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Dopamine-mediated interactions between short- and long-term memory dynamics Nature (IF 50.5) Pub Date : 2024-07-22 Cheng Huang, Junjie Luo, Seung Je Woo, Lucas A. Roitman, Jizhou Li, Vincent A. Pieribone, Madhuvanthi Kannan, Ganesh Vasan, Mark J. Schnitzer
In dynamic environments, animals make behavioral decisions based on the innate valences of sensory cues and information learnt about these cues across multiple timescales1–3. However, it remains unclear how the innate valence of a sensory stimulus affects acquisition of learnt valence information and subsequent memory dynamics. Here we show that in the Drosophila brain, interconnected short- and long-term
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Found: the hidden link between star-forming molecular clouds Nature (IF 50.5) Pub Date : 2024-07-19
Connections between three interstellar clouds of gas and dust offer a glimpse into their birth.
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In This Issue Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2024-07-16
Proceedings of the National Academy of Sciences, Volume 121, Issue 29, July 2024.
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China–US research collaborations are in decline — this is bad news for everyone Nature (IF 50.5) Pub Date : 2024-07-19
Scientists say that the drop in partnerships between the scientific powerhouses will hold back research on priorities such as global warming.
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Hundreds of racist plant names will change after historic vote by botanists Nature (IF 50.5) Pub Date : 2024-07-18
Scientific designations containing a racial slur will be altered — the first time that any species names have been adjusted because of the offence they cause.
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NASA cancels $450-million mission to drill for ice on the Moon — surprising researchers Nature (IF 50.5) Pub Date : 2024-07-18
The already-built rover could now be scrapped for parts.
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Long COVID lung damage linked to immune system response Nature (IF 50.5) Pub Date : 2024-07-18
Inhibiting a protein associated with chronic inflammation improves lung health in mice with COVID-19.
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Three-year delay for Indian census frustrates researchers Nature (IF 50.5) Pub Date : 2024-07-18
Without up-to-date data on the population, scientists say studies on fertility, migration and health outcomes have become unreliable.
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Daily briefing: Blocking an inflammation protein lets mice live longer Nature (IF 50.5) Pub Date : 2024-07-18
Mice live longer and healthier when the inflammation-boosting protein IL-11 is blocked. Plus, how magic mushrooms reset your sense of time and self.
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What is it like to attend a predatory conference? Nature (IF 50.5) Pub Date : 2024-07-18
Nature sent a reporter to find out as part of an investigation into dud events.
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Even with no drug or vaccine, eradication of Guinea worm is in sight Nature (IF 50.5) Pub Date : 2024-07-18
Community-based efforts have reduced the parasitic infection to a handful of cases in humans each year, but the emergence of infections in dogs and other animals threatens to derail progress.
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This tiny solar-powered flyer weighs less than a paper plane Nature (IF 50.5) Pub Date : 2024-07-17
The 4.21g rotorcraft — dubbed CoulombFly — could forge a path to new kinds of tiny aerial vehicles.
