38 results on '"Arun, K."'
Search Results
2. Structure-guided engineering of biased-agonism in the human niacin receptor via single amino acid substitution
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Manish K. Yadav, Parishmita Sarma, Jagannath Maharana, Manisankar Ganguly, Sudha Mishra, Nashrah Zaidi, Annu Dalal, Vinay Singh, Sayantan Saha, Gargi Mahajan, Saloni Sharma, Mohamed Chami, Ramanuj Banerjee, and Arun K. Shukla
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Science - Abstract
Abstract The Hydroxycarboxylic acid receptor 2 (HCA2), also known as the niacin receptor or GPR109A, is a prototypical GPCR that plays a central role in the inhibition of lipolytic and atherogenic activities. Its activation also results in vasodilation that is linked to the side-effect of flushing associated with dyslipidemia drugs such as niacin. GPR109A continues to be a target for developing potential therapeutics in dyslipidemia with minimized flushing response. Here, we present cryo-EM structures of the GPR109A in complex with dyslipidemia drugs, niacin or acipimox, non-flushing agonists, MK6892 or GSK256073, and recently approved psoriasis drug, monomethyl fumarate (MMF). These structures elucidate the binding mechanism of agonists, molecular basis of receptor activation, and insights into biased signaling elicited by some of the agonists. The structural framework also allows us to engineer receptor mutants that exhibit G-protein signaling bias, and therefore, our study may help in structure-guided drug discovery efforts targeting this receptor.
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- 2024
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3. Autonomous self-healing organic crystals for nonlinear optics
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Mondal, Saikat, Tanari, Pratap, Roy, Samrat, Bhunia, Surojit, Chowdhury, Rituparno, Pal, Arun K., Datta, Ayan, Pal, Bipul, and Reddy, C. Malla
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- 2023
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4. Molecular insights into intrinsic transducer-coupling bias in the CXCR4-CXCR7 system
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Sarma, Parishmita, Carino, Carlo Marion C., Seetharama, Deeksha, Pandey, Shubhi, Dwivedi-Agnihotri, Hemlata, Rui, Xue, Cao, Yubo, Kawakami, Kouki, Kumari, Poonam, Chen, Yu-Chih, Luker, Kathryn E., Yadav, Prem N., Luker, Gary D., Laporte, Stéphane A., Chen, Xin, Inoue, Asuka, and Shukla, Arun K.
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- 2023
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5. TREM2+ and interstitial-like macrophages orchestrate airway inflammation in SARS-CoV-2 infection in rhesus macaques
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Upadhyay, Amit A., Viox, Elise G., Hoang, Timothy N., Boddapati, Arun K., Pino, Maria, Lee, Michelle Y.-H., Corry, Jacqueline, Strongin, Zachary, Cowan, David A., Beagle, Elizabeth N., Horton, Tristan R., Hamilton, Sydney, Aoued, Hadj, Harper, Justin L., Edwards, Christopher T., Nguyen, Kevin, Pellegrini, Kathryn L., Tharp, Gregory K., Piantadosi, Anne, Levit, Rebecca D., Amara, Rama R., Barratt-Boyes, Simon M., Ribeiro, Susan P., Sekaly, Rafick P., Vanderford, Thomas H., Schinazi, Raymond F., Paiardini, Mirko, and Bosinger, Steven E.
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- 2023
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6. Autonomous self-healing organic crystals for nonlinear optics
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Saikat Mondal, Pratap Tanari, Samrat Roy, Surojit Bhunia, Rituparno Chowdhury, Arun K. Pal, Ayan Datta, Bipul Pal, and C. Malla Reddy
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Science - Abstract
Abstract Non-centrosymmetric molecular crystals have a plethora of applications, such as piezoelectric transducers, energy storage and nonlinear optical materials owing to their unique structural order which is absent in other synthetic materials. As most crystals are brittle, their efficiency declines upon prolonged usage due to fatigue or catastrophic failure, limiting their utilities. Some natural substances, like bone, enamel, leaf and skin, function efficiently, last a life-time, thanks to their inherent self-healing nature. Therefore, incorporating self-healing ability in crystalline materials will greatly broaden their scope. Here, we report single crystals of a dibenzoate derivative, capable of self-healing within milliseconds via autonomous actuation. Systematic quantitative experiments reveal the limit of mechanical forces that the self-healing crystals can withstand. As a proof-of-concept, we also demonstrate that our self-healed crystals can retain their second harmonic generation (SHG) with high efficiency. Kinematic analysis of the actuation in our system also revealed its impressive performance parameters, and shows actuation response times in the millisecond range.
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- 2023
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7. Molecular insights into intrinsic transducer-coupling bias in the CXCR4-CXCR7 system
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Parishmita Sarma, Carlo Marion C. Carino, Deeksha Seetharama, Shubhi Pandey, Hemlata Dwivedi-Agnihotri, Xue Rui, Yubo Cao, Kouki Kawakami, Poonam Kumari, Yu-Chih Chen, Kathryn E. Luker, Prem N. Yadav, Gary D. Luker, Stéphane A. Laporte, Xin Chen, Asuka Inoue, and Arun K. Shukla
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Science - Abstract
Abstract Chemokine receptors constitute an important subfamily of G protein-coupled receptors (GPCRs), and they are critically involved in a broad range of immune response mechanisms. Ligand promiscuity among these receptors makes them an interesting target to explore multiple aspects of biased agonism. Here, we comprehensively characterize two chemokine receptors namely, CXCR4 and CXCR7, in terms of their transducer-coupling and downstream signaling upon their stimulation by a common chemokine agonist, CXCL12, and a small molecule agonist, VUF11207. We observe that CXCR7 lacks G-protein-coupling while maintaining robust βarr recruitment with a major contribution of GRK5/6. On the other hand, CXCR4 displays robust G-protein activation as expected but exhibits significantly reduced βarr-coupling compared to CXCR7. These two receptors induce distinct βarr conformations even when activated by the same agonist, and CXCR7, unlike CXCR4, fails to activate ERK1/2 MAP kinase. We also identify a key contribution of a single phosphorylation site in CXCR7 for βarr recruitment and endosomal localization. Our study provides molecular insights into intrinsic-bias encoded in the CXCR4-CXCR7 system with broad implications for drug discovery.
