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Proteome-scale movements and compartment connectivity during the eukaryotic cell cycle Cell (IF 64.5) Pub Date : 2024-03-06 Athanasios Litsios, Benjamin T. Grys, Oren Z. Kraus, Helena Friesen, Catherine Ross, Myra Paz David Masinas, Duncan T. Forster, Mary T. Couvillion, Stefanie Timmermann, Maximilian Billmann, Chad Myers, Nils Johnsson, L. Stirling Churchman, Charles Boone, Brenda J. Andrews
Cell cycle progression relies on coordinated changes in the composition and subcellular localization of the proteome. By applying two distinct convolutional neural networks on images of millions of live yeast cells, we resolved proteome-level dynamics in both concentration and localization during the cell cycle, with resolution of ∼20 subcellular localization classes. We show that a quarter of the
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Neutrophil profiling illuminates anti-tumor antigen-presenting potency Cell (IF 64.5) Pub Date : 2024-03-05 Yingcheng Wu, Jiaqiang Ma, Xupeng Yang, Fang Nan, Tiancheng Zhang, Shuyi Ji, Dongning Rao, Hua Feng, Ke Gao, Xixi Gu, Shan Jiang, Guohe Song, Jiaomeng Pan, Mao Zhang, Yanan Xu, Shu Zhang, Yihui Fan, Xiaoying Wang, Jian Zhou, Li Yang, Jia Fan, Xiaoming Zhang, Qiang Gao
Neutrophils, the most abundant and efficient defenders against pathogens, exert opposing functions across cancer types. However, given their short half-life, it remains challenging to explore how neutrophils adopt specific fates in cancer. Here, we generated and integrated single-cell neutrophil transcriptomes from 17 cancer types (225 samples from 143 patients). Neutrophils exhibited extraordinary
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A mouse DRG genetic toolkit reveals morphological and physiological diversity of somatosensory neuron subtypes Cell (IF 64.5) Pub Date : 2024-03-04 Lijun Qi, Michael Iskols, David Shi, Pranav Reddy, Christopher Walker, Karina Lezgiyeva, Tiphaine Voisin, Mathias Pawlak, Vijay K. Kuchroo, Isaac M. Chiu, David D. Ginty, Nikhil Sharma
Dorsal root ganglia (DRG) somatosensory neurons detect mechanical, thermal, and chemical stimuli acting on the body. Achieving a holistic view of how different DRG neuron subtypes relay neural signals from the periphery to the CNS has been challenging with existing tools. Here, we develop and curate a mouse genetic toolkit that allows for interrogating the properties and functions of distinct cutaneous
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Structure-based design of non-hypertrophic apelin receptor modulator Cell (IF 64.5) Pub Date : 2024-02-29 Wei-Wei Wang, Su-Yu Ji, Wenjia Zhang, Junxia Zhang, Chenxi Cai, Rubi Hu, Shao-Kun Zang, Luwei Miao, Haomang Xu, Li-Nan Chen, Zongkuai Yang, Jia Guo, Jiao Qin, Dan-Dan Shen, Ping Liang, Yan Zhang, Yan Zhang
Apelin is a key hormone in cardiovascular homeostasis that activates the apelin receptor (APLNR), which is regarded as a promising therapeutic target for cardiovascular disease. However, adverse effects through the β-arrestin pathway limit its pharmacological use. Here, we report cryoelectron microscopy (cryo-EM) structures of APLNR-G complexes bound to three agonists with divergent signaling profiles
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Underdetected dispersal and extensive local transmission drove the 2022 mpox epidemic Cell (IF 64.5) Pub Date : 2024-02-29 Miguel I. Paredes, Nashwa Ahmed, Marlin Figgins, Vittoria Colizza, Philippe Lemey, John T. McCrone, Nicola Müller, Cécile Tran-Kiem, Trevor Bedford
The World Health Organization declared mpox a public health emergency of international concern in July 2022. To investigate global mpox transmission and population-level changes associated with controlling spread, we built phylogeographic and phylodynamic models to analyze MPXV genomes from five global regions together with air traffic and epidemiological data. Our models reveal community transmission
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Maternal inflammation regulates fetal emergency myelopoiesis Cell (IF 64.5) Pub Date : 2024-02-29 Amélie Collins, James W. Swann, Melissa A. Proven, Chandani M. Patel, Carl A. Mitchell, Monica Kasbekar, Paul V. Dellorusso, Emmanuelle Passegué
