March 9, 2021 u vol. 118 u no. 10

From the Cover

e2018218118 Dynamical vortex glass formation in active fluids e2016708118 Deep learning models of nematic biomaterials e2017983118 Wine export from Early Medieval Sicily e2016265118 Drug repurposing for neuropathic pain e2017281118 Sound propagation in katydid ears

Contents

THIS WEEK IN PNAS—This week’s research highlights Cover image: Pictured is a microfluidic eiti1021118 In This Issue device in which thousands of self- propelled colloidal particles self- NEWS FEATURE—An in-depth look at trending science issues assemble in spontaneously flowing liquids. Amélie Chardac, Suraj Shankar, e2102396118 A sea in the Amazon et al. combined microfluidic Amy McDermott experiments with hydrodynamic theory to demonstrate that when an active RETROSPECTIVE colloidal fluid flows through a sufficiently e2101148118 Kathryn Anderson, grand dame of developmental biology disordered environment, the system Ushma S. Neill and Joan Massague´ organizes into a unique state of matter known as a dynamical vortex glass. This phenomenon may govern the behavior PROFILE—The life and work of NAS members of a broad range of active fluids. See the e2102152118 Profile of Michael Manga article by Chardac, Shankar, et al., Brian Doctrow e2018218118. Image credit: Amélie See Inaugural Article, e2020943118, in vol. 118, issue 2 Chardac and Denis Bartolo. COMMENTARIES e2100934118 A metagenomics approach to investigate microbiome sociobiology Sandra B. Andersen and Jonas Schluter See companion article, e2016046118, in vol. 118, issue 6 e2100936118 Rapid emergence of virus–host mutualism under stress Valerian V. Dolja See companion article, e2020990118, in vol. 118, issue 6 e2101173118 How old are the oldest Homo sapiens in Far East Asia? Jean-Jacques Hublin See companion article, e2019158118, in vol. 118, issue 8

PERSPECTIVE e2015096118 The inflated significance of neutral genetic diversity in conservation genetics Joa˜o C. Teixeira and Christian D. Huber

LETTERS e2024297118 Infection curves on small-world networks are linear only in the vicinity of the critical point Łukasz Kusmierz and Taro Toyoizumi

Free online through the PNAS open access option. PNAS u March 9, 2021 u vol. 118 u no. 10 u iii–x Downloaded by guest on September 26, 2021 e2100906118 Reply to Kusmierz and Toyoizumi: e1905215118 Nonequilibrium dynamics and action at A network-based explanation of a distance in transcriptionally driven why most COVID-19 infection DNA supercoiling curves are linear Yair A. G. Fosado, Davide Michieletto, Chris A. Stefan Thurner, Peter Klimek, and Rudolf Hanel Brackley, and Davide Marenduzzo e2024195118 Conflicting shape percepts explained by perception cognition distinction CHEMISTRY Paul Linton e2013691118 Boronic acid with high oxidative stability e2024682118 Richer color vocabulary is correlated with color and utility in biological contexts memory, but its relation to perception Brian J. Graham, Ian W. Windsor, Brian Gold, is unknown and Ronald T. Raines Shiri Lev-Ari e2017616118 Anomalous nanoparticle surface diffusion in e2026301118 Reply to Lev-Ari: Operational definition of LCTEM is revealed by deep learning- “ ” color perception ; which task represents assisted analysis the concept better? Vida Jamali, Cory Hargus, Assaf Ben-Moshe, Amirali Arash Afraz and Maryam Hasantash Aghazadeh, Hyun Dong Ha, Kranthi K. Mandadapu, and A. Paul Alivisatos e2015618118 Mesoscopic protein-rich clusters host the INAUGURAL ARTICLE nucleation of mutant p53 amyloid fibrils e2023642118 Theory of bulk photovoltaic effect in David S. Yang, Arash Saeedi, Aram Davtyan, Anderson insulator Mohsen Fathi, Michael B. Sherman, Mohammad S. Hiroaki Ishizuka and Naoto Nagaosa Safari, Alena Klindziuk, Michelle C. Barton, Navin Varadarajan, Anatoly B. Kolomeisky, and Peter G. Vekilov BRIEF REPORT e2008880118 Three-step nucleation of metal–organic e2009217118 Homozygous IL37 mutation associated framework nanocrystals with infantile inflammatory Xiangwen Liu, See Wee Chee, Sanoj Raj, Michal bowel disease Sawczyk, Petr Kra´l, and Utkur Mirsaidov Zinan Z. Zhang, Yu Zhang, Tingyan He, e2017983118 Chemical evidence for the persistence of wine Colin L. Sweeney, Safa Baris, Elif Karakoc- production and trade in Early Medieval Aydiner, Yikun Yao, Deniz Ertem, Islamic Sicily Helen F. Matthews, Claudia Gonzaga- Le´a Drieu, Paola Orecchioni, Claudio Capelli, Jauregui, Harry L. Malech, Helen C. Su, Antonino Meo, Jasmine Lundy, Viva Sacco, Lucia Ahmet Ozen, Kenneth G. C. Smith, Arcifa, Alessandra Molinari, Martin Carver, and Michael J. Lenardo and Oliver E. Craig e2020401118 Lipid nanoparticle-mediated codelivery of mRNA and single-guide RNA PHYSICAL SCIENCES achieves liver-specific in vivo APPLIED PHYSICAL SCIENCES genome editing of Angptl3 e2023642118 Theory of bulk photovoltaic effect in Min Qiu, Zachary Glass, Jinjin Chen, Mary Haas, Xin Jin, Xuewei Zhao, Xuehui Rui, Zhongfeng Ye, Yamin Li, Anderson insulator Feng Zhang, and Qiaobing Xu Hiroaki Ishizuka and Naoto Nagaosa – e2012201118 Bepridil is potent against SARS-CoV-2 in vitro e1917853118 Cell cycle dependent active stress drives Erol C. Vatansever, Kai S. Yang, Aleksandra K. Drelich, epithelia remodeling Kaci C. Kratch, Chia-Chuan Cho, Kempaiah Rayavara John Devany, Daniel M. Sussman, Takaki Kempaiah, Jason C. Hsu, Drake M. Mellott, Shiqing Yamamoto, M. Lisa Manning, Xu, Chien-Te K. Tseng, and Wenshe Ray Liu and Margaret L. Gardel e2020837118 Shape changes and cooperativity in the e2025717118 Chemically controlled pattern formation in folding of the central domain of the self-oscillating elastic shells 16S ribosomal RNA Siyu Li, Daniel A. Matoz-Fernandez, Aaveg Aggarwal, Naoto Hori (堀直人), Natalia A. Denesyuk, and Monica Olvera de la Cruz and D. Thirumalai 2+ e2020541118 Anomalous mechanics of Zn -modified e2017205118 Seipin accumulates and traps diacylglycerols fibrin networks and triglycerides in its ring-like structure Jing Xia, Li-Heng Cai, Huayin Wu, Frederick C. Valeria Zoni, Rasha Khaddaj, Ivan Lukmantara, Wataru MacKintosh, and David A. Weitz Shinoda, Hongyuan Yang, Roger Schneiter, and Stefano Vanni BIOPHYSICS AND