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- 2023
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8. Structural basis of intron selection by U2 snRNP in the presence of covalent inhibitors.
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Cretu, Constantin, Gee, Patricia, Liu, Xiang, Agrawal, Anant, Nguyen, Tuong-Vi, Ghosh, Arun K, Cook, Andrew, Jurica, Melissa, Larsen, Nicholas A, and Pena, Vladimir
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Spliceosomes ,Humans ,Lactones ,Pyrans ,Pyrones ,Spiro Compounds ,Ribonucleoprotein ,U2 Small Nuclear ,DNA ,Cryoelectron Microscopy ,Crystallography ,X-Ray ,Nucleic Acid Conformation ,Protein Conformation ,Protein Binding ,Introns ,Models ,Molecular - Abstract
Intron selection during the formation of prespliceosomes is a critical event in pre-mRNA splicing. Chemical modulation of intron selection has emerged as a route for cancer therapy. Splicing modulators alter the splicing patterns in cells by binding to the U2 snRNP (small nuclear ribonucleoprotein)-a complex chaperoning the selection of branch and 3' splice sites. Here we report crystal structures of the SF3B module of the U2 snRNP in complex with spliceostatin and sudemycin FR901464 analogs, and the cryo-electron microscopy structure of a cross-exon prespliceosome-like complex arrested with spliceostatin A. The structures reveal how modulators inactivate the branch site in a sequence-dependent manner and stall an E-to-A prespliceosome intermediate by covalent coupling to a nucleophilic zinc finger belonging to the SF3B subunit PHF5A. These findings support a mechanism of intron recognition by the U2 snRNP as a toehold-mediated strand invasion and advance an unanticipated drug targeting concept.
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- 2021
9. TREM2+ and interstitial-like macrophages orchestrate airway inflammation in SARS-CoV-2 infection in rhesus macaques
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Amit A. Upadhyay, Elise G. Viox, Timothy N. Hoang, Arun K. Boddapati, Maria Pino, Michelle Y.-H. Lee, Jacqueline Corry, Zachary Strongin, David A. Cowan, Elizabeth N. Beagle, Tristan R. Horton, Sydney Hamilton, Hadj Aoued, Justin L. Harper, Christopher T. Edwards, Kevin Nguyen, Kathryn L. Pellegrini, Gregory K. Tharp, Anne Piantadosi, Rebecca D. Levit, Rama R. Amara, Simon M. Barratt-Boyes, Susan P. Ribeiro, Rafick P. Sekaly, Thomas H. Vanderford, Raymond F. Schinazi, Mirko Paiardini, and Steven E. Bosinger
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Science - Abstract
‘The induction and coordination of immune cells in response to SARS-CoV-2 infection are critical in the immunopathology of COVID-19. Here the authors use a rhesus macaque model of SARS-CoV-2 infection and show key populations of macrophage drive the inflammatory cytokine production in the alveolar space’.
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- 2023
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10. Allosteric modulation of GPCR-induced β-arrestin trafficking and signaling by a synthetic intrabody
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Baidya, Mithu, Chaturvedi, Madhu, Dwivedi-Agnihotri, Hemlata, Ranjan, Ashutosh, Devost, Dominic, Namkung, Yoon, Stepniewski, Tomasz Maciej, Pandey, Shubhi, Baruah, Minakshi, Panigrahi, Bhanupriya, Sarma, Parishmita, Yadav, Manish K., Maharana, Jagannath, Banerjee, Ramanuj, Kawakami, Kouki, Inoue, Asuka, Selent, Jana, Laporte, Stéphane A., Hébert, Terence E., and Shukla, Arun K.
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- 2022
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11. Biphasic activation of β-arrestin 1 upon interaction with a GPCR revealed by methyl-TROSY NMR
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Shiraishi, Yutaro, Kofuku, Yutaka, Ueda, Takumi, Pandey, Shubhi, Dwivedi-Agnihotri, Hemlata, Shukla, Arun K., and Shimada, Ichio
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- 2021
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12. A small molecule compound with an indole moiety inhibits the main protease of SARS-CoV-2 and blocks virus replication
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Hattori, Shin-ichiro, Higashi-Kuwata, Nobuyo, Hayashi, Hironori, Allu, Srinivasa Rao, Raghavaiah, Jakka, Bulut, Haydar, Das, Debananda, Anson, Brandon J., Lendy, Emma K., Takamatsu, Yuki, Takamune, Nobutoki, Kishimoto, Naoki, Murayama, Kazutaka, Hasegawa, Kazuya, Li, Mi, Davis, David A., Kodama, Eiichi N., Yarchoan, Robert, Wlodawer, Alexander, Misumi, Shogo, Mesecar, Andrew D., Ghosh, Arun K., and Mitsuya, Hiroaki
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- 2021
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13. Receptor-targeted engineered probiotics mitigate lethal Listeria infection
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Drolia, Rishi, Amalaradjou, Mary Anne Roshni, Ryan, Valerie, Tenguria, Shivendra, Liu, Dongqi, Bai, Xingjian, Xu, Luping, Singh, Atul K., Cox, Abigail D., Bernal-Crespo, Victor, Schaber, James A., Applegate, Bruce M., Vemulapalli, Ramesh, and Bhunia, Arun K.