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The enduring world forest carbon sink Nature (IF 50.5) Pub Date : 2024-07-17 Yude Pan, Richard A. Birdsey, Oliver L. Phillips, Richard A. Houghton, Jingyun Fang, Pekka E. Kauppi, Heather Keith, Werner A. Kurz, Akihiko Ito, Simon L. Lewis, Gert-Jan Nabuurs, Anatoly Shvidenko, Shoji Hashimoto, Bas Lerink, Dmitry Schepaschenko, Andrea Castanho, Daniel Murdiyarso
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Symbolic recording of signalling and cis-regulatory element activity to DNA Nature (IF 50.5) Pub Date : 2024-07-17 Wei Chen, Junhong Choi, Xiaoyi Li, Jenny F. Nathans, Beth Martin, Wei Yang, Nobuhiko Hamazaki, Chengxiang Qiu, Jean-Benoît Lalanne, Samuel Regalado, Haedong Kim, Vikram Agarwal, Eva Nichols, Anh Leith, Choli Lee, Jay Shendure
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Giant chiral magnetoelectric oscillations in a van der Waals multiferroic Nature (IF 50.5) Pub Date : 2024-07-17 Frank Y. Gao, Xinyue Peng, Xinle Cheng, Emil Viñas Boström, Dong Seob Kim, Ravish K. Jain, Deepak Vishnu, Kalaivanan Raju, Raman Sankar, Shang-Fan Lee, Michael A. Sentef, Takashi Kurumaji, Xiaoqin Li, Peizhe Tang, Angel Rubio, Edoardo Baldini
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Superconductivity in pressurized trilayer La4Ni3O10−δ single crystals Nature (IF 50.5) Pub Date : 2024-07-17 Yinghao Zhu, Di Peng, Enkang Zhang, Bingying Pan, Xu Chen, Lixing Chen, Huifen Ren, Feiyang Liu, Yiqing Hao, Nana Li, Zhenfang Xing, Fujun Lan, Jiyuan Han, Junjie Wang, Donghan Jia, Hongliang Wo, Yiqing Gu, Yimeng Gu, Li Ji, Wenbin Wang, Huiyang Gou, Yao Shen, Tianping Ying, Xiaolong Chen, Wenge Yang, Huibo Cao, Changlin Zheng, Qiaoshi Zeng, Jian-gang Guo, Jun Zhao
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Inhibition of IL-11 signalling extends mammalian healthspan and lifespan Nature (IF 50.5) Pub Date : 2024-07-17 Anissa A. Widjaja, Wei-Wen Lim, Sivakumar Viswanathan, Sonia Chothani, Ben Corden, Cibi Mary Dasan, Joyce Wei Ting Goh, Radiance Lim, Brijesh K. Singh, Jessie Tan, Chee Jian Pua, Sze Yun Lim, Eleonora Adami, Sebastian Schafer, Benjamin L. George, Mark Sweeney, Chen Xie, Madhulika Tripathi, Natalie A. Sims, Norbert Hübner, Enrico Petretto, Dominic J. Withers, Lena Ho, Jesus Gil, David Carling, Stuart
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An engineered enzyme embedded into PLA to make self-biodegradable plastic Nature (IF 50.5) Pub Date : 2024-07-17 M. Guicherd, M. Ben Khaled, M. Guéroult, J. Nomme, M. Dalibey, F. Grimaud, P. Alvarez, E. Kamionka, S. Gavalda, M. Noël, M. Vuillemin, E. Amillastre, D. Labourdette, G. Cioci, V. Tournier, V. Kitpreechavanich, P. Dubois, I. André, S. Duquesne, A. Marty
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Thresholds for adding degraded tropical forest to the conservation estate Nature (IF 50.5) Pub Date : 2024-07-17 Robert M. Ewers, C. David L. Orme, William D. Pearse, Nursyamin Zulkifli, Genevieve Yvon-Durocher, Kalsum M. Yusah, Natalie Yoh, Darren C. J. Yeo, Anna Wong, Joseph Williamson, Clare L. Wilkinson, Fabienne Wiederkehr, Bruce L. Webber, Oliver R. Wearn, Leona Wai, Maisie Vollans, Joshua P. Twining, Edgar C. Turner, Joseph A. Tobias, Jack Thorley, Elizabeth M. Telford, Yit Arn Teh, Heok Hui Tan, Tom Swinfield
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Adaptation to photoperiod via dynamic neurotransmitter segregation Nature (IF 50.5) Pub Date : 2024-07-17 G. Maddaloni, Y. J. Chang, R. A. Senft, S. M. Dymecki
