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Current Issue of PLoSBiology


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September 2025

Lysosomes are essential for neuronal homeostasis, providing degradation and recycling functions necessary to support neurons’ complex operations and long lifespans. However, the regulation of lysosomal degradative capacity in healthy neurons is poorly understood. Here, Zhong and Richardson investigate the role of HLH-30, the sole Caenorhabditis elegans homolog of Transcription Factor EB (TFEB), a master regulator of lysosome biogenesis and autophagy that is thought to predominantly function in the context of starvation or stress. The authors demonstrate that HLH-30 is dispensable for neuronal development but acts cell-intrinsically to expand lysosomal degradative capacity during early adulthood. Loss of HLH-30 leads to lysosomal dysfunction and delayed turnover of synaptic vesicle proteins from the synapse. Overall, their study establishes a critical role for HLH-30/TFEB in promoting lysosomal capacity to preserve neuronal homeostasis and structural integrity of mature neurons in vivo. The image shows the morphology of the C. elegans PVD neuron in wild-type animals (upper) versus TFEB/hlh-30 loss-of-function mutant animals (lower) in mid-adulthood. In the TFEB/hlh-30 mutant, but not in wild-type, dendrite degeneration and disorganized outgrowths are visible.

Image Credit: Ruiling Zhong and Claire Richardson

Consensus View

Ending publication bias: A values-based approach to surface null and negative results

Stephen Curry, Eunice Mercado-Lara, Virginia Arechavala-Gomeza, C. Glenn Begley, Christophe Bernard, René Bernard, Stefano Bertuzzi, Needhi Bhalla, Dawn Bowers, Samuel Brod, Christopher Chambers, Michael R. Dougherty, Yensi Flores Bueso, Stefânia Forner, Alexandra L. J. Freeman, Magali Haas, Darla P. Henderson, Kanika Khanna, Rebecca Lawrence, Kif Liakath-Ali, Christine Liu, Neil Malhotra, José G. Merino, Edward Miguel, Rachel Miles, Mary Munson, Shinichi Nakagawa, Robert Nobles, Joy Owango, Michel Tuan Pham, Gina Poe, Alexandra N. Ramirez, Sarvenaz Sarabipour, Jill L. Silverman, Laura N. Smith, P. Sriramarao, Paul W. Sternberg, Geeta K. Swamy, Malú Gámez Tansey, Gonzalo E. Torres, Erick H. Turner, Lauren von Klinggraeff, Frances Weis-Garcia

Unsolved Mystery

Why does the m6A writer complex require so many proteins?

Kiran Pandey, Hui Xian Poh, Samie R. Jaffrey

Perspectives

Transformative change to address biodiversity loss is urgent and possible

Anne Larigauderie, Karen O’Brien, Lucas A. Garibaldi, Arun Agrawal

Global antimicrobial resistance—The ostrich’s head is in the sand

Susanna J. Dunachie, Mariagrazia Pizza

Research Articles

Continuous monitoring and machine vision reveals that developing gerbils exhibit structured social behaviors prior to the emergence of autonomy

Catalin Mitelut, Marielisa Diez Castro, Ralph E. Peterson, Maria Gonçalves, Jennifer Li, Madeline Gamer, Simon RO Nilsson, Talmo D. Pereira, Dan H. Sanes

Catecholamines reduce choice history biases in perceptual decision making

Jan Willem de Gee, Niels A. Kloosterman, Anke Braun, Tobias H. Donner

Short-term memory errors are strongly associated with a drift in neural activity in the posterior parietal cortex

Joon Ho Choi, Sungwon Bae, Jiho Park, Minsu Yoo, Chul Hoon Kim, Lukas Ian Schmitt, Youngbin Tchoe, Dongil Chung, Ji-Woong Choi, Jong-Cheol Rah

Coordinated hippocampal–entorhinal representations support human context-dependent spatial navigation

Pengcheng Lv, Dong Chen, Chao Zhang, Wei Duan, Pingping Lu, Kai Zhang, Liang Wang