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- 2020
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14. Trade-off in membrane distillation with monolithic omniphobic membranes
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Wang, Wei, Du, Xuewei, Vahabi, Hamed, Zhao, Song, Yin, Yiming, Kota, Arun K., and Tong, Tiezheng
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- 2019
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15. Biphasic activation of β-arrestin 1 upon interaction with a GPCR revealed by methyl-TROSY NMR
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Yutaro Shiraishi, Yutaka Kofuku, Takumi Ueda, Shubhi Pandey, Hemlata Dwivedi-Agnihotri, Arun K. Shukla, and Ichio Shimada
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Multidisciplinary ,Magnetic Resonance Spectroscopy ,Science ,General Physics and Astronomy ,General Chemistry ,General Biochemistry, Genetics and Molecular Biology ,Article ,Receptors, G-Protein-Coupled ,beta-Arrestin 1 ,G protein-coupled receptors ,Protein Domains ,Humans ,Protein Conformation, beta-Strand ,Solution-state NMR ,Protein Binding - Abstract
β-arrestins (βarrs) play multifaceted roles in the function of G protein-coupled receptors (GPCRs). βarrs typically interact with phosphorylated C-terminal tail (C tail) and transmembrane core (TM core) of GPCRs. However, the effects of the C tail- and TM core-mediated interactions on the conformational activation of βarrs have remained elusive. Here, we show the conformational changes for βarr activation upon the C tail- and TM core-mediated interactions with a prototypical GPCR by nuclear magnetic resonance (NMR) spectroscopy. Our NMR analyses demonstrated that while the C tail-mediated interaction alone induces partial activation, in which βarr exists in equilibrium between basal and activated conformations, the TM core- and the C tail-mediated interactions together completely shift the equilibrium toward the activated conformation. The conformation-selective antibody, Fab30, promotes partially activated βarr into the activated-like conformation. This plasticity of βarr conformation in complex with GPCRs engaged in different binding modes may explain the multifunctionality of βarrs., β-arrestins commonly bind to two distinct elements in GPCRs: the phosphorylated carboxyl terminal tail (C tail) and the cytoplasmic face of the transmembrane region (TM core). Here, the authors use methyl-TROSY NMR measurements to characterise the interactions between β-arrestin 1 (βarr1) and a GPCR and observe that C tail-mediated interaction with a GPCR alone induces the partial activation of βarr1, whereas the TM core- and C tail-mediated interactions together stabilize the activated conformation of βarr1.
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- 2021
16. Room-temperature mechanocaloric effects in lithium-based superionic materials
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Sagotra, Arun K., Chu, Dewei, and Cazorla, Claudio
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- 2018
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17. TREM2+ and interstitial-like macrophages orchestrate airway inflammation in SARS-CoV-2 infection in rhesus macaques.
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Upadhyay, Amit A., Viox, Elise G., Hoang, Timothy N., Boddapati, Arun K., Pino, Maria, Lee, Michelle Y.-H., Corry, Jacqueline, Strongin, Zachary, Cowan, David A., Beagle, Elizabeth N., Horton, Tristan R., Hamilton, Sydney, Aoued, Hadj, Harper, Justin L., Edwards, Christopher T., Nguyen, Kevin, Pellegrini, Kathryn L., Tharp, Gregory K., Piantadosi, Anne, and Levit, Rebecca D.
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MACAQUES ,RHESUS monkeys ,SARS-CoV-2 ,KILLER cells ,MACROPHAGES ,IMMUNE system ,DENDRITIC cells - Abstract
The immunopathological mechanisms driving the development of severe COVID-19 remain poorly defined. Here, we utilize a rhesus macaque model of acute SARS-CoV-2 infection to delineate perturbations in the innate immune system. SARS-CoV-2 initiates a rapid infiltration of plasmacytoid dendritic cells into the lower airway, commensurate with IFNA production, natural killer cell activation, and a significant increase of blood CD14
- CD16+ monocytes. To dissect the contribution of lung myeloid subsets to airway inflammation, we generate a longitudinal scRNA-Seq dataset of airway cells, and map these subsets to corresponding populations in the human lung. SARS-CoV-2 infection elicits a rapid recruitment of two macrophage subsets: CD163+ MRC1- , and TREM2+ populations that are the predominant source of inflammatory cytokines. Treatment with baricitinib (Olumiant®), a JAK1/2 inhibitor is effective in eliminating the influx of non-alveolar macrophages, with a reduction of inflammatory cytokines. This study delineates the major lung macrophage subsets driving airway inflammation during SARS-CoV-2 infection. 'The induction and coordination of immune cells in response to SARS-CoV-2 infection are critical in the immunopathology of COVID-19. Here the authors use a rhesus macaque model of SARS-CoV-2 infection and show key populations of macrophage drive the inflammatory cytokine production in the alveolar space'. [ABSTRACT FROM AUTHOR]- Published
- 2023
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18. Alterations in ALK/ROS1/NTRK/MET drive a group of infantile hemispheric gliomas
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Elisabeth J. Rushing, Bruce Crooks, Scott L. Coven, Uri Tabori, Eric Bouffet, Claire Li, Christopher Li, Josef Zamecnik, Ute Bartels, Cynthia Hawkins, P. Daniel McNeely, Inmaculada de Prada, Michael Brudno, Michael D. Taylor, Bev Wilson, Claudia C. Faria, Livia Garzia, Vijay Ramaswamy, Lenka Krskova, Christopher Dunham, Roberto Silva, Andres Morales La Madrid, Sylvia Cheng, Ofelia Cruz, Arun K. Ramani, Michael A. Grotzer, Donna L. Johnston, Jonathan L. Finlay, David Sumerauer, Maria Joao Gil-da-Costa, Scott Ryall, Ana Guerreiro Stucklin, Yvonne Zhong, Pasqualino De Antonellis, Anthony Arnoldo, Daniel R. Boue, Koichi Ichimura, Miguel Garcia Ariza, Jean Michaud, Marta Perez-Somarriba, Motoo Nagane, Frank van Landeghem, Kohei Fukuoka, Hiroaki Sakamoto, Paul E. Kowalski, Meredith S. Irwin, Michal Zapotocky, Taylor Bridge, Iris Fried, Liana Nobre, Monique Johnson, Jordan R. Hansford, Robert Siddaway, Mary Shago, Nataliya Zhukova, Byungjin Kim, Palma Solano, Yoshiko Nakano, Keita Terashima, Alvaro Lassaletta, Angelica Oviedo, Amulya NageswaraRao, Repositório da Universidade de Lisboa, Guerreiro Stucklin, A. S., Ryall, S., Fukuoka, K., Zapotocky, M., Lassaletta, A., Li, C., Bridge, T., Kim, B., Arnoldo, A., Kowalski, P. E., Zhong, Y., Johnson, M., Ramani, A. K., Siddaway, R., Nobre, L. F., de Antonellis, P., Dunham, C., Cheng, S., Boue, D. R., Finlay, J. L., Coven, S. L., de Prada, I., Perez-Somarriba, M., Faria, C. C., Grotzer, M. A., Rushing, E., Sumerauer, D., Zamecnik, J., Krskova, L., Garcia Ariza, M., Cruz, O., Morales La Madrid, A., Solano, P., Terashima, K., Nakano, Y., Ichimura, K., Nagane, M., Sakamoto, H., Gil-da-Costa, M. J., Silva, R., Johnston, D. L., Michaud, J., Wilson, B., van Landeghem, F. K. H., Oviedo, A., Mcneely, P. D., Crooks, B., Fried, I., Zhukova, N., Hansford, J. R., Nageswararao, A., Garzia, L., Shago, M., Brudno, M., Irwin, M. S., Bartels, U., Ramaswamy, V., Bouffet, E., Taylor, M. D., Tabori, U., and Hawkins, C.