Neonates are highly susceptible to inflammation and infection. Here, we investigate how late fetal liver (FL) mouse hematopoietic stem and progenitor cells (HSPCs) respond to inflammation, testing the hypothesis that deficits in the engagement of emergency myelopoiesis (EM) pathways limit neutrophil output and contribute to perinatal neutropenia. We show that fetal HSPCs have limited production of
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Structurally divergent and recurrently mutated regions of primate genomes Cell (IF 64.5) Pub Date : 2024-02-29 Yafei Mao, William T. Harvey, David Porubsky, Katherine M. Munson, Kendra Hoekzema, Alexandra P. Lewis, Peter A. Audano, Allison Rozanski, Xiangyu Yang, Shilong Zhang, DongAhn Yoo, David S. Gordon, Tyler Fair, Xiaoxi Wei, Glennis A. Logsdon, Marina Haukness, Philip C. Dishuck, Hyeonsoo Jeong, Ricardo del Rosario, Vanessa L. Bauer, Will T. Fattor, Gregory K. Wilkerson, Yuxiang Mao, Yongyong Shi, Qiang
We sequenced and assembled using multiple long-read sequencing technologies the genomes of chimpanzee, bonobo, gorilla, orangutan, gibbon, macaque, owl monkey, and marmoset. We identified 1,338,997 lineage-specific fixed structural variants (SVs) disrupting 1,561 protein-coding genes and 136,932 regulatory elements, including the most complete set of human-specific fixed differences. We estimate that
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Five decades of genetics and genomics Cell (IF 64.5) Pub Date : 2024-02-29 T, h, e, , C, e, l, l, , E, d, i, t, o, r, i, a, l, , T, e, a, m
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Loss of epigenetic information as a cause of mammalian aging Cell (IF 64.5) Pub Date : 2024-02-29 Jae-Hyun Yang, Motoshi Hayano, Patrick T. Griffin, João A. Amorim, Michael S. Bonkowski, John K. Apostolides, Elias L. Salfati, Marco Blanchette, Elizabeth M. Munding, Mital Bhakta, Yap Ching Chew, Wei Guo, Xiaojing Yang, Sun Maybury-Lewis, Xiao Tian, Jaime M. Ross, Giuseppe Coppotelli, Margarita V. Meer, Ryan Rogers-Hammond, Daniel L. Vera, Yuancheng Ryan Lu, Jeffrey W. Pippin, Michael L. Creswell
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The CARD8 inflammasome dictates HIV/SIV pathogenesis and disease progression Cell (IF 64.5) Pub Date : 2024-02-29 Qiankun Wang, Kolin M. Clark, Ritudhwaj Tiwari, Nagarajan Raju, Gregory K. Tharp, Jeffrey Rogers, R. Alan Harris, Muthuswamy Raveendran, Steven E. Bosinger, Tricia H. Burdo, Guido Silvestri, Liang Shan
While CD4 T cell depletion is key to disease progression in people living with HIV and SIV-infected macaques, the mechanisms underlying this depletion remain incompletely understood, with most cell death involving uninfected cells. In contrast, SIV infection of “natural” hosts such as sooty mangabeys does not cause CD4 depletion and AIDS despite high-level viremia. Here, we report that the CARD8 inflammasome
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Ancient genomes and the evolutionary path of modern humans Cell (IF 64.5) Pub Date : 2024-02-29 E. Andrew Bennett, Qiaomei Fu
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An RNA polymerase that became a Swiss army knife Cell (IF 64.5) Pub Date : 2024-02-29 F. Vanessa Loiacono, Ralph Bock
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SnapShot: Eukaryotic ribosome biogenesis II Cell (IF 64.5) Pub Date : 2024-02-29 Ed Hurt, Janet Iwasa, Roland Beckmann
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Past, present, and future of CRISPR genome editing technologies Cell (IF 64.5) Pub Date : 2024-02-29 Martin Pacesa, Oana Pelea, Martin Jinek
Genome editing has been a transformative force in the life sciences and human medicine, offering unprecedented opportunities to dissect complex biological processes and treat the underlying causes of many genetic diseases. CRISPR-based technologies, with their remarkable efficiency and easy programmability, stand at the forefront of this revolution. In this Review, we discuss the current state of CRISPR