Developmental auditory deprivation in one ear impairs brainstem binaural processing and reduces spatial hearing acuity

Kelsey L. Anbuhl, Alexander T. Ferber, Andrew D. Brown, Victor Benichoux, Nathaniel T. Greene, Daniel J. Tollin

Neuropeptide-mediated synaptic plasticity regulates context-dependent mating behaviors in Drosophila

Tianmu Zhang, Zekun Wu, Yutong Song, Tae Hoon Ryu, Xiaoli Zhang, Wenjing Li, Yanying Sun, Kyle Wong, Justine Schweizer, Khoi-Nguyen Ha Nguyen, Alex Kwan, Kweon Yu, Woo Jae Kim

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Coupling between spatial compartments integrates morphogenetic patterning in the organ of Corti

Anubhav Prakash, Sukanya Raman, Raman Kaushik, Pallavi Manchanda, Anton S. Iyer, Raj K. Ladher

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Pdgfab/Pdgfra-mediated chemoattraction guides the migration of sclerotome-derived fibroblast precursors in zebrafish

Emilio E. Méndez-Olivos, Katrinka M. Kocha, Joshua Bloomekatz, Shan Liao, Peng Huang

A BRC1-modulated switch in auxin efflux accounts for the competition between Arabidopsis axillary buds

Zoe Nahas, Anthony John Bridgen, Torkel E. Loman, Jean Dillon, Katie Abley, Dora L. Cano-Ramirez, Fabrizio Ticchiarelli, Madeleine Seale, James C. W. Locke, Ottoline Leyser

SIFa peptidergic neurons orchestrate the internal states and energy balance of male Drosophila melanogaster

Yutong Song, Tianmu Zhang, Tae Hoon Ryu, Kyle Wong, Zekun Wu, Yanan Wei, Justine Schweizer, Khoi-Nguyen Ha Nguyen, Alex Kwan, Xiaoli Zhang, Kweon Yu, Woo Jae Kim

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O-GlcNAcylation of nuclear proteins in the mouse liver exhibit daily oscillations that are influenced by meal timing

Xianhui Liu, Yao D. Cai, Chunyan Hou, Xu Liu, Youcheng Luo, Aron Judd P. Mendiola, Xuehan Xu, Yige Luo, Haiyan Zheng, Caifeng Zhao, Ching-Hsuan Chen, Yong Zhang, Yang K. Xiang, Junfeng Ma, Joanna C. Chiu

Maternal food-derived signals oscillate in the fetal suprachiasmatic nucleus before its circadian clock develops

Martin Sládek, Pavel Houdek, Tomáš Čajka, Alena Sumová

Mitochondrial Complex I and ROS control neuromuscular function through opposing pre- and postsynaptic mechanisms

Bhagaban Mallik, Sajad A. Bhat, Xinnan Wang, C. Andrew Frank

Neuron-specific Agrin splicing by Nova RNA-binding proteins regulates conserved neuromuscular junction development in chordates

Md. Faruk Hossain, Sydney Popsuj, Burcu Vitrinel, Nicole A. Kaplan, Alberto Stolfi, Lionel Christiaen, Matteo Ruggiu

Microglial deficiency in the ATRX chromatin remodeler elicits a viral mimicry immune response that impacts neuronal function and behavior

Sarfraz Shafiq, Alireza Ghahramani, Kasha Mansour, Miguel Pena-Ortiz, Julia K. Sunstrum, Milica Pavlovic, Yan Jiang, Megan E. Rowland, Wataru Inoue, Nathalie G. Bérubé

The immune receptor SLAMF5 regulates myeloid-cell mediated neuroinflammation in multiple sclerosis

Laura Bellassen, Keren David, Bar Lampert, Avital Sarusi-Portuguez, Michael Tsoory, Jazz Lubliner, Eran Hornstein, Michael Osherov, Ron Milo, Ori Brenner, Shirly Becker-Herman, Idit Shachar

The mTORC2 subunit RICTOR drives breast cancer progression by promoting ganglioside biosynthesis through transcriptional and epigenetic mechanisms