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A hot-Jupiter progenitor on a super-eccentric retrograde orbit Nature (IF 50.5) Pub Date : 2024-07-17 Arvind F. Gupta, Sarah C. Millholland, Haedam Im, Jiayin Dong, Jonathan M. Jackson, Ilaria Carleo, Jessica Libby-Roberts, Megan Delamer, Mark R. Giovinazzi, Andrea S. J. Lin, Shubham Kanodia, Xian-Yu Wang, Keivan Stassun, Thomas Masseron, Diana Dragomir, Suvrath Mahadevan, Jason Wright, Jaime A. Alvarado-Montes, Chad Bender, Cullen H. Blake, Douglas Caldwell, Caleb I. Cañas, William D. Cochran, Paul
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Psilocybin desynchronizes the human brain Nature (IF 50.5) Pub Date : 2024-07-17 Joshua S. Siegel, Subha Subramanian, Demetrius Perry, Benjamin P. Kay, Evan M. Gordon, Timothy O. Laumann, T. Rick Reneau, Nicholas V. Metcalf, Ravi V. Chacko, Caterina Gratton, Christine Horan, Samuel R. Krimmel, Joshua S. Shimony, Julie A. Schweiger, Dean F. Wong, David A. Bender, Kristen M. Scheidter, Forrest I. Whiting, Jonah A. Padawer-Curry, Russell T. Shinohara, Yong Chen, Julia Moser, Essa
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A eukaryotic-like ubiquitination system in bacterial antiviral defence Nature (IF 50.5) Pub Date : 2024-07-17 Lydia R. Chambers, Qiaozhen Ye, Jiaxi Cai, Minheng Gong, Hannah E. Ledvina, Huilin Zhou, Aaron T. Whiteley, Raymond T. Suhandynata, Kevin D. Corbett
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A holistic platform for accelerating sorbent-based carbon capture Nature (IF 50.5) Pub Date : 2024-07-17 Charithea Charalambous, Elias Moubarak, Johannes Schilling, Eva Sanchez Fernandez, Jin-Yu Wang, Laura Herraiz, Fergus Mcilwaine, Shing Bo Peh, Matthew Garvin, Kevin Maik Jablonka, Seyed Mohamad Moosavi, Joren Van Herck, Aysu Yurdusen Ozturk, Alireza Pourghaderi, Ah-Young Song, Georges Mouchaham, Christian Serre, Jeffrey A. Reimer, André Bardow, Berend Smit, Susana Garcia
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Identification of plant transcriptional activation domains Nature (IF 50.5) Pub Date : 2024-07-17 Nicholas Morffy, Lisa Van den Broeck, Caelan Miller, Ryan J. Emenecker, John A. Bryant, Tyler M. Lee, Katelyn Sageman-Furnas, Edward G. Wilkinson, Sunita Pathak, Sanjana R. Kotha, Angelica Lam, Saloni Mahatma, Vikram Pande, Aman Waoo, R. Clay Wright, Alex S. Holehouse, Max V. Staller, Rosangela Sozzani, Lucia C. Strader
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Position-dependent function of human sequence-specific transcription factors Nature (IF 50.5) Pub Date : 2024-07-17 Sascha H. Duttke, Carlos Guzman, Max Chang, Nathaniel P. Delos Santos, Bayley R. McDonald, Jialei Xie, Aaron F. Carlin, Sven Heinz, Christopher Benner
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Groundwater-dependent ecosystem map exposes global dryland protection needs Nature (IF 50.5) Pub Date : 2024-07-17 Melissa M. Rohde, Christine M. Albano, Xander Huggins, Kirk R. Klausmeyer, Charles Morton, Ali Sharman, Esha Zaveri, Laurel Saito, Zach Freed, Jeanette K. Howard, Nancy Job, Holly Richter, Kristina Toderich, Aude-Sophie Rodella, Tom Gleeson, Justin Huntington, Hrishikesh A. Chandanpurkar, Adam J. Purdy, James S. Famiglietti, Michael Bliss Singer, Dar A. Roberts, Kelly Caylor, John C. Stella