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A cryptic plasmid is among the most numerous genetic elements in the human gut Cell (IF 64.5) Pub Date : 2024-02-29 Emily C. Fogarty, Matthew S. Schechter, Karen Lolans, Madeline L. Sheahan, Iva Veseli, Ryan M. Moore, Evan Kiefl, Thomas Moody, Phoebe A. Rice, Michael K. Yu, Mark Mimee, Eugene B. Chang, Hans-Joachim Ruscheweyh, Shinichi Sunagawa, Sandra L. Mclellan, Amy D. Willis, Laurie E. Comstock, A. Murat Eren
Plasmids are extrachromosomal genetic elements that often encode fitness-enhancing features. However, many bacteria carry “cryptic” plasmids that do not confer clear beneficial functions. We identified one such cryptic plasmid, pBI143, which is ubiquitous across industrialized gut microbiomes and is 14 times as numerous as crAssphage, currently established as the most abundant extrachromosomal genetic
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From genomic threat assessment to conservation action Cell (IF 64.5) Pub Date : 2024-02-29 Tom van der Valk, Love Dalén
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Structure of the plant plastid-encoded RNA polymerase Cell (IF 64.5) Pub Date : 2024-02-29 Ángel Vergara-Cruces, Ishika Pramanick, David Pearce, Vinod K. Vogirala, Matthew J. Byrne, Jason K.K. Low, Michael W. Webster
Chloroplast genes encoding photosynthesis-associated proteins are predominantly transcribed by the plastid-encoded RNA polymerase (PEP). PEP is a multi-subunit complex composed of plastid-encoded subunits similar to bacterial RNA polymerases (RNAPs) stably bound to a set of nuclear-encoded PEP-associated proteins (PAPs). PAPs are essential to PEP activity and chloroplast biogenesis, but their roles
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Rapid simulation of glycoprotein structures by grafting and steric exclusion of glycan conformer libraries Cell (IF 64.5) Pub Date : 2024-02-29 Yu-Xi Tsai, Ning-En Chang, Klaus Reuter, Hao-Ting Chang, Tzu-Jing Yang, Sören von Bülow, Vidhi Sehrawat, Noémie Zerrouki, Matthieu Tuffery, Michael Gecht, Isabell Louise Grothaus, Lucio Colombi Ciacchi, Yong-Sheng Wang, Min-Feng Hsu, Kay-Hooi Khoo, Gerhard Hummer, Shang-Te Danny Hsu, Cyril Hanus, Mateusz Sikora
Most membrane proteins are modified by covalent addition of complex sugars through N- and O-glycosylation. Unlike proteins, glycans do not typically adopt specific secondary structures and remain very mobile, shielding potentially large fractions of protein surface. High glycan conformational freedom hinders complete structural elucidation of glycoproteins. Computer simulations may be used to model
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Cryo-EM structures of the plant plastid-encoded RNA polymerase Cell (IF 64.5) Pub Date : 2024-02-29 Xiao-Xian Wu, Wen-Hui Mu, Fan Li, Shu-Yi Sun, Chao-Jun Cui, Chanhong Kim, Fei Zhou, Yu Zhang
Chloroplasts are green plastids in the cytoplasm of eukaryotic algae and plants responsible for photosynthesis. The plastid-encoded RNA polymerase (PEP) plays an essential role during chloroplast biogenesis from proplastids and functions as the predominant RNA polymerase in mature chloroplasts. The PEP-centered transcription apparatus comprises a bacterial-origin PEP core and more than a dozen eukaryotic-origin
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Genetic and molecular architecture of complex traits Cell (IF 64.5) Pub Date : 2024-02-29 Tuuli Lappalainen, Yang I. Li, Sohini Ramachandran, Alexander Gusev
Human genetics has emerged as one of the most dynamic areas of biology, with a broadening societal impact. In this review, we discuss recent achievements, ongoing efforts, and future challenges in the field. Advances in technology, statistical methods, and the growing scale of research efforts have all provided many insights into the processes that have given rise to the current patterns of genetic
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Response to: The information theory of aging has not been tested Cell (IF 64.5) Pub Date : 2024-02-29 Jae-Hyun Yang, Motoshi Hayano, Luis A. Rajman, David A. Sinclair