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MAPK/ERK pathway ,Oncology ,Epigenomics ,Male ,General Physics and Astronomy ,Whole Exome Sequencing ,Receptor tyrosine kinase ,0302 clinical medicine ,Protein-Tyrosine Kinase ,Cancer genomics ,Anaplastic lymphoma kinase ,Anaplastic Lymphoma Kinase ,lcsh:Science ,Exome sequencing ,Proto-Oncogene Protein ,Multidisciplinary ,Molecular medicine ,biology ,Brain Neoplasms ,Glioma ,Protein-Tyrosine Kinases ,Proto-Oncogene Proteins c-met ,Receptor Protein-Tyrosine Kinase ,Gene Expression Regulation, Neoplastic ,030220 oncology & carcinogenesis ,Female ,Survival Analysi ,Human ,medicine.medical_specialty ,Epigenomic ,Science ,Article ,General Biochemistry, Genetics and Molecular Biology ,Brain Neoplasm ,03 medical and health sciences ,Internal medicine ,Proto-Oncogene Proteins ,Exome Sequencing ,medicine ,ROS1 ,Humans ,Receptor, trkA ,Survival analysis ,business.industry ,Infant, Newborn ,Infant ,Receptor Protein-Tyrosine Kinases ,General Chemistry ,DNA Methylation ,medicine.disease ,Survival Analysis ,biology.protein ,lcsh:Q ,business ,030217 neurology & neurosurgery - Abstract
© The Author(s) 2019. Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/., Infant gliomas have paradoxical clinical behavior compared to those in children and adults: low-grade tumors have a higher mortality rate, while high-grade tumors have a better outcome. However, we have little understanding of their biology and therefore cannot explain this behavior nor what constitutes optimal clinical management. Here we report a comprehensive genetic analysis of an international cohort of clinically annotated infant gliomas, revealing 3 clinical subgroups. Group 1 tumors arise in the cerebral hemispheres and harbor alterations in the receptor tyrosine kinases ALK, ROS1, NTRK and MET. These are typically single-events and confer an intermediate outcome. Groups 2 and 3 gliomas harbor RAS/MAPK pathway mutations and arise in the hemispheres and midline, respectively. Group 2 tumors have excellent long-term survival, while group 3 tumors progress rapidly and do not respond well to chemoradiation. We conclude that infant gliomas comprise 3 subgroups, justifying the need for specialized therapeutic strategies.
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- 2019
19. Receptor-targeted engineered probiotics mitigate lethal Listeria infection
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Valerie Ryan, Atul K. Singh, Dongqi Liu, Shivendra Tenguria, Arun K. Bhunia, James A. Schaber, Mary Anne Roshni Amalaradjou, Luping Xu, Ramesh Vemulapalli, Xingjian Bai, Rishi Drolia, Bruce Applegate, Victor Bernal-Crespo, and Abigail Cox
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0301 basic medicine ,T-Lymphocytes ,Administration, Oral ,General Physics and Astronomy ,Diseases ,medicine.disease_cause ,Bacterial Adhesion ,law.invention ,Mice ,Probiotic ,law ,Lactobacillus ,Listeriosis ,Multidisciplinary ,biology ,digestive, oral, and skin physiology ,NF-kappa B ,food and beverages ,FOXP3 ,Forkhead Transcription Factors ,Intestines ,Killer Cells, Natural ,Lacticaseibacillus casei ,Female ,Pathogens ,Lactobacillus casei ,Listeria ,Science ,030106 microbiology ,Listeria infection ,Microbiology ,Article ,General Biochemistry, Genetics and Molecular Biology ,Cell Line ,03 medical and health sciences ,Bacterial Proteins ,Listeria monocytogenes ,Heat shock protein ,medicine ,Animals ,Humans ,Myosin-Light-Chain Kinase ,Probiotics ,Bacteriology ,Chaperonin 60 ,Dendritic Cells ,General Chemistry ,biology.organism_classification ,medicine.disease ,CD11c Antigen ,Disease Models, Animal ,030104 developmental biology - Abstract
Probiotic bacteria reduce the intestinal colonization of pathogens. Yet, their use in preventing fatal infection caused by foodborne Listeria monocytogenes (Lm), is inconsistent. Here, we bioengineered Lactobacillus probiotics (BLP) to express the Listeria adhesion protein (LAP) from a non-pathogenic Listeria (L. innocua) and a pathogenic Listeria (Lm) on the surface of Lactobacillus casei. The BLP strains colonize the intestine, reduce Lm mucosal colonization and systemic dissemination, and protect mice from lethal infection. The BLP competitively excludes Lm by occupying the surface presented LAP receptor, heat shock protein 60 and ameliorates the Lm-induced intestinal barrier dysfunction by blocking the nuclear factor-κB and myosin light chain kinase-mediated redistribution of the major epithelial junctional proteins. Additionally, the BLP increases intestinal immunomodulatory functions by recruiting FOXP3+T cells, CD11c+ dendritic cells and natural killer cells. Engineering a probiotic strain with an adhesion protein from a non-pathogenic bacterium provides a new paradigm to exclude pathogens and amplify their inherent health benefits., Here, the authors characterize the effects of Lactobacillus casei strains engineered to express pathogenic or non-pathogenic Listeria adhesion protein (LAP) in systemic colonization and protection against lethal Listeria monocytogenes infection in mice and show that these engineered strains can colonize the intestine and prevent dissemination of L. monocytogenes and protect against lethal infection while promoting immunomodulatory effects.