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Singular dielectric nanolaser with atomic-scale field localization Nature (IF 50.5) Pub Date : 2024-07-17 Yun-Hao Ouyang, Hong-Yi Luan, Zi-Wei Zhao, Wen-Zhi Mao, Ren-Min Ma
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Mechanical release of homogenous proteins from supramolecular gels Nature (IF 50.5) Pub Date : 2024-07-17 Simona Bianco, Muhammad Hasan, Ashfaq Ahmad, Sarah-Jane Richards, Bart Dietrich, Matthew Wallace, Qiao Tang, Andrew J. Smith, Matthew I. Gibson, Dave J. Adams
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Clonal inactivation of TERT impairs stem cell competition Nature (IF 50.5) Pub Date : 2024-07-17 Kazuteru Hasegawa, Yang Zhao, Alina Garbuzov, M. Ryan Corces, Patrick Neuhöfer, Victoria M. Gillespie, Peggie Cheung, Julia A. Belk, Yung-Hsin Huang, Yuning Wei, Lu Chen, Howard Y. Chang, Steven E. Artandi
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Sources of gene expression variation in a globally diverse human cohort Nature (IF 50.5) Pub Date : 2024-07-17 Dylan J. Taylor, Surya B. Chhetri, Michael G. Tassia, Arjun Biddanda, Stephanie M. Yan, Genevieve L. Wojcik, Alexis Battle, Rajiv C. McCoy
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Sunlight-powered sustained flight of an ultralight micro aerial vehicle Nature (IF 50.5) Pub Date : 2024-07-17 Wei Shen, Jinzhe Peng, Rui Ma, Jiaqing Wu, Jingyi Li, Zhiwei Liu, Jiaming Leng, Xiaojun Yan, Mingjing Qi
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Tubulin code eraser CCP5 binds branch glutamates by substrate deformation Nature (IF 50.5) Pub Date : 2024-07-17 Jiayi Chen, Elena A. Zehr, James M. Gruschus, Agnieszka Szyk, Yanjie Liu, Martin E. Tanner, Nico Tjandra, Antonina Roll-Mecak
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Bacteria conjugate ubiquitin-like proteins to interfere with phage assembly Nature (IF 50.5) Pub Date : 2024-07-17 Jens Hör, Sharon G. Wolf, Rotem Sorek
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In vivo single-cell CRISPR uncovers distinct TNF programmes in tumour evolution Nature (IF 50.5) Pub Date : 2024-07-17 Peter F. Renz, Umesh Ghoshdastider, Simona Baghai Sain, Fabiola Valdivia-Francia, Ameya Khandekar, Mark Ormiston, Martino Bernasconi, Clara Duré, Jonas A. Kretz, Minkyoung Lee, Katie Hyams, Merima Forny, Marcel Pohly, Xenia Ficht, Stephanie J. Ellis, Andreas E. Moor, Ataman Sendoel
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Split intein-mediated protein trans-splicing to express large dystrophins Nature (IF 50.5) Pub Date : 2024-07-17 Hichem Tasfaout, Christine L. Halbert, Timothy S. McMillen, James M. Allen, Theodore R. Reyes, Galina V. Flint, Dirk Grimm, Stephen D. Hauschka, Michael Regnier, Jeffrey S. Chamberlain
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The plastic that biodegrades in your home compost Nature (IF 50.5) Pub Date : 2024-07-17
Hear the biggest stories from the world of science | 17 July 2024
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Mice live longer when inflammation-boosting protein is blocked Nature (IF 50.5) Pub Date : 2024-07-17
Humans also have the protein, called IL-11, offering hope for a future longevity treatment.
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A psychedelic state arises from desynchronized brain activity Nature (IF 50.5) Pub Date : 2024-07-17 Petros D. Petridis
Psilocybin induces profound changes in brain connectivity.