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The information theory of aging has not been tested Cell (IF 64.5) Pub Date : 2024-02-29 James A. Timmons, Charles Brenner
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Paul Berg and the origins of recombinant DNA Cell (IF 64.5) Pub Date : 2024-02-29 Doogab Yi, Janet E. Mertz
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Londa Schiebinger Cell (IF 64.5) Pub Date : 2024-02-27 L, o, n, d, a, , S, c, h, i, e, b, i, n, g, e, r
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CRB1-associated retinal degeneration is dependent on bacterial translocation from the gut Cell (IF 64.5) Pub Date : 2024-02-26 Shanzhen Peng, Jing Jing Li, Wanying Song, Ye Li, Lei Zeng, Qiaoxing Liang, Xiaofeng Wen, Haitao Shang, Keli Liu, Peiyao Peng, Wei Xue, Bin Zou, Liu Yang, Juanran Liang, Zhihui Zhang, Shixin Guo, Tingting Chen, Wenxuan Li, Ming Jin, Xiang-Bin Xing, Pengxia Wan, Chunqiao Liu, Haotian Lin, Hong Wei, Richard W.J. Lee, Feng Zhang, Lai Wei
The Crumbs homolog 1 () gene is associated with retinal degeneration, most commonly Leber congenital amaurosis (LCA) and retinitis pigmentosa (RP). Here, we demonstrate that murine retinas bearing the Rd8 mutation of are characterized by the presence of intralesional bacteria. While normal CRB1 expression was enriched in the apical junctional complexes of retinal pigment epithelium and colonic enterocytes
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Direct interrogation of context-dependent GPCR activity with a universal biosensor platform Cell (IF 64.5) Pub Date : 2024-02-26 Remi Janicot, Marcin Maziarz, Jong-Chan Park, Jingyi Zhao, Alex Luebbers, Elena Green, Clementine Eva Philibert, Hao Zhang, Mathew D. Layne, Joseph C. Wu, Mikel Garcia-Marcos
G protein-coupled receptors (GPCRs) are the largest family of druggable proteins encoded in the human genome, but progress in understanding and targeting them is hindered by the lack of tools to reliably measure their nuanced behavior in physiologically relevant contexts. Here, we developed a collection of compact ONE vector G-protein Optical (ONE-GO) biosensor constructs as a scalable platform that
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Learning attentional templates for value-based decision-making Cell (IF 64.5) Pub Date : 2024-02-23 Caroline I. Jahn, Nikola T. Markov, Britney Morea, Nathaniel D. Daw, R. Becket Ebitz, Timothy J. Buschman
Attention filters sensory inputs to enhance task-relevant information. It is guided by an “attentional template” that represents the stimulus features that are currently relevant. To understand how the brain learns and uses templates, we trained monkeys to perform a visual search task that required them to repeatedly learn new attentional templates. Neural recordings found that templates were represented
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A versatile CRISPR-Cas13d platform for multiplexed transcriptomic regulation and metabolic engineering in primary human T cells Cell (IF 64.5) Pub Date : 2024-02-21 Victor Tieu, Elena Sotillo, Jeremy R. Bjelajac, Crystal Chen, Meena Malipatlolla, Justin A. Guerrero, Peng Xu, Patrick J. Quinn, Chris Fisher, Dorota Klysz, Crystal L. Mackall, Lei S. Qi
CRISPR technologies have begun to revolutionize T cell therapies; however, conventional CRISPR-Cas9 genome-editing tools are limited in their safety, efficacy, and scope. To address these challenges, we developed multiplexed effector guide arrays (MEGA), a platform for programmable and scalable regulation of the T cell transcriptome using the RNA-guided, RNA-targeting activity of CRISPR-Cas13d. MEGA
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Mouse oocytes sequester aggregated proteins in degradative super-organelles Cell (IF 64.5) Pub Date : 2024-02-20 Gabriele Zaffagnini, Shiya Cheng, Marion C. Salzer, Barbara Pernaute, Juan Manuel Duran, Manuel Irimia, Melina Schuh, Elvan Böke