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- 2020
20. A small molecule compound with an indole moiety inhibits the main protease of SARS-CoV-2 and blocks virus replication
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Srinivasa Rao Allu, Emma K. Lendy, Jakka Raghavaiah, Alexander Wlodawer, Arun K. Ghosh, Debananda Das, David A. Davis, Kazutaka Murayama, Hiroaki Mitsuya, Shogo Misumi, Yuki Takamatsu, Nobuyo Higashi-Kuwata, Mi Li, Brandon J. Anson, Hironori Hayashi, Kazuya Hasegawa, Naoki Kishimoto, Nobutoki Takamune, Shin ichiro Hattori, Eiichi Kodama, Robert Yarchoan, Haydar Bulut, and Andrew D. Mesecar
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0301 basic medicine ,Indoles ,Pyridines ,Science ,medicine.medical_treatment ,viruses ,General Physics and Astronomy ,Antiviral Agents ,General Biochemistry, Genetics and Molecular Biology ,Article ,Cell Line ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,Chlorocebus aethiops ,medicine ,Moiety ,Animals ,Humans ,Vero Cells ,Indole test ,Multidisciplinary ,Protease ,Alanine ,biology ,Chemistry ,SARS-CoV-2 ,Viral Proteases ,Antimicrobials ,Active site ,virus diseases ,General Chemistry ,Small molecule ,In vitro ,Adenosine Monophosphate ,COVID-19 Drug Treatment ,030104 developmental biology ,Coronavirus Protease Inhibitors ,Viral replication ,Biochemistry ,030220 oncology & carcinogenesis ,Indoline ,biology.protein - Abstract
Except remdesivir, no specific antivirals for SARS-CoV-2 infection are currently available. Here, we characterize two small-molecule-compounds, named GRL-1720 and 5h, containing an indoline and indole moiety, respectively, which target the SARS-CoV-2 main protease (Mpro). We use VeroE6 cell-based assays with RNA-qPCR, cytopathic assays, and immunocytochemistry and show both compounds to block the infectivity of SARS-CoV-2 with EC50 values of 15 ± 4 and 4.2 ± 0.7 μM for GRL-1720 and 5h, respectively. Remdesivir permitted viral breakthrough at high concentrations; however, compound 5h completely blocks SARS-CoV-2 infection in vitro without viral breakthrough or detectable cytotoxicity. Combination of 5h and remdesivir exhibits synergism against SARS-CoV-2. Additional X-ray structural analysis show that 5h forms a covalent bond with Mpro and makes polar interactions with multiple active site amino acid residues. The present data suggest that 5h might serve as a lead Mpro inhibitor for the development of therapeutics for SARS-CoV-2 infection., Here, using in vitro assays and structural analysis, the authors characterize the anti-SARS-CoV-2 properties of two small molcules, showing these to bind and target the virus main protease (Mpro), and to exhibit a synergistic antiviral effect when combined with remdesivir in vitro.
- Published
- 2020
21. Tamoxifen therapy in a murine model of myotubular myopathy
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Michael Brudno, Nadine M. Eltayeb, Robert T. Dirksen, James J. Dowling, Faranak Mavandadnejad, Nika Maani, Giulia Russo, Kamran Rezai, Linda Groom, Andrea Pang, Volker Haucke, Arun K. Ramani, and Nesrin Sabha
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Male ,0301 basic medicine ,Science ,Longevity ,Drug Evaluation, Preclinical ,Gene Expression ,General Physics and Astronomy ,Estrogen receptor ,Protein tyrosine phosphatase ,Motor Activity ,Protective Agents ,Article ,General Biochemistry, Genetics and Molecular Biology ,Dynamin II ,Mice ,03 medical and health sciences ,Myofibrils ,In vivo ,Gene expression ,medicine ,Animals ,Humans ,Muscle, Skeletal ,Receptor ,lcsh:Science ,Excitation Contraction Coupling ,Mice, Knockout ,Multidisciplinary ,Estradiol ,business.industry ,High-Throughput Nucleotide Sequencing ,General Chemistry ,Protein Tyrosine Phosphatases, Non-Receptor ,Phenotype ,In vitro ,3. Good health ,Disease Models, Animal ,Tamoxifen ,030104 developmental biology ,Receptors, Estrogen ,Cancer research ,Female ,lcsh:Q ,business ,hormones, hormone substitutes, and hormone antagonists ,Myopathies, Structural, Congenital ,medicine.drug - Abstract
Myotubular myopathy (MTM) is a severe X-linked disease without existing therapies. Here, we show that tamoxifen ameliorates MTM-related histopathological and functional abnormalities in mice, and nearly doubles survival. The beneficial effects of tamoxifen are mediated primarily via estrogen receptor signaling, as demonstrated through in vitro studies and in vivo phenotypic rescue with estradiol. RNA sequencing and protein expression analyses revealed that rescue is mediated in part through post-transcriptional reduction of dynamin-2, a known MTM modifier. These findings demonstrate an unexpected ability of tamoxifen to improve the murine MTM phenotype, providing preclinical evidence to support clinical translation., Myotubular myopathy is a severe muscle disease for which no effective treatment exists. Here, the authors show that tamoxifen ameliorates pathology and extends survival in a mouse model of the disease, and that the effect is mediated via estrogen receptor signaling and involves modulation of DNM2 expression.