Mohammad Nafees Ansari, Somesh K. Jha, Ali Khan, Kajal Rajput, Nishant Pandey, Dolly Jain, Rajeshwari Tripathi, Nihal Medatwal, Pankaj Sharma, Sudeshna Datta, Animesh Kar, Trishna Pani, Sk Asif Ali, Kaushavi Cholke, Kajal Rana, Valiya P. Snijesh, Geetashree Mukherjee, Suryanarayana V. S. Deo, Soumen Basak, Ashutosh Mishra, Jyothi S. Prabhu, Arnab Mukhopadhyay, Avinash Bajaj, Ujjaini Dasgupta

The interplay between Wnt and mTOR signaling modulates ciliogenesis in human retinal epithelial cells

Cheng Yuan, Annett Neuner, Johanna Streubel, Ayushi Bhanushali, Matias Simons, Sergio P. Acebrón, Gislene Pereira

Unconventional codon usage bias mediates mRNA translational dynamics in macrophages

Shiqi Luo, Qiuyi Wang, Ao Chen, Liang Huang, Yaoqi Liu, Xin Zong, Yuanhui Mao

Expression of intron-containing HIV-1 RNA induces NLRP1 inflammasome activation in myeloid cells

Sallieu Jalloh, Ivy K. Hughes, Hisashi Akiyama, Aldana D. Gojanovich, Andres A. Quiñones-Molina, Mengwei Yang, Andrew J. Henderson, Gustavo Mostoslavsky, Suryaram Gummuluru

Plasma membrane recycling drives reservoir formation during Toxoplasma gondii intracellular replication

Julia von Knoerzer-Suckow, Eva-Helena Aden, Romuald Haase, Andreas Klingl, Ignasi Forné, Simon Gras

XDH-1 inactivation causes xanthine stone formation in Caenorhabditis elegans which is inhibited by SULP-4-mediated anion exchange in the excretory cell

Jennifer Snoozy, Sushila Bhattacharya, Brandon Johnson, Robin R. Fettig, Ashley Van Asma, Chloe Brede, Sophia G. Miller, Martina Ralle, Kurt Warnhoff

Cross‐species rescue reveals sequence requirements for a rapidly evolving intrinsically disordered region

Sang On Park, Rishad Khondker, Ariel Blank, Annie Dyatel, Corey Frazer, Richard J. Bennett, Robert J. D. Reid, Rodney Rothstein, Luke E. Berchowitz

Hexokinase 2 is an RNA-binding protein that regulates mRNA translation independently of glycolysis and induces melanoma cell proliferation

Ana Luisa Dian, Lucilla Fabbri, Antoine Moya-Plana, Giuseppina Claps, Juliana C. Ferreira, Céline M. Labbé, Virginie Quidville, Sylvain Martineau, Dorothée Baille, Laetitia Besse, Cédric Messaoudi, Séverine Roy, Virginie Raynal, Sylvain Baulande, Wael M. Rabeh, Caroline Robert, Stéphan Vagner

Short Reports

Genetic variation influences food-sharing sociability in honey bees

Ian M. Traniello, Arian Avalos, Michael J. M. Gachomba, Tim Gernat, Zhenqing Chen, Amy C. Cash-Ahmed, Adam R. Hamilton, Jennifer L. Cook, Gene E. Robinson

Viral expansion after transfer is a primary driver of influenza A virus transmission bottlenecks

Katie E. Holmes, Lucas M. Ferreri, Baptiste Elie, Ketaki Ganti, Chung-Young Lee, David VanInsberghe, Anice C. Lowen

Humans have a longer period of cortical maturation across depth and hierarchy than macaques

Monami Nishio, Xingyu Liu, Allyson P. Mackey, Michael J. Arcaro

Extinction and subsequent updating of innate fear responses to a visual looming stimulus rely on hippocampus-dependent mechanisms

Paul B. Conway, Livia Autore, Andrea Muñoz Zamora, Antoine Harel, Zijun Wang, Armn A. Tavallaei, Stephen M. Winston, Clara Ortega-de San Luis, James D. O’Leary, Mark A. Brimble, Gisella Vetere, Tomás J. Ryan