e2024780118 The mechanics and dynamics of cancer cells EARTH, ATMOSPHERIC, AND PLANETARY SCIENCES sensing noisy 3D contact guidance e2015797118 Ozone pollution in the North Plain Jihan Kim, Yuansheng Cao, Christopher Eddy, Youyuan Deng, Herbert Levine, Wouter-Jan Rappel, spreading into the late-winter haze season and Bo Sun Ke Li, Daniel J. Jacob, Hong Liao, Yulu Qiu, Lu Shen, Shixian Zhai, Kelvin H. Bates, Melissa P. Sulprizio, e2022312118 Emergent robustness of bacterial quorum Shaojie Song, Xiao Lu, Qiang Zhang, Bo Zheng, Yuli sensing in fluid flow Zhang, Jinqiang Zhang, Hyun Chul Lee, Mohit P. Dalwadi and Philip Pearce and Su Keun Kuk

iv u www.pnas.org Contents Downloaded by guest on September 26, 2021 e2017696118 Simple stochastic model for geomagnetic SOCIAL SCIENCES excursions and reversals reproduces the temporal asymmetry of the ANTHROPOLOGY axial dipole moment e2017983118 Chemical evidence for the persistence of wine Alberto Molina-Cardı´n, Luis Dinis, production and trade in Early Medieval and Marı´a Luisa Osete Islamic Sicily e2019672118 Source apportionment of methane escaping Le´a Drieu, Paola Orecchioni, Claudio Capelli, the subsea permafrost system in the outer Antonino Meo, Jasmine Lundy, Viva Sacco, Lucia Eurasian Arctic Shelf Arcifa, Alessandra Molinari, Martin Carver, Julia Steinbach, Henry Holmstrand, Kseniia Shcherbakova, and Oliver E. Craig Denis Kosmach, Volker Bru¨chert, Natalia Shakhova, Anatoly Salyuk, Ce´lia J. Sapart, Denis Chernykh, Riko ENVIRONMENTAL SCIENCES Noormets, Igor Semiletov, and O¨ rjan Gustafsson e2015764118 Human arrival and landscape dynamics in the ENGINEERING northern Bahamas e2020701118 Elastic amplification of the Rayleigh–Taylor Patricia L. Fall, Peter J. van Hengstum, Lisa Lavold- instability in solidifying melts Foote, Jeffrey P. Donnelly, Nancy A. Albury, and Anne E. Tamalavage Etienne Jambon-Puillet, Matthieu Royer Pie´chaud, and P.-T. Brun e2012870118 How the growth of ice depends on the fluid PSYCHOLOGICAL AND COGNITIVE SCIENCES dynamics underneath e2021726118 Influence of a COVID-19 vaccine’s Ziqi Wang, Enrico Calzavarini, Chao Sun, effectiveness and safety profile on and Federico Toschi vaccination acceptance Robert M. Kaplan and Arnold Milstein PHYSICS e2011832118 Stunted upward mobility in a learning e2007815118 Encoding memory in tube diameter hierarchy environment reduces the academic of living flow network benefits of growth mindsets Mirna Kramar and Karen Alim Lile Jia, Chun Hui Lim, Ismaharif Ismail, e2021826118 Γ valley transition metal dichalcogenide and Yia Chin Tan moiré bands e2011809118 Do conversations end when people want Mattia Angeli and Allan H. MacDonald them to? e2016708118 Machine learning active-nematic hydrodynamics Adam M. Mastroianni, Daniel T. Gilbert, Gus Cooney, Jonathan Colen, Ming Han, Rui Zhang, Steven A. and Timothy D. Wilson Redford, Linnea M. Lemma, Link Morgan, Paul V. Ruijgrok, Raymond Adkins, Zev Bryant, Zvonimir Dogic, Margaret L. Gardel, Juan J. de Pablo, and Vincenzo Vitelli BIOLOGICAL SCIENCES