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- 2018
22. Trade-off in membrane distillation with monolithic omniphobic membranes
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Hamed Vahabi, Yiming Yin, Arun K. Kota, Tiezheng Tong, Xuewei Du, Wei Wang, and Song Zhao
- Subjects
0301 basic medicine ,Materials science ,Fabrication ,Science ,General Physics and Astronomy ,Wetting ,Nanotechnology ,02 engineering and technology ,Membrane distillation ,complex mixtures ,Desalination ,Article ,Permeability ,General Biochemistry, Genetics and Molecular Biology ,Water Purification ,03 medical and health sciences ,Chemical engineering ,lcsh:Science ,Distillation ,Design framework ,Multidisciplinary ,technology, industry, and agriculture ,Membranes, Artificial ,General Chemistry ,equipment and supplies ,021001 nanoscience & nanotechnology ,Mechanical engineering ,6. Clean water ,Steam ,030104 developmental biology ,Membrane ,Permeability (electromagnetism) ,Wettability ,Water vapor permeability ,lcsh:Q ,0210 nano-technology - Abstract
Omniphobic membranes are attractive for membrane distillation (MD) because of their superior wetting resistance. However, a design framework for MD membrane remains incomplete, due to the complexity of omniphobic membrane fabrication and the lack of fundamental relationship between wetting resistance and water vapor permeability. Here we present a particle-free approach that enables rapid fabrication of monolithic omniphobic membranes for MD desalination. Our monolithic omniphobic membranes display excellent wetting resistance and water purification performance in MD desalination of hypersaline feedwater containing surfactants. We identify that a trade-off exists between wetting resistance and water vapor permeability of our monolithic MD membranes. Utilizing membranes with tunable wetting resistance and permeability, we elucidate the underlying mechanism of such trade-off. We envision that our fabrication method as well as the mechanistic insight into the wetting resistance-vapor permeability trade-off will pave the way for smart design of MD membranes in diverse water purification applications., Omniphobic membranes are attractive for membrane distillation because of their superior wetting resistance. Here the authors develop a particle-free approach for rapid fabrication of monolithic omniphobic membranes and elucidate the underlying mechanism of wetting resistance-vapor permeability trade-off in membrane distillation desalination.
- Published
- 2019
23. Room-temperature mechanocaloric effects in lithium-based superionic materials
- Author
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Arun K. Sagotra, Claudio Cazorla, and Dewei Chu
- Subjects
Structural phase ,Multidisciplinary ,Materials science ,Caloric response ,Science ,General Physics and Astronomy ,Thermodynamics ,02 engineering and technology ,General Chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,General Biochemistry, Genetics and Molecular Biology ,Article ,Conductor ,0103 physical sciences ,Fast ion conductor ,Ionic conductivity ,lcsh:Q ,010306 general physics ,0210 nano-technology ,lcsh:Science - Abstract
Mechanocaloric materials undergo sizable temperature changes during stress-induced phase transformations and hence are highly sought after for solid-state cooling applications. Most known mechanocaloric materials, however, operate at non-ambient temperatures and involve first-order structural transitions that pose practical cyclability issues. Here, we demonstrate large room-temperature mechanocaloric effects in the absence of any structural phase transformation in the fast-ion conductor Li3N (|ΔS| ~ 25 J K−1 kg−1 and |ΔT| ~ 5 K). Depending on whether the applied stress is hydrostatic or uniaxial the resulting caloric effect is either direct (ΔT > 0) or inverse (ΔT, Large mechanocaloric effects are disclosed in lithium-ion superionic conductors at room temperature. These occur in the absence of any structural phase transition, which is beneficial from a practical point of view, and are related to stress-induced variations in the ionic conductivity.
- Published
- 2018
24. Alterations in ALK/ROS1/NTRK/MET drive a group of infantile hemispheric gliomas
- Author
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Guerreiro Stucklin, Ana S., primary, Ryall, Scott, additional, Fukuoka, Kohei, additional, Zapotocky, Michal, additional, Lassaletta, Alvaro, additional, Li, Christopher, additional, Bridge, Taylor, additional, Kim, Byungjin, additional, Arnoldo, Anthony, additional, Kowalski, Paul E., additional, Zhong, Yvonne, additional, Johnson, Monique, additional, Li, Claire, additional, Ramani, Arun K., additional, Siddaway, Robert, additional, Nobre, Liana Figueiredo, additional, de Antonellis, Pasqualino, additional, Dunham, Christopher, additional, Cheng, Sylvia, additional, Boué, Daniel R., additional, Finlay, Jonathan L., additional, Coven, Scott L., additional, de Prada, Inmaculada, additional, Perez-Somarriba, Marta, additional, Faria, Claudia C., additional, Grotzer, Michael A., additional, Rushing, Elisabeth, additional, Sumerauer, David, additional, Zamecnik, Josef, additional, Krskova, Lenka, additional, Garcia Ariza, Miguel, additional, Cruz, Ofelia, additional, Morales La Madrid, Andres, additional, Solano, Palma, additional, Terashima, Keita, additional, Nakano, Yoshiko, additional, Ichimura, Koichi, additional, Nagane, Motoo, additional, Sakamoto, Hiroaki, additional, Gil-da-Costa, Maria Joao, additional, Silva, Roberto, additional, Johnston, Donna L., additional, Michaud, Jean, additional, Wilson, Bev, additional, van Landeghem, Frank K. H., additional, Oviedo, Angelica, additional, McNeely, P. Daniel, additional, Crooks, Bruce, additional, Fried, Iris, additional, Zhukova, Nataliya, additional, Hansford, Jordan R., additional, Nageswararao, Amulya, additional, Garzia, Livia, additional, Shago, Mary, additional, Brudno, Michael, additional, Irwin, Meredith S., additional, Bartels, Ute, additional, Ramaswamy, Vijay, additional, Bouffet, Eric, additional, Taylor, Michael D., additional, Tabori, Uri, additional, and Hawkins, Cynthia, additional
- Published
- 2019
- Full Text
- View/download PDF
25. Mechanocaloric effects in superionic thin films from atomistic simulations
- Author
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Daniel Errandonea, Arun K. Sagotra, and Claudio Cazorla
- Subjects
Materials science ,Science ,General Physics and Astronomy ,Ionic bonding ,02 engineering and technology ,Cooling capacity ,01 natural sciences ,General Biochemistry, Genetics and Molecular Biology ,Article ,chemistry.chemical_compound ,0103 physical sciences ,Thin film ,lcsh:Science ,010306 general physics ,Adiabatic process ,Electrical conductor ,Multidisciplinary ,Silver iodide ,Refrigeration ,Biaxial tensile test ,General Chemistry ,021001 nanoscience & nanotechnology ,chemistry ,Chemical physics ,lcsh:Q ,0210 nano-technology - Abstract
Solid-state cooling is an energy-efficient and scalable refrigeration technology that exploits the adiabatic variation of a crystalline order parameter under an external field (electric, magnetic, or mechanic). The mechanocaloric effect bears one of the greatest cooling potentials in terms of energy efficiency owing to its large available latent heat. Here we show that giant mechanocaloric effects occur in thin films of well-known families of fast-ion conductors, namely Li-rich (Li3OCl) and type-I (AgI), an abundant class of materials that routinely are employed in electrochemistry cells. Our simulations reveal that at room temperature AgI undergoes an adiabatic temperature shift of 38 K under a biaxial stress of 1 GPa. Likewise, Li3OCl displays a cooling capacity of 9 K under similar mechanical conditions although at a considerably higher temperature. We also show that ionic vacancies have a detrimental effect on the cooling performance of superionic thin films. Our findings should motivate experimental mechanocaloric searches in a wide variety of already known superionic materials., Mechanocaloric effects are a promising path towards solid-state cooling. Here the authors perform atomistic simulations on the well-known fast-ion conductor silver iodide and computationally predict a sizeable mechanocaloric effect under biaxial strain.