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Daily briefing: The poetry hidden in PhD thesis acknowledgements Nature (IF 50.5) Pub Date : 2024-07-17
Science writer Tabitha Carvan explores the found poetry in the acknowledgement sections of PhD theses. Plus, researchers should explore the alternatives to animal research and can H5N1 spread through cow sneezes?
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The search for superconductivity just got wider Nature (IF 50.5) Pub Date : 2024-07-17 Weiwei Xie
Evidence of superconductivity in a nickelate under high pressure.
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Your brain on shrooms — how psilocybin resets neural networks Nature (IF 50.5) Pub Date : 2024-07-17
The psychedelic drug causes some lasting changes to the communication pathways that connect distinct brain regions.
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Make gene therapies more available by manufacturing them in lower-income nations Nature (IF 50.5) Pub Date : 2024-07-17 Evelyn Mwesigwa Harlow, Jennifer E. Adair
Gene therapies will become more affordable everywhere only if they are developed and manufactured in the regions of the world most in need of them.
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Forest-degradation thresholds shape tropical biodiversity Nature (IF 50.5) Pub Date : 2024-07-17 Umesh Srinivasan
Framework to assess the conservation value of logged tropical forests.
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Gel protects therapeutic proteins from deactivation — even in the post Nature (IF 50.5) Pub Date : 2024-07-17 Yanxian Zhang, Danny Hung-Chieh Chou
A simple strategy for protecting proteins from heat and vibration.
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Daily briefing: When you should throw away expired reagents Nature (IF 50.5) Pub Date : 2024-07-16
Some lab reagents can work decades beyond their best-before date. Plus, the deepest known pit on the Moon seems to lead to a huge underground cave.
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A geometrical theory of gliding motility based on cell shape and surface flow Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2024-07-19 Leon Lettermann, Falko Ziebert, Ulrich S. Schwarz
Gliding motility proceeds with little changes in cell shape and often results from actively driven surface flows of adhesins binding to the extracellular environment. It allows for fast movement over surfaces or through tissue, especially for the eukaryotic parasites from the phylum apicomplexa, which includes the causative agents of the widespread diseases malaria and toxoplasmosis. We have developed
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A therapy for suppressing canonical and noncanonical SARS-CoV-2 viral entry and an intrinsic intrapulmonary inflammatory response Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2024-07-19 Sandra L. Leibel, Rachael N. McVicar, Rabi Murad, Elizabeth M. Kwong, Alex E. Clark, Asuka Alvarado, Bethany A. Grimmig, Ruslan Nuryyev, Randee E. Young, Jamie C. Lee, Weiqi Peng, Yanfang P. Zhu, Eric Griffis, Cameron J. Nowell, Brian James, Suzie Alarcon, Atul Malhotra, Linden J. Gearing, Paul J. Hertzog, Cheska M. Galapate, Koen M. O. Galenkamp, Cosimo Commisso, Davey M. Smith, Xin Sun, Aaron F.