e2024083118 Designing self-assembling kinetics with AGRICULTURAL SCIENCES differentiable statistical physics models e2022562118 Cas9-expressing chickens and pigs Carl P. Goodrich, Ella M. King, Samuel S. Schoenholz, as resources for genome editing Ekin D. Cubuk, and Michael P. Brenner in livestock – e2024468118 Non line-of-sight imaging over 1.43 km Beate Rieblinger, Hicham Sid, Denise Duda, Cheng Wu, Jianjiang Liu, Xin Huang, Zheng-Ping Li, Chao Tarik Bozoglu, Romina Klinger, Antonina Yu, Jun-Tian Ye, Jun Zhang, Qiang Zhang, Xiankang Dou, Schlickenrieder, Kamila Lengyel, Krzysztof VivekK.Goyal,FeihuXu,andJian-WeiPan Flisikowski, Tatiana Flisikowska, Nina Simm, e2020492118 High-sensitivity heat-capacity measurements Alessandro Grodziecki, Carolin Perleberg, Andrea Ba¨hr, Lucie Carrier, Mayuko Kurome, Valeri on Sr2RuO4 under uniaxial pressure You-Sheng Li, Naoki Kikugawa, Dmitry A. Sokolov, Zakhartchenko, Barbara Kessler, Eckhard Wolf, Fabian Jerzembeck, Alexandra S. Gibbs, Yoshiteru Lutz Kettler, Harald Luksch, Ibrahim T. Hagag, Maeno, Clifford W. Hicks, Jo¨rg Schmalian, Michael Daniel Wise, Jim Kaufman, Benedikt B. Kaufer, Nicklas, and Andrew P. Mackenzie Christian Kupatt, Angelika Schnieke, and Benjamin Schusser e2018218118 Emergence of dynamic vortex glasses in disordered polar active fluids e2016038118 A multitaxa assessment of the effectiveness of agri-environmental schemes for Ame´lie Chardac, Suraj Shankar, M. Cristina Marchetti, and Denis Bartolo biodiversity management Fabian A. Boetzl, Jochen Krauss, Jonathan STATISTICS Heinze, Hannes Hoffmann, Jan Juffa, e2024383118 Integration and transfer learning of single-cell Sebastian Ko¨nig, Elena Krimmer, Maren transcriptomes via cFIT Prante, Emily A. Martin, Andrea Holzschuh, and Ingolf Steffan-Dewenter Minshi Peng, Yue Li, Brie Wamsley, Yuting Wei, and Kathryn Roeder APPLIED BIOLOGICAL SCIENCES e2024852118 Elevated cerebrospinal fluid cytokine levels in tuberculous meningitis predict survival in e2020401118 Lipid nanoparticle-mediated codelivery response to dexamethasone of Cas9 mRNA and single-guide RNA Laura J. Whitworth, Rajan Troll, Antonio J. Paga´n, achieves liver-specific in vivo Francisco J. Roca, Paul H. Edelstein, Mark Troll, genome editing of Angptl3 David M. Tobin, Nguyen Hoan Phu, Nguyen Duc Min Qiu, Zachary Glass, Jinjin Chen, Mary Haas, Xin Jin, Bang, Guy E. Thwaites, Nguyen Thuy Thuong Thuong, Xuewei Zhao, Xuehui Rui, Zhongfeng Ye, Yamin Li, Roger F. Sewell, and Lalita Ramakrishnan Feng Zhang, and Qiaobing Xu