- Published
- 2017
26. Functional competence of a partially engaged GPCR–β-arrestin complex
- Author
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Punita Kumari, Charu Gupta, Ravi Ranjan, Arun K. Shukla, Xin Chen, Ashish Srivastava, Ramanuj Banerjee, Eshan Ghosh, Deepika Jaiman, Bhagyashri Gupta, and Pragya Gupta
- Subjects
0301 basic medicine ,Science ,Carbazoles ,General Physics and Astronomy ,Biology ,Endocytosis ,Bioinformatics ,environment and public health ,Article ,General Biochemistry, Genetics and Molecular Biology ,Receptors, G-Protein-Coupled ,Propanolamines ,03 medical and health sciences ,0302 clinical medicine ,Cell surface receptor ,Arrestin ,Humans ,Phosphorylation ,Receptor ,beta-Arrestins ,G protein-coupled receptor ,Multidisciplinary ,General Chemistry ,Transmembrane protein ,Cell biology ,Molecular Docking Simulation ,HEK293 Cells ,030104 developmental biology ,Signalling ,Carvedilol ,hormones, hormone substitutes, and hormone antagonists ,030217 neurology & neurosurgery ,Protein Binding ,Signal Transduction - Abstract
G Protein-coupled receptors (GPCRs) constitute the largest family of cell surface receptors and drug targets. GPCR signalling and desensitization is critically regulated by β-arrestins (βarr). GPCR–βarr interaction is biphasic where the phosphorylated carboxyl terminus of GPCRs docks to the N-domain of βarr first and then seven transmembrane core of the receptor engages with βarr. It is currently unknown whether fully engaged GPCR–βarr complex is essential for functional outcomes or partially engaged complex can also be functionally competent. Here we assemble partially and fully engaged complexes of a chimeric β2V2R with βarr1, and discover that the core interaction is dispensable for receptor endocytosis, ERK MAP kinase binding and activation. Furthermore, we observe that carvedilol, a βarr biased ligand, does not promote detectable engagement between βarr1 and the receptor core. These findings uncover a previously unknown aspect of GPCR-βarr interaction and provide novel insights into GPCR signalling and regulatory paradigms., β-arrestins initially contact with the phosphorylated carboxyl-terminus of GPCRs before engaging with the GPCR core. Here, the authors use a chimeric GPCR partially and fully engaged with β-arrestin1 and show that the core interaction is dispensable for receptor endocytosis and signalling.
- Published
- 2016
27. Mechanocaloric effects in superionic thin films from atomistic simulations
- Author
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Sagotra, Arun K., primary, Errandonea, Daniel, additional, and Cazorla, Claudio, additional
- Published
- 2017
- Full Text
- View/download PDF
28. Functional competence of a partially engaged GPCR–β-arrestin complex
- Author
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Kumari, Punita, primary, Srivastava, Ashish, additional, Banerjee, Ramanuj, additional, Ghosh, Eshan, additional, Gupta, Pragya, additional, Ranjan, Ravi, additional, Chen, Xin, additional, Gupta, Bhagyashri, additional, Gupta, Charu, additional, Jaiman, Deepika, additional, and Shukla, Arun K., additional
- Published
- 2016
- Full Text
- View/download PDF
29. Hygro-responsive membranes for effective oil–water separation
- Author
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Arun K. Kota, Wonjae Choi, Anish Tuteja, Gibum Kwon, and Joseph M. Mabry
- Subjects
Multidisciplinary ,Membrane ,Materials science ,Fouling ,Chemical engineering ,Capillary action ,Superhydrophilicity ,Separation (aeronautics) ,Oil spill ,General Physics and Astronomy ,Oil water ,General Chemistry ,General Biochemistry, Genetics and Molecular Biology - Abstract
There is a critical need for new energy-efficient solutions to separate oil-water mixtures, especially those stabilized by surfactants. Traditional membrane-based separation technologies are energy-intensive and limited, either by fouling or by the inability of a single membrane to separate all types of oil-water mixtures. Here we report membranes with hygro-responsive surfaces, which are both superhydrophilic and superoleophobic, in air and under water. Our membranes can separate, for the first time, a range of different oil-water mixtures in a single-unit operation, with >99.9% separation efficiency, by using the difference in capillary forces acting on the two phases. Our separation methodology is solely gravity-driven and consequently is expected to be highly energy-efficient. We anticipate that our separation methodology will have numerous applications, including the clean-up of oil spills, wastewater treatment, fuel purification and the separation of commercially relevant emulsions.
- Published
- 2012
30. Molecular mechanics of mineralized collagen fibrils in bone
- Author
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Nair, Arun K., primary, Gautieri, Alfonso, additional, Chang, Shu-Wei, additional, and Buehler, Markus J., additional
- Published
- 2013
- Full Text
- View/download PDF
31. Hygro-responsive membranes for effective oil–water separation
- Author
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Kota, Arun K., primary, Kwon, Gibum, additional, Choi, Wonjae, additional, Mabry, Joseph M., additional, and Tuteja, Anish, additional
- Published
- 2012
- Full Text
- View/download PDF
32. Allosteric modulation of GPCR-induced β-arrestin trafficking and signaling by a synthetic intrabody
- Author
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Mithu Baidya, Madhu Chaturvedi, Hemlata Dwivedi-Agnihotri, Ashutosh Ranjan, Dominic Devost, Yoon Namkung, Tomasz Maciej Stepniewski, Shubhi Pandey, Minakshi Baruah, Bhanupriya Panigrahi, Parishmita Sarma, Manish K. Yadav, Jagannath Maharana, Ramanuj Banerjee, Kouki Kawakami, Asuka Inoue, Jana Selent, Stéphane A. Laporte, Terence E. Hébert, and Arun K. Shukla
- Subjects
Science - Abstract
G protein-coupled receptors (GPCRs) are integral membrane proteins and the largest class of drug targets in the human genome. Here, Baidya et al. show that a synthetic antibody can be used to modulate GPCR trafficking and signaling in live cells.