Oocytes are among the longest-lived cells in the body and need to preserve their cytoplasm to support proper embryonic development. Protein aggregation is a major threat for intracellular homeostasis in long-lived cells. How oocytes cope with protein aggregation during their extended life is unknown. Here, we find that mouse oocytes accumulate protein aggregates in specialized compartments that we
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Structural mechanisms of α7 nicotinic receptor allosteric modulation and activation Cell (IF 64.5) Pub Date : 2024-02-20 Sean M. Burke, Mariia Avstrikova, Colleen M. Noviello, Nuriya Mukhtasimova, Jean-Pierre Changeux, Ganesh A. Thakur, Steven M. Sine, Marco Cecchini, Ryan E. Hibbs
The α7 nicotinic acetylcholine receptor is a pentameric ligand-gated ion channel that plays an important role in cholinergic signaling throughout the nervous system. Its unique physiological characteristics and implications in neurological disorders and inflammation make it a promising but challenging therapeutic target. Positive allosteric modulators overcome limitations of traditional α7 agonists
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Selection of epigenetically privileged HIV-1 proviruses during treatment with panobinostat and interferon-α2a Cell (IF 64.5) Pub Date : 2024-02-17 Marie Armani-Tourret, Ce Gao, Ciputra Adijaya Hartana, WeiWei Sun, Leah Carrere, Liliana Vela, Alexander Hochroth, Maxime Bellefroid, Amy Sbrolla, Katrina Shea, Theresa Flynn, Isabelle Roseto, Yelizaveta Rassadkina, Carole Lee, Francoise Giguel, Rajeev Malhotra, Frederic D. Bushman, Rajesh T. Gandhi, Xu G. Yu, Daniel R. Kuritzkes, Mathias Lichterfeld
CD4 T cells with latent HIV-1 infection persist despite treatment with antiretroviral agents and represent the main barrier to a cure of HIV-1 infection. Pharmacological disruption of viral latency may expose HIV-1-infected cells to host immune activity, but the clinical efficacy of latency-reversing agents for reducing HIV-1 persistence remains to be proven. Here, we show in a randomized-controlled
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The genetic changes that shaped Neandertals, Denisovans, and modern humans Cell (IF 64.5) Pub Date : 2024-02-16 Hugo Zeberg, Mattias Jakobsson, Svante Pääbo
Modern human ancestors diverged from the ancestors of Neandertals and Denisovans about 600,000 years ago. Until about 40,000 years ago, these three groups existed in parallel, occasionally met, and exchanged genes. A critical question is why modern humans, and not the other two groups, survived, became numerous, and developed complex cultures. Here, we discuss genetic differences among the groups and
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From the operating table to global science: How a near-death experience sparked my passion for life Cell (IF 64.5) Pub Date : 2024-02-15 K, e, v, i, n, , C, h, r, i, s, t, o, p, h, e, r, , B, r, o, w, n, , J, r, .
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GSDMB is increased in IBD and regulates epithelial restitution/repair independent of pyroptosis Cell (IF 64.5) Pub Date : 2024-02-15 Nitish Rana, Giuseppe Privitera, Hannah C. Kondolf, Katarzyna Bulek, Susana Lechuga, Carlo De Salvo, Daniele Corridoni, Agne Antanaviciute, Rebecca L. Maywald, Alexander M. Hurtado, Junjie Zhao, Emina H. Huang, Xiaoxia Li, E. Ricky Chan, Alison Simmons, Giorgos Bamias, Derek W. Abbott, Jason D. Heaney, Andrei I. Ivanov, Theresa T. Pizarro
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Live-attenuated chikungunya virus vaccine Cell (IF 64.5) Pub Date : 2024-02-15 Lisa F.P. Ng, Laurent Rénia
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Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer Cell (IF 64.5) Pub Date : 2024-02-15 Shrabanti Chowdhury, Jacob J. Kennedy, Richard G. Ivey, Oscar D. Murillo, Noshad Hosseini, Xiaoyu Song, Francesca Petralia, Anna Calinawan, Sara R. Savage, Anna B. Berry, Boris Reva, Umut Ozbek, Azra Krek, Weiping Ma, Felipe da Veiga Leprevost, Jiayi Ji, Seungyeul Yoo, Chenwei Lin, Uliana J. Voytovich, Yajue Huang, Sun-Hee Lee, Lindsay Bergan, Travis D. Lorentzen, Mehdi Mesri, Henry Rodriguez, Andrew