Contents PNAS u March 9, 2021 u vol. 118 u no. 10 u v Downloaded by guest on September 26, 2021 e2011653118 Mutational fitness landscapes reveal genetic e2007815118 Encoding memory in tube diameter hierarchy and structural improvement pathways for of living flow network a vaccine-elicited HIV-1 broadly Mirna Kramar and Karen Alim neutralizing antibody e2020837118 Shape changes and cooperativity in the Bharat Madan, Baoshan Zhang, Kai Xu, Cara W. Chao, folding of the central domain of the Sijy O’Dell, Jacy R. Wolfe, Gwo-Yu Chuang, Ahmed S. 16S ribosomal RNA Fahad, Hui Geng, Rui Kong, Mark K. Louder, Thuy Naoto Hori (堀直人), Natalia A. Denesyuk, Duong Nguyen, Reda Rawi, Arne Scho¨n, Zizhang and D. Thirumalai Sheng, Rajani Nimrania, Yiran Wang, Tongqing Zhou, Bob C. Lin, Nicole A. Doria-Rose, Lawrence Shapiro, e2017205118 Seipin accumulates and traps diacylglycerols Peter D. Kwong, and Brandon J. DeKosky and triglycerides in its ring-like structure Valeria Zoni, Rasha Khaddaj, Ivan Lukmantara, Wataru BIOCHEMISTRY Shinoda, Hongyuan Yang, Roger Schneiter, e2013691118 Boronic acid with high oxidative stability and Stefano Vanni and utility in biological contexts e2024383118 Integration and transfer learning of single-cell Brian J. Graham, Ian W. Windsor, Brian Gold, transcriptomes via cFIT and Ronald T. Raines Minshi Peng, Yue Li, Brie Wamsley, Yuting Wei, e2012201118 Bepridil is potent against SARS-CoV-2 in vitro and Kathryn Roeder Erol C. Vatansever, Kai S. Yang, Aleksandra K. Drelich, e2016265118 Kaci C. Kratch, Chia-Chuan Cho, Kempaiah Rayavara Identification of tetracycline combinations as Kempaiah, Jason C. Hsu, Drake M. Mellott, Shiqing EphB1 tyrosine kinase inhibitors for treatment Xu, Chien-Te K. Tseng, and Wenshe Ray Liu of neuropathic pain Mahmoud S. Ahmed, Ping Wang, Ngoc Uyen e2026465118 Charting the sequence-activity landscape of Nhi Nguyen, Yuji Nakada, Ivan Menendez- peptide inhibitors of translation termination Montes, Muhammad Ismail, Robert Bachoo, Chetana Baliga, Tyler J. Brown, Tanja Florin, Sarah Mark Henkemeyer, Hesham A. Sadek, Colon, Vallari Shah, Kornelia J. Skowron, Amira Kefi, and Enas S. Kandil Teresa Szal, Dorota Klepacki, Terry W. Moore, Nora Va´zquez-Laslop, and Alexander S. Mankin e2019132118 Computational studies of anaplastic lymphoma kinase mutations reveal common mechanisms e2021120118 Structural basis for recognition of distinct of oncogenic activation deaminated DNA lesions by endonuclease Q Keshav Patil, Earl Joseph Jordan, Jin H. Park, Ke Shi, Nicholas H. Moeller, Surajit Banerjee, Krishna Suresh, Courtney M. Smith, Abigail A. Jennifer L. McCann, Michael A. Carpenter, Lulu Yin, Lemmon, Yae¨l P. Mosse´, Mark A. Lemmon, Ramkumar Moorthy, Kayo Orellana, Daniel A. Harki, and Ravi Radhakrishnan Reuben S. Harris, and Hideki Aihara ’ e2022614118 Structural insights into membrane remodeling e2026608118 Collagen s enigmatic, highly conserved N- by SNX1 glycan has an essential proteostatic function Yan Zhang, Xiaoyun Pang, Jian Li, Jiashu Xu, Victor W. Rasia C. Li, Madeline Y. Wong, Andrew S. DiChiara, Hsu, and Fei Sun Azade S. Hosseini, and Matthew D. Shoulders α – e2019845118 Cadherin cis and trans interactions are e2012171118 Structural insights into -synuclein monomer mutually cooperative fibril interactions Connor J. Thompson, Vinh H. Vu, Deborah E. Pratibha Kumari, Dhiman Ghosh, Agathe Vanas, Yanick Leckband, and Daniel K. Schwartz Fleischmann, Thomas Wiegand, Gunnar Jeschke, Roland Riek, and Ce´dric Eichmann e2017281118 A narrow ear canal reduces sound velocity to create additional acoustic inputs in e2017431118 Chloride-dependent conformational changes a microscale insect ear in the GlyT1 glycine transporter Daniel Veitch, Emine Celiker, Sarah Aldridge, Yuan-Wei Zhang, Stacy Uchendu, Vanessa Leone, Christian Pulver, Carl D. Soulsbury, Richard T. Bradshaw, Ntumba Sangwa, Lucy R. Thorin Jonsson, Charlie Woodrow, Forrest, and Gary Rudnick and Fernando Montealegre-Z e2019220118 Architecturally complex O-glycopeptidases are customized for mucin recognition e2015648118 Raf promotes dimerization of the and hydrolysis Ras G-domain with increased Benjamin Pluvinage, Elizabeth Ficko-Blean, Ilit Noach, allosteric connections Christopher Stuart, Nicole Thompson, Hayden Morgan R. Packer, Jillian A. Parker, Jean K. McClure, Nakita Buenbrazo, Warren Wakarchuk, Chung, Zhenlu Li, Young Kwang Lee, Trinity and Alisdair B. Boraston Cookis, Hugo Guterres, Steven Alvarez, Md Amin e2020587118 Structural basis for IFN antagonism by human Hossain, Daniel P. Donnelly, Jeffrey N. Agar, Lee Makowski, Matthias Buck, Jay T. Groves, respiratory syncytial virus nonstructural and Carla Mattos protein 2 Jingjing Pei, Nicole D. Wagner, Angela J. Zou, Srirupa e2017184118 Ligand effects on phase separation of Chatterjee, Dominika Borek, Aidan R. Cole, Preston J. Kim, multivalent macromolecules Christopher F. Basler, Zbyszek Otwinowski, Michael L. Kiersten M. Ruff, Furqan Dar, and Rohit V. Pappu Gross, Gaya K. Amarasinghe, and Daisy W. Leung

BIOPHYSICS AND COMPUTATIONAL BIOLOGY CELL BIOLOGY e1917853118 Cell cycle–dependent active stress drives e2024780118 The mechanics and dynamics of cancer cells epithelia remodeling sensing noisy 3D contact guidance John Devany, Daniel M. Sussman, Takaki Jihan Kim, Yuansheng Cao, Christopher Eddy, Yamamoto, M. Lisa Manning, Youyuan Deng, Herbert Levine, Wouter-Jan Rappel, and Margaret L. Gardel and Bo Sun