- Published
- 2022
- Full Text
- View/download PDF
33. Structural basis of intron selection by U2 snRNP in the presence of covalent inhibitors
- Author
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Constantin Cretu, Patricia Gee, Xiang Liu, Anant Agrawal, Tuong-Vi Nguyen, Arun K. Ghosh, Andrew Cook, Melissa Jurica, Nicholas A. Larsen, and Vladimir Pena
- Subjects
Science - Abstract
Chemical modulation of intron selection has emerged as a route for cancer therapy. Here, structures of the U2 snRNP’s SF3B module and of prespliceosome- both in complexes with splicing modulators- provide insight into the mechanisms of intron recognition and branch site inactivation.
- Published
- 2021
- Full Text
- View/download PDF
34. A small molecule compound with an indole moiety inhibits the main protease of SARS-CoV-2 and blocks virus replication
- Author
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Shin-ichiro Hattori, Nobuyo Higashi-Kuwata, Hironori Hayashi, Srinivasa Rao Allu, Jakka Raghavaiah, Haydar Bulut, Debananda Das, Brandon J. Anson, Emma K. Lendy, Yuki Takamatsu, Nobutoki Takamune, Naoki Kishimoto, Kazutaka Murayama, Kazuya Hasegawa, Mi Li, David A. Davis, Eiichi N. Kodama, Robert Yarchoan, Alexander Wlodawer, Shogo Misumi, Andrew D. Mesecar, Arun K. Ghosh, and Hiroaki Mitsuya
- Subjects
Science - Abstract
Here, using in vitro assays and structural analysis, the authors characterize the anti-SARS-CoV-2 properties of two small molcules, showing these to bind and target the virus main protease (Mpro), and to exhibit a synergistic antiviral effect when combined with remdesivir in vitro.
- Published
- 2021
- Full Text
- View/download PDF
35. Receptor-targeted engineered probiotics mitigate lethal Listeria infection
- Author
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Rishi Drolia, Mary Anne Roshni Amalaradjou, Valerie Ryan, Shivendra Tenguria, Dongqi Liu, Xingjian Bai, Luping Xu, Atul K. Singh, Abigail D. Cox, Victor Bernal-Crespo, James A. Schaber, Bruce M. Applegate, Ramesh Vemulapalli, and Arun K. Bhunia
- Subjects
Science - Abstract
Here, the authors characterize the effects of Lactobacillus casei strains engineered to express pathogenic or non-pathogenic Listeria adhesion protein (LAP) in systemic colonization and protection against lethal Listeria monocytogenes infection in mice and show that these engineered strains can colonize the intestine and prevent dissemination of L. monocytogenes and protect against lethal infection while promoting immunomodulatory effects.
- Published
- 2020
- Full Text
- View/download PDF
36. Alterations in ALK/ROS1/NTRK/MET drive a group of infantile hemispheric gliomas
- Author
-
Ana S. Guerreiro Stucklin, Scott Ryall, Kohei Fukuoka, Michal Zapotocky, Alvaro Lassaletta, Christopher Li, Taylor Bridge, Byungjin Kim, Anthony Arnoldo, Paul E. Kowalski, Yvonne Zhong, Monique Johnson, Claire Li, Arun K. Ramani, Robert Siddaway, Liana Figueiredo Nobre, Pasqualino de Antonellis, Christopher Dunham, Sylvia Cheng, Daniel R. Boué, Jonathan L. Finlay, Scott L. Coven, Inmaculada de Prada, Marta Perez-Somarriba, Claudia C. Faria, Michael A. Grotzer, Elisabeth Rushing, David Sumerauer, Josef Zamecnik, Lenka Krskova, Miguel Garcia Ariza, Ofelia Cruz, Andres Morales La Madrid, Palma Solano, Keita Terashima, Yoshiko Nakano, Koichi Ichimura, Motoo Nagane, Hiroaki Sakamoto, Maria Joao Gil-da-Costa, Roberto Silva, Donna L. Johnston, Jean Michaud, Bev Wilson, Frank K. H. van Landeghem, Angelica Oviedo, P. Daniel McNeely, Bruce Crooks, Iris Fried, Nataliya Zhukova, Jordan R. Hansford, Amulya Nageswararao, Livia Garzia, Mary Shago, Michael Brudno, Meredith S. Irwin, Ute Bartels, Vijay Ramaswamy, Eric Bouffet, Michael D. Taylor, Uri Tabori, and Cynthia Hawkins
- Subjects
Science - Abstract
Infant gliomas behave differently to their childhood or adult counterparts. Here, the authors perform a large-scale genetic analysis of these tumours, revealing genetic alterations which may offer therapeutic opportunities.
- Published
- 2019
- Full Text
- View/download PDF
37. Trade-off in membrane distillation with monolithic omniphobic membranes
- Author
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Wei Wang, Xuewei Du, Hamed Vahabi, Song Zhao, Yiming Yin, Arun K. Kota, and Tiezheng Tong
- Subjects
Science - Abstract
Omniphobic membranes are attractive for membrane distillation because of their superior wetting resistance. Here the authors develop a particle-free approach for rapid fabrication of monolithic omniphobic membranes and elucidate the underlying mechanism of wetting resistance-vapor permeability trade-off in membrane distillation desalination.
- Published
- 2019
- Full Text
- View/download PDF
38. Mechanocaloric effects in superionic thin films from atomistic simulations
- Author
-
Arun K. Sagotra, Daniel Errandonea, and Claudio Cazorla
- Subjects
Science - Abstract
Mechanocaloric effects are a promising path towards solid-state cooling. Here the authors perform atomistic simulations on the well-known fast-ion conductor silver iodide and computationally predict a sizeable mechanocaloric effect under biaxial strain.
- Published
- 2017
- Full Text
- View/download PDF
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