Uropathogenic Escherichia coli proliferate as a coccoid morphotype inside human host cells

Alaska Pokhrel, Lachlan Chisholm, Ariana Costas, Matthew Pittorino, Iain G. Duggin, Bill Söderström

Cathepsin Z is a conserved susceptibility factor underlying tuberculosis severity

Rachel K. Meade, Oyindamola O. Adefisayo, Marco T. P. Gontijo, Summer J. Harris, Charlie J. Pyle, Kaley M. Wilburn, Alwyn M. V. Ecker, Erika J. Hughes, Paloma D. Garcia, Joshua Ivie, Michael L. McHenry, Penelope H. Benchek, Harriet Mayanja-Kizza, Jadee L. Neff, Dennis C. Ko, Jason E. Stout, Catherine M. Stein, Thomas R. Hawn, David M. Tobin, Clare M. Smith

Impaired hematopoiesis and embryonic lethality at midgestation of mice lacking both lipid transfer proteins VPS13A and VPS13C

Peng Xu, Rubia Isler Mancuso, Marianna Leonzino, Caroline J. Zeiss, Diane S. Krause, Pietro De Camilli

Repair of oxidized methionine residues in the chaperone Spy maintains periplasmic proteostasis under chlorite stress in Escherichia coli

Laurent Loiseau, Nathan De Visch, Alexandra Vergnes, Jean Armengaud, Maxence S. Vincent, Benjamin Ezraty

Methods and Resources

Sensitive red fluorescent indicators for real-time visualization of potassium ion dynamics in vivo

Lina Yang, Vishaka Pathiranage, Shihao Zhou, Xiaoting Sun, Hanbin Zhang, Cuixin Lai, Chenlei Gu, Fedor V. Subach, Mikhail Drobizhev, Alice R. Walker, Kiryl D. Piatkevich

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Meta-Research Articles

Language, economic and gender disparities widen the scientific productivity gap

Tatsuya Amano, Valeria Ramírez-Castañeda, Violeta Berdejo-Espinola, Israel Borokini, Shawan Chowdhury, Marina Golivets, Juan David González-Trujillo, Flavia Montaño-Centellas, Kumar Paudel, Rachel L. White, Diogo Veríssimo

Breaking the reproducibility barrier with standardized protocols for plant–microbiome research

Vlastimil Novak, Peter F. Andeer, Eoghan King, Jacob Calabria, Connor Fitzpatrick, Jana M. Kelm, Kathrin Wippel, Suzanne M. Kosina, Benjamin P. Bowen, Chris Daum, Matthew Zane, Archana Yadav, Mingfei Chen, Dor Russ, Catharine A. Adams, Trenton K. Owens, Bradie Lee, Yezhang Ding, Zineb Sordo, Romy Chakraborty, Simon Roux, Adam M. Deutschbauer, Daniela Ushizima, Karsten Zengler, Borjana Arsova, Jeffery L. Dangl, Paul Schulze-Lefert, Michelle Watt, John P. Vogel, Trent R. Northen

Discovery Reports

Gut fungi are associated with human genetic variation and disease risk

Emily P. Van Syoc, Emily R. Davenport, Seth R. Bordenstein

Gut fungal profiles reveal phylosymbiosis and codiversification across humans and nonhuman primates

Emily P. Van Syoc, Andres Gomez, Emily R. Davenport, Seth R. Bordenstein

Update Article

The modern expansion of Dscam1 isoform diversity in Drosophila is linked to fitness and immunity

Haiyang Dong, Lili Wu, Zhechao Wang, Huiru Qu, Jinpeng Xie, Yaoqi Liu, Jingsong Lv, Nengcheng Bao, Jian Zhang, Pengjuan Guo, Ru Yan, Jiayan Fu, Jilong Shi, Ying Fu, Lei Li, Yiwen Du, Hongru Ma, Feng Shi, Jianhua Huang, Yongfeng Jin

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