vi u www.pnas.org Contents Downloaded by guest on September 26, 2021 e2021945118 mTORC1-chaperonin CCT signaling regulates e2020909118 Primary sex determination in birds depends m6A RNA methylation to suppress autophagy on DMRT1 dosage, but gonadal sex does Hong-Wen Tang, Jui-Hsia Weng, Wen Xing not determine adult secondary Lee, Yanhui Hu, Lei Gu, Sungyun Cho, Gina sex characteristics Lee, Richard Binari, Cathleen Li, Min En Jason Ioannidis, Gunes Taylor, Debiao Zhao, Long Liu, Cheng, Ah-Ram Kim, Jun Xu, Zhangfei Shen, Alewo Idoko-Akoh, Daoqing Gong, Robin Lovell- Chiwei Xu, John M. Asara, John Blenis, Badge, Silvana Guioli, Mike J. McGrew, and Norbert Perrimon and Michael Clinton e2003014118 Adaptation of pancreatic cancer cells to nutrient e2018362118 Lipid droplets in mammalian eggs are utilized deprivation is reversible and requires glutamine during embryonic diapause synthetase stabilization by mTORC1 Roberta Arena, Simona Bisogno, Łukasz Gasior, Pei-Yun Tsai, Min-Sik Lee, Unmesh Jadhav, Joanna Rudnicka, Laura Bernhardt, Thomas Haaf, Insia Naqvi, Shariq Madha, Ashley Adler, Federica Zacchini, Michał Bochenek, Kinga Fic, Meeta Mistry, Sergey Naumenko, Caroline A. Ewelina Bik, Małgorzata Baranska, Anna Bodzon- Lewis, Daniel S. Hitchcock, Frederick R. Roberts, Kułakowska, Piotr Suder, Joanna Depciuch, Artur Peter DelNero, Thomas Hank, Kim C. Honselmann, Gurgul, Zbigniew Polanski, and Grazyna_ E. Ptak Vicente Morales Oyarvide, Mari Mino-Kenudson, Clary B. Clish, Ramesh A. Shivdasani, ECOLOGY and Nada Y. Kalaany e2008987118 Evolutionary relationships between drought- e2015634118 CENP-A chromatin prevents replication related traits and climate shape large stress at centromeres to avoid hydraulic safety margins in western structural aneuploidy North American oaks Simona Giunta, Sole`ne Herve´, Ryan R. White, Therese Robert P. Skelton, Leander D. L. Anderegg, Jessica Wilhelm, Marie Dumont, Andrea Scelfo, Riccardo Diaz, Matthew M. Kling, Prahlad Papper, Laurent J. Gamba, Cheng Kit Wong, Giulia Rancati, Agata Lamarque, Sylvain Delzon, Todd E. Dawson, Smogorzewska, Hironori Funabiki, and David D. Ackerly and Daniele Fachinetti + e2007388118 Selective constraints on global e2010789118 The store-operated Ca2 entry complex plankton dispersal comprises a small cluster of STIM1 associated Ben A. Ward, B. B. Cael, Sinead Collins, with one Orai1 channel and C. Robert Young Yihan Shen, Nagendra Babu Thillaiappan, and Colin W. Taylor EVOLUTION e2020187118 Metabolic supervision by PPIP5K, an inositol e2019865118 Deep time diversity and the early radiations pyrophosphate kinase/phosphatase, of birds controls proliferation of the HCT116 tumor cell line Yilun Yu, Chi Zhang, and Xing Xu Chunfang Gu, Juan Liu, Xiaojing Liu, Haibo Zhang, Ji e2020922118 Dual oxidase enables insect gut symbiosis by Luo, Huanchen Wang, Jason W. Locasale, mediating respiratory network formation and Stephen B. Shears Seonghan Jang, Peter Mergaert, Tsubasa Ohbayashi, e2026507118 Ki-67 regulates global gene expression Kota Ishigami, Shuji Shigenobu, Hideomi Itoh, and promotes sequential stages and Yoshitomo Kikuchi of carcinogenesis e2007873118 Adaptive evolution of hybrid bacteria by Karim Mrouj, Nuria Andre´s-Sa´nchez, Geronimo horizontal gene transfer Dubra, Priyanka Singh, Michal Sobecki, Dhanvantri Jeffrey J. Power, Fernanda Pinheiro, Simone Chahar, Emile Al Ghoul, Ana Bella Aznar, Susana Pompei, Viera Kovacova, Melih Yu¨ksel, Isabel Prieto, Nelly Pirot, Florence Bernex, Benoit Rathmann, Mona Fo¨rster, Michael La¨ssig, Bordignon, Cedric Hassen-Khodja, Martin Villalba, and Berenike Maier Liliana Krasinska, and Daniel Fisher

DEVELOPMENTAL BIOLOGY GENETICS e2019749118 Dynamics of hydraulic and contractile e2021717118 Discordant clinical features of identical wave-mediated fluid transport during hypertrophic cardiomyopathy twins Drosophila oogenesis Giuliana G. Repetti, Yuri Kim, Alexandre C. Pereira, Jasmin Imran Alsous, Nicolas Romeo, Jonathan A. Jodie Ingles, Mark W. Russell, Neal K. Lakdawala, Jackson, Frank M. Mason, Jo¨rn Dunkel, Carolyn Y. Ho, Sharlene Day, Christopher Semsarian, and Adam C. Martin Barbara McDonough, Steven R. DePalma, Daniel e2016517118 ASCL2 reciprocally controls key trophoblast Quiat, Eric M. Green, Christine E. Seidman, and J. G. Seidman lineage decisions during hemochorial placenta development e2023952118 A versatile platform for locus-scale genome Kaela M. Varberg, Khursheed Iqbal, Masanaga rewriting and verification Muto, Mikaela E. Simon, Regan L. Scott, Keisuke Ran Brosh, Jon M. Laurent, Raquel Ordon˜ez, Emily Kozai, Ruhul H. Choudhury, John D. Aplin, Rebecca Huang, Megan S. Hogan, Angela M. Hitchcock, Biswell, Margaret Gibson, Hiroaki Okae, Takahiro Leslie A. Mitchell, Sudarshan Pinglay, John A. Cadley, Arima, Jay L. Vivian, Elin Grundberg, Raven D. Luther, David M. Truong, Jef D. Boeke, and Michael J. Soares and Matthew T. Maurano e2018866118 Progenitor cell diversity in the developing e2022172118 The imprinted lncRNA Peg13 regulates sexual mouse neocortex preference and the sex-specific brain Xiangbin Ruan, Bowei Kang, Cai Qi, Wenhe Lin, transcriptome in mice Jingshu Wang, and Xiaochang Zhang Maryam Keshavarz and Diethard Tautz

