS-CoV-2/genetics ; Spike Glycoprotein, Coronavirus/metabolism ; Biological Evolution
    Chemical Substances COVID-19 Vaccines ; Receptors, Virus ; Spike Glycoprotein, Coronavirus ; spike protein, SARS-CoV-2
    Language English
    Publishing date 2022-02-15
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mbio.03227-21
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: HIV-1 Env trimers asymmetrically engage CD4 receptors in membranes.

    Li, Wenwei / Qin, Zhuan / Nand, Elizabeth / Grunst, Michael W / Grover, Jonathan R / Bess, Julian W / Lifson, Jeffrey D / Zwick, Michael B / Tagare, Hemant D / Uchil, Pradeep D / Mothes, Walther

    Nature

    2023  Volume 623, Issue 7989, Page(s) 1026–1033

    Abstract: Human immunodeficiency virus 1 (HIV-1) infection is initiated by binding of the viral envelope glycoprotein (Env) to the cell-surface receptor ... ...

    Abstract Human immunodeficiency virus 1 (HIV-1) infection is initiated by binding of the viral envelope glycoprotein (Env) to the cell-surface receptor CD4
    MeSH term(s) Humans ; AIDS Vaccines/chemistry ; AIDS Vaccines/immunology ; Capsid/chemistry ; Capsid/metabolism ; Capsid/ultrastructure ; CD4 Antigens/chemistry ; CD4 Antigens/metabolism ; CD4 Antigens/ultrastructure ; Cell Membrane/chemistry ; Cell Membrane/metabolism ; Cell Membrane/ultrastructure ; Cryoelectron Microscopy ; Electron Microscope Tomography ; HIV Antibodies/immunology ; HIV Envelope Protein gp120/chemistry ; HIV Envelope Protein gp120/metabolism ; HIV Envelope Protein gp120/ultrastructure ; HIV Infections/virology ; HIV-1/chemistry ; HIV-1/ultrastructure ; Protein Multimerization ; Virion/chemistry ; Virion/metabolism ; Virion/ultrastructure
    Chemical Substances AIDS Vaccines ; CD4 Antigens ; HIV Antibodies ; HIV Envelope Protein gp120
    Language English
    Publishing date 2023-11-22
    Publishing country England
    Document type Journal Article
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/s41586-023-06762-6
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: In Vivo Imaging-Driven Approaches to Study Virus Dissemination and Pathogenesis.

    Uchil, Pradeep D / Haugh, Kelsey A / Pi, Ruoxi / Mothes, Walther

    Annual review of virology

    2019  Volume 6, Issue 1, Page(s) 501–524

    Abstract: Viruses are causative agents for many diseases and infect all living organisms on the planet. Development of effective therapies has relied on our ability to isolate and culture viruses in vitro, allowing mechanistic studies and strategic interventions. ... ...

    Abstract Viruses are causative agents for many diseases and infect all living organisms on the planet. Development of effective therapies has relied on our ability to isolate and culture viruses in vitro, allowing mechanistic studies and strategic interventions. While this reductionist approach is necessary, testing the relevance of in vitro findings often takes a very long time. New developments in imaging technologies are transforming our experimental approach where viral pathogenesis can be studied in vivo at multiple spatial and temporal resolutions. Here, we outline a vision of a top-down approach using noninvasive whole-body imaging as a guide for in-depth characterization of key tissues, physiologically relevant cell types, and pathways of spread to elucidate mechanisms of virus spread and pathogenesis. Tool development toward imaging of infectious diseases is expected to transform clinical diagnosis and treatment.
    MeSH term(s) Animals ; Diagnostic Imaging/methods ; Disease Models, Animal ; Humans ; Virus Diseases/diagnostic imaging ; Virus Diseases/pathology ; Virus Diseases/virology ; Virus Physiological Phenomena ; Virus Replication ; Viruses/genetics ; Viruses/pathogenicity
    Language English
    Publishing date 2019-07-05
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2764224-0
    ISSN 2327-0578 ; 2327-056X
    ISSN (online) 2327-0578
    ISSN 2327-056X
    DOI 10.1146/annurev-virology-101416-041429
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Structure and Dynamics of the Native HIV-1 Env Trimer.

    Munro, James B / Mothes, Walther

    Journal of virology

    2015  Volume 89, Issue 11, Page(s) 5752–5755

    Abstract: HIV-1/AIDS remains one of the worst pandemics in human history. Despite tremendous efforts, no effective vaccine has been found. Recent reports give new insights into the structure and dynamics of the HIV-1 Env trimer and renew hopes that a better ... ...

    Abstract HIV-1/AIDS remains one of the worst pandemics in human history. Despite tremendous efforts, no effective vaccine has been found. Recent reports give new insights into the structure and dynamics of the HIV-1 Env trimer and renew hopes that a better understanding of Env will translate into new vaccine candidates and more-effective antiretroviral therapies.
    MeSH term(s) AIDS Vaccines/immunology ; AIDS Vaccines/isolation & purification ; HIV Envelope Protein gp120/chemistry ; HIV Envelope Protein gp120/immunology ; HIV Envelope Protein gp120/metabolism ; HIV Envelope Protein gp41/chemistry ; HIV Envelope Protein gp41/immunology ; HIV Envelope Protein gp41/metabolism ; HIV-1/chemistry ; HIV-1/immunology ; Humans ; Models, Molecular ; Protein Conformation ; Protein Multimerization
    Chemical Substances AIDS Vaccines ; HIV Envelope Protein gp120 ; HIV Envelope Protein gp41 ; gp120 protein, Human immunodeficiency virus 1 ; gp41 protein, Human immunodeficiency virus 1
    Language English
    Publishing date 2015-06
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Review
    ZDB-ID 80174-4
    ISSN 1098-5514 ; 0022-538X
    ISSN (online) 1098-5514
    ISSN 0022-538X
    DOI 10.1128/JVI.03187-14
    Database MEDical Literature Analysis and Retrieval System OnLINE

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