The prevalence of “long COVID” is just one of the conundrums highlighting how little we know about the lung’s response to viral infection, particularly to syndromecoronavirus-2 (SARS-CoV-2), for which the lung is the point of entry. We used an in vitro human lung system to enable a prospective, unbiased, sequential single-cell level analysis of pulmonary cell responses to infection by multiple SARS-CoV-2
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On the friendship paradox and inversity: A network property with applications to privacy-sensitive network interventions Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2024-07-19 Vineet Kumar, David Krackhardt, Scott Feld
We provide the mathematical and empirical foundations of the friendship paradox in networks, often stated as “Your friends have more friends than you.” We prove a set of network properties on friends of friends and characterize the concepts of ego-based and alter-based means. We propose a network property called inversity that quantifies the imbalance in degrees across edges and prove that the sign
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Information structure in Makhuwa: Electrophysiological evidence for a universal processing account Proc. Natl. Acad. Sci. U.S.A. (IF 9.4) Pub Date : 2024-07-19 Rinus G. Verdonschot, Jenneke van der Wal, Ashley Lewis, Birgit Knudsen, Sarah von Grebmer zu Wolfsthurn, Niels O. Schiller, Peter Hagoort
There is evidence from both behavior and brain activity that the way information is structured, through the use of focus, can up-regulate processing of focused constituents, likely to give prominence to the relevant aspects of the input. This is hypothesized to be universal, regardless of the different ways in which languages encode focus. In order to test this universalist hypothesis, we need to go
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High-temperature quantum valley Hall effect with quantized resistance and a topological switch Science (IF 44.7) Pub Date : 2024-07-18 Ke Huang, Hailong Fu, Kenji Watanabe, Takashi Taniguchi, Jun Zhu
Edge states of a topological insulator can be used to explore fundamental science emerging at the interface of low dimensionality and topology. Achieving a robust conductance quantization, however, has proven challenging for helical edge states. Here we show wide resistance plateaus in kink states – a manifestation of the quantum valley Hall effect in Bernal bilayer graphene – quantized to the predicted
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Dynamics of high-speed electrical tree growth in electron-irradiated polymethyl methacrylate Science (IF 44.7) Pub Date : 2024-07-18 Kathryn M. Sturge, Noah Hoppis, Ariana M. Bussio, Jonathan Barney, Brian Beaudoin, Cameron Brown, Bruce Carlsten, Carolyn Chun, Bryson C. Clifford, John Cumings, Nicholas Dallmann, Jack Fitzgibbon, Emily H. Frashure, Ashley E. Hammell, José Hannan, Samuel L. Henderson, Miriam E. Hiebert, James Krutzler, Joseph Lichthardt, Mark Marr-Lyon, Thomas Montano, Nathan Moody, Alexander Mueller, Patrick O’Shea
Dielectric materials are foundational to our modern-day communications, defense, and commerce needs. Although dielectric breakdown is a primary cause of failure of these systems, we do not fully understand this process. We analyzed the dielectric breakdown channel propagation dynamics of two distinct types of electrical trees. One type of these electrical trees has not been formally classified. We
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We need better and more PopSci by scientists Science (IF 44.7) Pub Date : 2024-07-18 Agustín Fuentes
Any scientist knows that to be a good scientist, they must conduct thoughtful research; generate high-quality, verifiable results and analyses; and get them into circulation in the scientific community. However, what often goes underappreciated is that this good science will likely remain ignored by most of the world if one doesn’t find a way to get it out beyond the scientific community. Unfortunately
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Synthesis and reactivity of an N-heterocyclic carbene–stabilized diazoborane Science (IF 44.7) Pub Date : 2024-07-18 Chonghe Zhang, Christopher C. Cummins, Robert J. Gilliard
Diazo compounds and organic azides are widely used as reagents for accessing valuable molecules in multiple areas of fundamental and applied chemistry. Their capacity to undergo versatile chemical transformations arises from the reactive nature of an incipient dinitrogen molecule at the terminal position. In this work, we report the synthesis and characterization of an N-heterocyclic carbene (NHC)–stabilized