Contents PNAS u March 9, 2021 u vol. 118 u no. 10 u vii Downloaded by guest on September 26, 2021 e2025242118 Up-regulation of miR-34b/c by JNK and e2018834118 Host genetic control of natural killer cell FOXO3 protects from liver fibrosis diversity revealed in the Collaborative Cross Pasquale Piccolo, Rosa Ferriero, Anna Barbato, Sergio Magali S. J. Dupont, Vincent Guillemot, Pascal Attanasio, Marcello Monti, Claudia Perna, Florie Borel, Campagne, Nicolas Serafini, Solenne Marie, Xavier Patrizia Annunziata, Annamaria Carissimo, Rossella De Montagutelli, James P. Di Santo, Cegli, Luca Quagliata, Luigi M. Terracciano, Chantal and Christian A. J. Vosshenrich Housset, Jeffrey H. Teckman, Christian Mueller, e2011170118 IDO1 scavenges reactive oxygen species in and Nicola Brunetti-Pierri myeloid-derived suppressor cells to prevent e2020429118 Comparative parallel analysis of RNA ends graft-versus-host disease identifies mRNA substrates of a tRNA Ji-Min Ju, Giri Nam, Young-Kwan Lee, Minho Jung, splicing endonuclease-initiated Hanna Chang, Woojin Kim, Woo Jeong Shon, Ji mRNA decay pathway Young Lim, Joo Young Kim, Jun Chang, Chang Ki Min, Jennifer E. Hurtig, Michelle A. Steiger, Vinay K. Dong-Sup Lee, Kyungho Choi, Dong-Mi Shin, Nagarajan, Tao Li, Ti-Chun Chao, Kuang-Lei Tsai, and Eun Young Choi and Ambro van Hoof e2013374118 Cysteinyl-specialized proresolving mediators e2016900118 Genome-wide shifts in climate-related link resolution of infectious inflammation and variation underpin responses to selective tissue regeneration via TRAF3 activation breeding in a widespread conifer Nan Chiang, Xavier de la Rosa, Stephania Ian R. MacLachlan, Tegan K. McDonald, Brandon M. Libreros, Hui Pan, Jonathan M. Dreyfuss, Lind, Loren H. Rieseberg, Sam Yeaman, and Charles N. Serhan and Sally N. Aitken e2000663118 Human DNA methylation signatures differentiate persistent from resolving IMMUNOLOGY AND INFLAMMATION MRSA bacteremia e2025596118 An in vivo method for diversifying the Yu-Ling Chang, Maura Rossetti, David W. Gjertson, functions of therapeutic antibodies Liudmilla Rubbi, Michael Thompson, Dennis J. Ming Tian, Hwei-Ling Cheng, Michael T. Kimble, Kelly Montoya, Marco Morselli, Felicia Ruffin, McGovern, Peyton Waddicor, Yiwei Chen, Elizabeth Alexander Hoffmann, Matteo Pellegrini, Vance G. Cantor, Mengting Qiu, Marie-Elen Tuchel, Mai Dao, Fowler Jr, Michael R. Yeaman, Elaine F. Reed, and Frederick W. Alt and with the MRSA Systems Immunology Group e2018090118 Sialoglycan recognition is a common connection linking acidosis, zinc, MEDICAL SCIENCES and HMGB1 in sepsis e2021726118 Influence of a COVID-19 vaccine’s Shoib S. Siddiqui, Chirag Dhar, Venkatasubramaniam effectiveness and safety profile on Sundaramurthy, Aniruddha Sasmal, Hai Yu, Esther vaccination acceptance Bandala-Sanchez, Miaomiao Li, Xiaoxiao Zhang, Xi Robert M. Kaplan and Arnold Milstein Chen, Leonard C. Harrison, Ding Xu, and Ajit Varki e2024852118 Elevated cerebrospinal fluid cytokine levels in e2016587118 Pericytes regulate vascular immune tuberculous meningitis predict survival in homeostasis in the CNS response to dexamethasone Orsolya To¨ro¨k, Bettina Schreiner, Johanna Laura J. Whitworth, Rajan Troll, Antonio J. Paga´n, Schaffenrath, Hsing-Chuan Tsai, Upasana Maheshwari, Francisco J. Roca, Paul H. Edelstein, Mark Troll, Sebastian A. Stifter, Christina Welsh, Ana Amorim, David M. Tobin, Nguyen Hoan Phu, Nguyen Duc Sucheta Sridhar, Sebastian G. Utz, Wiebke Bang, Guy E. Thwaites, Nguyen Thuy Thuong Thuong, Mildenberger, Sina Nassiri, Mauro Delorenzi, Adriano Roger F. Sewell, and Lalita Ramakrishnan Aguzzi, May H. Han, Melanie Greter, Burkhard Becher, and Annika Keller e2005894118 Pathogenic LRRK2 regulates ciliation probability e2000915118 Targeting tumor-derived NLRP3 reduces upstream of tau tubulin kinase 2 via melanoma progression by limiting Rab10 and RILPL1 proteins MDSCs expansion Yuriko Sobu, Paulina S. Wawro, Herschel S. Dhekne, Wondwossen M. Yeshaw, and Suzanne R. Pfeffer Isak W. Tengesdal, Dinoop R. Menon, Douglas G. Osborne, Charles P. Neff, Nicholas E. Powers, Fabia Gamboni, Adolfo G. Mauro, Angelo MICROBIOLOGY D’Alessandro, Davide Stefanoni, Morkos A. Henen, Taylor S. Mills, Dennis M. De Graaf, Tania Azam, Beat e2023438118 Transcriptional heterogeneity and tightly Vogeli, Brent E. Palmer, Eric M. Pietras, James regulated changes in gene expression during DeGregori, Aik-Choon Tan, Leo A. B. Joosten, Plasmodium berghei sporozoite development Mayumi Fujita, Charles A. Dinarello, Haikel N. Bogale, Tales V. Pascini, Sachie Kanatani, and Carlo Marchetti Juliana M. Sa´, Thomas E. Wellems, Photini Sinnis, Joel e2026461118 Local induction of bladder Th1 responses to Vega-Rodrı´guez, and David Serre combat urinary tract infections e2019462118 Structural basis for a bacterial Pip system plant Jianxuan Wu, Chunjing Bao, R. Lee Reinhardt, effector recognition protein and Soman N. Abraham Shukun Luo, Bruna G. Coutinho, Prikshat Dadhwal, e2017089118 TAp73 represses NF-κB–mediated Yasuhiro Oda, Jiahong Ren, Amy L. Schaefer, recruitment of tumor-associated E. Peter Greenberg, Caroline S. Harwood, and Liang Tong macrophages in breast cancer ’ Johanna Wolfsberger, Habib A. M. Sakil, Leilei Zhou, e2016653118 Kaposi s sarcoma herpesvirus is associated Niek van Bree, Elena Baldisseri, Sabrina de Souza with osteosarcoma in Xinjiang populations Ferreira, Veronica Zubillaga, Marina Stantic, Nicolas Qian Chen, Jiangtao Chen, Yuqing Li, Dawei Liu, Yan Fritz, Johan Hartman, Charlotte Rolny, Zeng, Zheng Tian, Akbar Yunus, Yong Yang, Jie Lu, and Margareta T. Wilhelm Xinghua Song, and Yan Yuan