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A multivalent mRNA monkeypox virus vaccine (BNT166) protects mice and macaques from orthopoxvirus disease Cell (IF 64.5) Pub Date : 2024-02-15 Adam Zuiani, Charles L. Dulberger, Nilushi S. De Silva, Meghan Marquette, Yu-Jung Lu, Gavin M. Palowitch, Anja Dokic, Ricardo Sanchez-Velazquez, Katja Schlatterer, Sanjay Sarkar, Swagata Kar, Bhavna Chawla, Alibek Galeev, Claudia Lindemann, Daniel A. Rothenberg, Huitian Diao, Alexandra C. Walls, Theresa A. Addona, Federico Mensa, Annette B. Vogel, Lynda M. Stuart, Robbert van der Most, John R. Srouji
In response to the 2022 outbreak of mpox driven by unprecedented human-to-human monkeypox virus (MPXV) transmission, we designed BNT166, aiming to create a highly immunogenic, safe, accessible, and scalable next-generation vaccine against MPXV and related orthopoxviruses. To address the multiple viral forms and increase the breadth of immune response, two candidate multivalent mRNA vaccines were evaluated
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Bridging past with progress: My mission in the world of polymers Cell (IF 64.5) Pub Date : 2024-02-15 A, k, o, r, f, a, , D, a, g, a, d, u
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Phospholipids with two polyunsaturated fatty acyl tails promote ferroptosis Cell (IF 64.5) Pub Date : 2024-02-15 Baiyu Qiu, Fereshteh Zandkarimi, Carla T. Bezjian, Eduard Reznik, Rajesh Kumar Soni, Wei Gu, Xuejun Jiang, Brent R. Stockwell
Phospholipids containing a single polyunsaturated fatty acyl tail (PL-PUFAs) are considered the driving force behind ferroptosis, whereas phospholipids with diacyl-PUFA tails (PL-PUFAs) have been rarely characterized. Dietary lipids modulate ferroptosis, but the mechanisms governing lipid metabolism and ferroptosis sensitivity are not well understood. Our research revealed a significant accumulation
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Resilient wings, tangible impact: My journey from chrysalis to changemaker in STEM Cell (IF 64.5) Pub Date : 2024-02-15 J, a, y, e, , A, n, t, o, i, n, e, t, t, e, , W, i, l, s, o, n
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High fat intake sustains sorbitol intolerance after antibiotic-mediated Clostridia depletion from the gut microbiota Cell (IF 64.5) Pub Date : 2024-02-15 Jee-Yon Lee, Connor R. Tiffany, Scott P. Mahan, Matthew Kellom, Andrew W.L. Rogers, Henry Nguyen, Eric T. Stevens, Hugo L.P. Masson, Kohei Yamazaki, Maria L. Marco, Emiley A. Eloe-Fadrosh, Peter J. Turnbaugh, Andreas J. Bäumler
Carbohydrate intolerance, commonly linked to the consumption of lactose, fructose, or sorbitol, affects up to 30% of the population in high-income countries. Although sorbitol intolerance is attributed to malabsorption, the underlying mechanism remains unresolved. Here, we show that a history of antibiotic exposure combined with high fat intake triggered long-lasting sorbitol intolerance in mice by
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Enough with “the shakes”: Fighting Parkinson’s as a Black researcher and a community organizer Cell (IF 64.5) Pub Date : 2024-02-15 S, e, n, e, g, a, l, , A, l, f, r, e, d, , M, a, b, r, y
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A retroviral link to vertebrate myelination through retrotransposon-RNA-mediated control of myelin gene expression Cell (IF 64.5) Pub Date : 2024-02-15 Tanay Ghosh, Rafael G. Almeida, Chao Zhao, Abdelkrim Mannioui, Elodie Martin, Alex Fleet, Civia Z. Chen, Peggy Assinck, Sophie Ellams, Ginez A. Gonzalez, Stephen C. Graham, David H. Rowitch, Katherine Stott, Ian Adams, Bernard Zalc, Nick Goldman, David A. Lyons, Robin J.M. Franklin
Myelin, the insulating sheath that surrounds neuronal axons, is produced by oligodendrocytes in the central nervous system (CNS). This evolutionary innovation, which first appears in jawed vertebrates, enabled rapid transmission of nerve impulses, more complex brains, and greater morphological diversity. Here, we report that RNA-level expression of RNLTR12-int, a retrotransposon of retroviral origin