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Structure-guided discovery of ancestral CRISPR-Cas13 ribonucleases Science (IF 44.7) Pub Date : 2024-07-18 Peter H. Yoon, Zeyuan Zhang, Kenneth J. Loi, Benjamin A. Adler, Arushi Lahiri, Kamakshi Vohra, Honglue Shi, Daniel Bellieny Rabelo, Marena Trinidad, Ron S. Boger, Muntathar J. Al-Shimary, Jennifer A. Doudna
The RNA-guided ribonuclease CRISPR-Cas13 enables adaptive immunity in bacteria and programmable RNA manipulation in heterologous systems. Cas13s share limited sequence similarity, hindering discovery of related or ancestral systems. To address this, we developed an automated structural-search pipeline to identify an ancestral clade of Cas13 (Cas13an), and further trace Cas13 origins to defense-associated
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Defective TiO x overlayers catalyze propane dehydrogenation promoted by base metals Science (IF 44.7) Pub Date : 2024-07-18 Sai Chen, Yiyi Xu, Xin Chang, Yue Pan, Guodong Sun, Xianhui Wang, Donglong Fu, Chunlei Pei, Zhi-Jian Zhao, Dong Su, Jinlong Gong
The industrial catalysts utilized for propane dehydrogenation (PDH) to propylene, an important alternative to petroleum-based cracking processes, either use expensive metals or metal oxides that are environmentally unbenign. We report that a typically less-active oxide, titanium oxide (TiO 2 ), can be combined with earth-abundant metallic nickel (Ni) to form an unconventional Ni@TiO x catalyst for
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Go/no-go for a Mars samples return Science (IF 44.7) Pub Date : 2024-07-18 David Southwood
Last month’s return to Earth of China’s lunar lander Chang’e-6 with samples from the far side of the Moon is a reminder that there are “firsts” in robotic space exploration still to be achieved. Unfortunately, this year has seen a major setback for the prospects of an even more extensive plan to collect samples from Mars. In April, the US National Aeronautics and Space Administration (NASA) made clear
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Birds optimize fruit size consumed near their geographic range limits Science (IF 44.7) Pub Date : 2024-07-18 Lucas P. Martins, Daniel B. Stouffer, Pedro G. Blendinger, Katrin Böhning-Gaese, José Miguel Costa, D. Matthias Dehling, Camila I. Donatti, Carine Emer, Mauro Galetti, Ruben Heleno, Ícaro Menezes, José Carlos Morante-Filho, Marcia C. Muñoz, Eike Lena Neuschulz, Marco Aurélio Pizo, Marta Quitián, Roman A. Ruggera, Francisco Saavedra, Vinicio Santillán, Matthias Schleuning, Luís Pascoal da Silva, Fernanda
Animals can adjust their diet to maximize energy or nutritional intake. For example, birds often target fruits that match their beak size because those fruits can be consumed more efficiently. We hypothesized that pressure to optimize diet—measured as matching between fruit and beak size—increases under stressful environments, such as those that determine species’ range edges. Using fruit-consumption
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Sculpting conducting nanopore size and shape through de novo protein design Science (IF 44.7) Pub Date : 2024-07-18 Samuel Berhanu, Sagardip Majumder, Thomas Müntener, James Whitehouse, Carolin Berner, Asim K. Bera, Alex Kang, Binyong Liang, Nasir Khan, Banumathi Sankaran, Lukas K. Tamm, David J. Brockwell, Sebastian Hiller, Sheena E. Radford, David Baker, Anastassia A. Vorobieva
Transmembrane β-barrels have considerable potential for a broad range of sensing applications. Current engineering approaches for nanopore sensors are limited to naturally occurring channels, which provide suboptimal starting points. By contrast, de novo protein design can in principle create an unlimited number of new nanopores with any desired properties. Here we describe a general approach to designing
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Binding and sensing diverse small molecules using shape-complementary pseudocycles Science (IF 44.7) Pub Date : 2024-07-18 Linna An, Meerit Said, Long Tran, Sagardip Majumder, Inna Goreshnik, Gyu Rie Lee, David Juergens, Justas Dauparas, Ivan Anishchenko, Brian Coventry, Asim K. Bera, Alex Kang, Paul M. Levine, Valentina Alvarez, Arvind Pillai, Christoffer Norn, David Feldman, Dmitri Zorine, Derrick R. Hicks, Xinting Li, Mariana Garcia Sanchez, Dionne K. Vafeados, Patrick J. Salveson, Anastassia A. Vorobieva, David Baker
We describe an approach for designing high-affinity small molecule–binding proteins poised for downstream sensing. We use deep learning–generated pseudocycles with repeating structural units surrounding central binding pockets with widely varying shapes that depend on the geometry and number of the repeat units. We dock small molecules of interest into the most shape complementary of these pseudocycles