viii u www.pnas.org Contents Downloaded by guest on September 26, 2021 e2008007118 Evaluating the potential efficacy and limitations e2022701118 Spine dynamics of PSD-95-deficient neurons in of a phage for joint antibiotic and phage therapy the visual cortex link silent synapses to of Staphylococcus aureus infections structural cortical plasticity Brandon A. Berryhill, Douglas L. Huseby, Rashad Yusifov, Anja Tippmann, Jochen F. Staiger, Ingrid C. McCall, Diarmaid Hughes, Oliver M. Schlu¨ter, and Siegrid Lo¨wel and Bruce R. Levin e2009469118 Dysregulation of myelin synthesis and e2018312118 Phytophthora sojae effector Avr1d functions actomyosin function underlies aberrant as an E2 competitor and inhibits ubiquitination myelin in CMT4B1 neuropathy activity of GmPUB13 to facilitate infection Marta Guerrero-Valero, Federica Grandi, Silvia Yachun Lin, Qinli Hu, Jia Zhou, Weixiao Yin, Cipriani, Valeria Alberizzi, Roberta Di Guardo, Gaetan Deqiang Yao, Yuanyuan Shao, Yao Zhao, Baodian Chicanne, Linda Sawade, Francesca Bianchi, Ubaldo Guo, Yeqiang Xia, Qian Chen, Yan Wang, Wenwu Ye, Del Carro, Ivan De Curtis, Davide Pareyson, Yesim Qi Xie, Brett M. Tyler, Weiman Xing, Parman, Angelo Schenone, Volker Haucke, Bernard and Yuanchao Wang Payrastre, and Alessandra Bolino e2022024118 N6-methyladenosine modification of HCV e2007724118 Excitatory cholecystokinin neurons of the RNA genome regulates cap-independent midbrain integrate diverse temporal responses IRES-mediated translation via and drive auditory thalamic subdomains YTHDC2 recognition Lauren J. Kreeger, Catherine J. Connelly, Preeti Mehta, Geon-Woo Kim and Aleem Siddiqui Boris V. Zemelman, and Nace L. Golding e2019467118 HIV-1 cores retain their integrity until minutes e2015685118 Nonthermal and reversible control of neuronal before uncoating in the nucleus signaling and behavior by midinfrared stimulation Chenglei Li, Ryan C. Burdick, Kunio Nagashima, Xi Liu, Zhi Qiao, Yuming Chai, Zhi Zhu, Kaijie Wu, Wei-Shau Hu, and Vinay K. Pathak Wenliang Ji, Daguang Li, Yujie Xiao, Lanqun Mao, Chao Chang, Quan Wen, Bo Song, and Yousheng Shu e2005568118 NF-κB–induced R-loop accumulation and DNA damage select for nucleotide excision repair PHYSIOLOGY deficiencies in adult T cell leukemia e2019346118 A multiplier peroxiporin signal transduction Yunlong He, Nagesh Pasupala, Huijun Zhi, Batsuhk pathway powers piscine spermatozoa Dorjbal, Imran Hussain, Hsiu-Ming Shih, Sharmistha Franc¸ois Chauvigne´, Carla Ducat, Alba Ferre´, Tom Bhattacharyya, Roopa Biswas, Milos Miljkovic, Oliver Hansen, Montserrat Carrascal, Joaquı´n Abia´n, John Semmes, Thomas A. Waldmann, Andrew L. Roderick Nigel Finn, and Joan Cerda` Snow, and Chou-Zen Giam PLANT BIOLOGY e2021048118 Posttranslational regulation of multiple clock- related transcription factors triggers cold- e2019826118 Drosophila clock cells use multiple mechanisms to transmit time-of-day signals in inducible gene expression in Arabidopsis the brain Satoshi Kidokoro, Kentaro Hayashi, Hiroki Haraguchi, Tomona Ishikawa, Fumiyuki Soma, Izumi Konoura, Annika F. Barber, Shi Yi Fong, Anna Kolesnik, Michael Satomi Toda, Junya Mizoi, Takamasa Suzuki, Kazuo Fetchko, and Amita Sehgal Shinozaki, and Kazuko Yamaguchi-Shinozaki e2020858118 Monocyte markers correlate with immune and e2020646118 Superoxide is promoted by sucrose and neuronal brain changes in REM sleep affects amplitude of circadian rhythms in behavior disorder the evening Kristine Farmen, Sara K. Nissen, Morten G. A´ngela Roma´n, Xiang Li, Dongjing Deng, John W. Davey, Stokholm, Alex Iranzo, Karen Østergaard, Sally James, Ian A. Graham, and Michael J. Haydon Mo´nica Serradell, Marit Otto, Kristina B. Svendsen, Alicia Garrido, Dolores Vilas, Per e2026330118 Predicting transcriptional responses to cold Borghammer, Joan Santamaria, Arne Møller, Carles stress across plant species Gaig, David J. Brooks, Eduardo Tolosa, Nicola Xiaoxi Meng, Zhikai Liang, Xiuru Dai, Yang Zhang, Pavese, and Marina Romero-Ramos Samira Mahboub, Daniel W. Ngu, Rebecca L. Roston, e2013056118 Complexity and graded regulation of neuronal and James C. Schnable cell-type–specific alternative splicing revealed e2008747118 Negative regulation of plastidial isoprenoid by single-cell RNA sequencing pathway by herbivore-induced β-cyclocitral Huijuan Feng, Daniel F. Moakley, Shuonan in Arabidopsis thaliana Chen, Melissa G. McKenzie, Vilas Menon, Sirsha Mitra, Roger Estrada-Tejedor, Daniel C. Volke, and Chaolin Zhang Michael A. Phillips, Jonathan Gershenzon, e2021238118 Volitional learning promotes theta phase and Louwrance P. Wright coding in the human hippocampus e2021351118 SUMO enables substrate selectivity by Daniel Pacheco Estefan, Riccardo Zucca, Xerxes mitogen-activated protein kinases to Arsiwalla, Alessandro Principe, Hui Zhang, regulate immunity in plants Rodrigo Rocamora, Nikolai Axmacher, Vivek Verma, Anjil K. Srivastava, Catherine Gough, and Paul F. M. J. Verschure Alberto Campanaro, Moumita Srivastava, Rebecca e2009579118 Inhibition of neuroinflammatory nitric Morrell, Joshua Joyce, Mark Bailey, Cunjin Zhang, oxide signaling suppresses glycation Patrick J. Krysan, and Ari Sadanandom and prevents neuronal dysfunction e2024633118 Evolution of Ycf54-independent chlorophyll in mouse prion disease biosynthesis in cyanobacteria Julie-Myrtille Bourgognon, Jereme G. Spiers, Guangyu E. Chen, Andrew Hitchcock, Jan Mares, Sue W. Robinson, Hannah Scheiblich, Paul Glynn, Yanhai Gong, Martin Tichy´, Jan Pilny´, Lucie Kova´rova´, Catharine Ortori, Sophie J. Bradley, Andrew B. Tobin, Barbora Zdvihalova´, Jian Xu, C. Neil Hunter, and Joern R. Steinert and Roman Sobotka