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Pan-cancer proteogenomics characterization of tumor immunity Cell (IF 64.5) Pub Date : 2024-02-14 Francesca Petralia, Weiping Ma, Tomer M. Yaron, Francesca Pia Caruso, Nicole Tignor, Joshua M. Wang, Daniel Charytonowicz, Jared L. Johnson, Emily M. Huntsman, Giacomo B. Marino, Anna Calinawan, John Erol Evangelista, Myvizhi Esai Selvan, Shrabanti Chowdhury, Dmitry Rykunov, Azra Krek, Xiaoyu Song, Berk Turhan, Karen E. Christianson, David A. Lewis, Eden Z. Deng, Daniel J.B. Clarke, Jeffrey R. Whiteaker
Despite the successes of immunotherapy in cancer treatment over recent decades, less than <10%–20% cancer cases have demonstrated durable responses from immune checkpoint blockade. To enhance the efficacy of immunotherapies, combination therapies suppressing multiple immune evasion mechanisms are increasingly contemplated. To better understand immune cell surveillance and diverse immune evasion responses
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The cycling and aging mouse female reproductive tract at single-cell resolution Cell (IF 64.5) Pub Date : 2024-02-06 Ivana Winkler, Alexander Tolkachov, Fritjof Lammers, Perrine Lacour, Klaudija Daugelaite, Nina Schneider, Marie-Luise Koch, Jasper Panten, Florian Grünschläger, Tanja Poth, Bianca Machado de Ávila, Augusto Schneider, Simon Haas, Duncan T. Odom, Ângela Gonçalves
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An atlas of protein homo-oligomerization across domains of life Cell (IF 64.5) Pub Date : 2024-02-06 Hugo Schweke, Martin Pacesa, Tal Levin, Casper A. Goverde, Prasun Kumar, Yoan Duhoo, Lars J. Dornfeld, Benjamin Dubreuil, Sandrine Georgeon, Sergey Ovchinnikov, Derek N. Woolfson, Bruno E. Correia, Sucharita Dey, Emmanuel D. Levy
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A synthetic differentiation circuit in Escherichia coli for suppressing mutant takeover Cell (IF 64.5) Pub Date : 2024-02-05 David S. Glass, Anat Bren, Elizabeth Vaisbourd, Avi Mayo, Uri Alon
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PARP1-DNA co-condensation drives DNA repair site assembly to prevent disjunction of broken DNA ends Cell (IF 64.5) Pub Date : 2024-02-05 Nagaraja Chappidi, Thomas Quail, Simon Doll, Laura T. Vogel, Radoslav Aleksandrov, Suren Felekyan, Ralf Kühnemuth, Stoyno Stoynov, Claus A.M. Seidel, Jan Brugués, Marcus Jahnel, Titus M. Franzmann, Simon Alberti
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Microglia maintain structural integrity during fetal brain morphogenesis Cell (IF 64.5) Pub Date : 2024-02-02 Akindé René Lawrence, Alice Canzi, Cécile Bridlance, Nicolas Olivié, Claire Lansonneur, Clarissa Catale, Lara Pizzamiglio, Benoit Kloeckner, Aymeric Silvin, David A.D. Munro, Aurélien Fortoul, Davide Boido, Feriel Zehani, Hugues Cartonnet, Sarah Viguier, Guillaume Oller, Paola Squarzoni, Adrien Candat, Julie Helft, Cécile Allet, Francoise Watrin, Jean-Bernard Manent, Pierre Paoletti, Denis Thieffry
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Moving structural biology forward together Cell (IF 64.5) Pub Date : 2024-02-01 T, h, e, , C, e, l, l, , E, d, i, t, o, r, i, a, l, , T, e, a, m
Abstract not available
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Pursuing structural biology in China Cell (IF 64.5) Pub Date : 2024-02-01
In November 2023, structural biologists from different countries and different disciplines gathered at the Cell Symposium: Structural biology from the nanoscale to cellular mesoscale to discuss recent breakthroughs, including structures of proteins and macromolecular complexes in a cellular context as well as virus structures obtained by using different techniques. At the symposium, Cell editor Jia
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Structure is beauty, but not always truth Cell (IF 64.5) Pub Date : 2024-02-01 James S. Fraser, Mark A. Murcko
Structural biology, as powerful as it is, can be misleading. We highlight four fundamental challenges: interpreting raw experimental data; accounting for motion; addressing the misleading nature of in vitro structures; and unraveling interactions between drugs and “anti-targets.” Overcoming these challenges will amplify the impact of structural biology on drug discovery.