Contents PNAS u March 9, 2021 u vol. 118 u no. 10 u ix Downloaded by guest on September 26, 2021 POPULATION BIOLOGY CHEMISTRY, BIOCHEMISTRY e2020023118 A metapopulation model of social group dynamics e2101569118 Mechanistic approaches for chemically and disease applied to Yellowstone wolves modifying the coordination sphere of Ellen E. Brandell, Andrew P. Dobson, Peter J. Hudson, copper–amyloid-β complexes Paul C. Cross, and Douglas W. Smith Jiyeon Han, Hyuck Jin Lee, Kyu Yeon Kim, Geewoo Nam, Junghyun Chae, and Mi Hee Lim PSYCHOLOGICAL AND COGNITIVE SCIENCES e2022912118 Aggression heuristics underlie animal dominance hierarchies and provide evidence GENETICS of group-level social information e2102070118 De novo mutations across 1,465 diverse Elizabeth A. Hobson, Dan Mønster, and Simon DeDeo genomes reveal mutational insights and reductions in the Amish founder population SUSTAINABILITY SCIENCE Michael D. Kessler, Douglas P. Loesch, James A. e2015764118 Human arrival and landscape dynamics in the Perry, Nancy L. Heard-Costa, Daniel Taliun, northern Bahamas Brian E. Cade, Heming Wang, Michelle Daya, Patricia L. Fall, Peter J. van Hengstum, Lisa Lavold- John Ziniti, Soma Datta, Juan C. Celedo´n, Foote, Jeffrey P. Donnelly, Nancy A. Albury, Manuel E. Soto-Quiros, Lydiana Avila, Scott T. and Anne E. Tamalavage Weiss, Kathleen Barnes, Susan S. Redline, Ramachandran S. Vasan, Andrew D. Johnson, Rasika A. Mathias, Ryan Hernandez, James G. Wilson, SYSTEMS BIOLOGY Deborah A. Nickerson, Goncalo Abecasis, Sharon R. e2022312118 Emergent robustness of bacterial quorum Browning, Sebastian Zo¨llner, Jeffrey R. O’Connell, sensing in fluid flow Braxton D. Mitchell, National Heart, Lung, and Blood Mohit P. Dalwadi and Philip Pearce Institute Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Population Genetics Working Group, and Timothy D. O’Connor CORRECTIONS PLANT BIOLOGY BIOPHYSICS AND COMPUTATIONAL BIOLOGY e2102232118 Naphthylphthalamic acid associates with and e2102112118 Cryo-SOFI enabling low-dose super-resolution inhibits PIN auxin transporters correlative light and electron cryo-microscopy Lindy Abas, Martina Kolb, Johannes Stadlmann, Felipe Moser, Vojtech Praza´k, Valerie Mordhorst, Dorina P. Janacek, Kristina Lukic, Claus De´bora M. Andrade, Lindsay A. Baker, Christoph Schwechheimer, Leonid A. Sazanov, Lukas Mach, Hagen, Kay Gru¨newald, and Rainer Kaufmann Jirı´ Friml, and Ulrich Z. Hammes

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