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Enabling structure-based drug discovery utilizing predicted models Cell (IF 64.5) Pub Date : 2024-02-01 Edward B. Miller, Howook Hwang, Mee Shelley, Andrew Placzek, João P.G.L.M. Rodrigues, Robert K. Suto, Lingle Wang, Karen Akinsanya, Robert Abel
High-quality predicted structures enable structure-based approaches to an expanding number of drug discovery programs. We propose that by utilizing free energy perturbation (FEP), predicted structures can be confidently employed to achieve drug design goals. We use structure-based modeling of hERG inhibition to illustrate this value of FEP.
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De novo protein design—From new structures to programmable functions Cell (IF 64.5) Pub Date : 2024-02-01 T, a, n, j, a, , K, o, r, t, e, m, m, e
Methods from artificial intelligence (AI) trained on large datasets of sequences and structures can now “write” proteins with new shapes and molecular functions , without starting from proteins found in nature. In this Perspective, I will discuss the state of the field of protein design at the juncture of physics-based modeling approaches and AI. New protein folds and higher-order assemblies can be
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Understanding the cell: Future views of structural biology Cell (IF 64.5) Pub Date : 2024-02-01 Martin Beck, Roberto Covino, Inga Hänelt, Michaela Müller-McNicoll
Determining the structure and mechanisms of all individual functional modules of cells at high molecular detail has often been seen as equal to understanding how cells work. Recent technical advances have led to a flush of high-resolution structures of various macromolecular machines, but despite this wealth of detailed information, our understanding of cellular function remains incomplete. Here, we
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Integrating cellular electron microscopy with multimodal data to explore biology across space and time Cell (IF 64.5) Pub Date : 2024-02-01 Caitlyn L. McCafferty, Sven Klumpe, Rommie E. Amaro, Wanda Kukulski, Lucy Collinson, Benjamin D. Engel
Biology spans a continuum of length and time scales. Individual experimental methods only glimpse discrete pieces of this spectrum but can be combined to construct a more holistic view. In this Review, we detail the latest advancements in volume electron microscopy (vEM) and cryo-electron tomography (cryo-ET), which together can visualize biological complexity across scales from the organization of
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Brain-wide neural activity underlying memory-guided movement Cell (IF 64.5) Pub Date : 2024-02-01 Susu Chen, Yi Liu, Ziyue Aiden Wang, Jennifer Colonell, Liu D. Liu, Han Hou, Nai-Wen Tien, Tim Wang, Timothy Harris, Shaul Druckmann, Nuo Li, Karel Svoboda
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Xist ribonucleoproteins promote female sex-biased autoimmunity Cell (IF 64.5) Pub Date : 2024-02-01 Diana R. Dou, Yanding Zhao, Julia A. Belk, Yang Zhao, Kerriann M. Casey, Derek C. Chen, Rui Li, Bingfei Yu, Suhas Srinivasan, Brian T. Abe, Katerina Kraft, Ceke Hellström, Ronald Sjöberg, Sarah Chang, Allan Feng, Daniel W. Goldman, Ami A. Shah, Michelle Petri, Lorinda S. Chung, David F. Fiorentino, Emma K. Lundberg, Anton Wutz, Paul J. Utz, Howard Y. Chang
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A multi-tissue metabolome atlas of primate pregnancy Cell (IF 64.5) Pub Date : 2024-02-01 Dainan Yu, Haifeng Wan, Chao Tong, Lu Guang, Gang Chen, Jiali Su, Lan Zhang, Yue Wang, Zhenyu Xiao, Jinglei Zhai, Long Yan, Wenwu Ma, Kun Liang, Taoyan Liu, Yuefan Wang, Zehang Peng, Lanfang Luo, Ruoxuan Yu, Wei Li, Hongbo Qi, Hongmei Wang, Ng Shyh-Chang