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Current Issue of PLoSBiology

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Table of Contents

April 2024

Cover

Symbiosis across the tree of life
Issue Image

Symbiosis research has become a holistic and pervasive field with a mature theoretical basis. Extraordinary diversity in symbiotic relationships exists across the tree of life. The aim of this collection is to showcase the diversity of these relationships, exploring their evolutionary basis and underlying mechanisms. This image shows the ciliate Paramecium bursaria, a key model system for studying symbiosis. P. bursaria is a single-celled protist of about 0.1 mm in length which harbors over 100 green algae. The purple is the autofluorescence of the chlorophyll in the algal cells, while the light blue stain highlights the two Paramecium host nuclei. The yellow flecks indicate the Paramecium lysosomes; vesicle compartments filled with digestive enzymes which the host will use to punish and destroy algal endosymbionts that misbehave.

Image Credit: Estelle Kilias

Editorial

Symbiosis: In search of a deeper understanding

Thomas A. Richards, Nancy A. Moran

PLOS Biology: published April 12, 2024 | https://doi.org/10.1371/journal.pbio.3002595

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  2. Linking cell biology and ecology to understand coral symbiosis evolution
  3. Symbiotic revolutions at the interface of genomics and microbiology
  4. Fitness trade-offs and the origins of endosymbiosis
  5. Modeling endosymbioses: Insights and hypotheses from theoretical approaches
  6. How do bacterial endosymbionts work with so few genes?
  7. What choanoflagellates can teach us about symbiosis
  8. Symbiosis takes a front and center role in biology
  9. Mutualism on the edge: Understanding the Paramecium–Chlorella symbiosis

Essays

Modeling endosymbioses: Insights and hypotheses from theoretical approaches

Lucas Santana Souza, Josephine Solowiej-Wedderburn, Adriano Bonforti, Eric Libby

PLOS Biology: published April 10, 2024 | https://doi.org/10.1371/journal.pbio.3002583

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Fitness trade-offs and the origins of endosymbiosis

Michael A. Brockhurst, Duncan D. Cameron, Andrew P. Beckerman

PLOS Biology: published April 12, 2024 | https://doi.org/10.1371/journal.pbio.3002580

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Unsolved Mystery

How do bacterial endosymbionts work with so few genes?

John P. McCutcheon, Arkadiy I. Garber, Noah Spencer, Jessica M. Warren

PLOS Biology: published April 16, 2024 | https://doi.org/10.1371/journal.pbio.3002577

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Perspectives

Symbiosis takes a front and center role in biology

Margaret McFall-Ngai

PLOS Biology: published April 5, 2024 | https://doi.org/10.1371/journal.pbio.3002571

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Symbiotic revolutions at the interface of genomics and microbiology

John M. Archibald

PLOS Biology: published April 9, 2024 | https://doi.org/10.1371/journal.pbio.3002581

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Mutualism on the edge: Understanding the Paramecium–Chlorella symbiosis

Benjamin H. Jenkins

PLOS Biology: published April 4, 2024 | https://doi.org/10.1371/journal.pbio.3002563

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What choanoflagellates can teach us about symbiosis

Arielle Woznica

PLOS Biology: published April 3, 2024 | https://doi.org/10.1371/journal.pbio.3002561

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Linking cell biology and ecology to understand coral symbiosis evolution

Niels J. Dingemanse, Annika Guse

PLOS Biology: published April 11, 2024 | https://doi.org/10.1371/journal.pbio.3002593

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Fungal holobionts as blueprints for synthetic endosymbiotic systems

Laila P. Partida-Martínez

PLOS Biology: published April 12, 2024 | https://doi.org/10.1371/journal.pbio.3002587

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Primers

Genome-wide association studies have problems due to confounding: Are family-based designs the answer?

Alexander Strudwick Young

PLOS Biology: published April 12, 2024 | https://doi.org/10.1371/journal.pbio.3002568

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  1. Interpreting population- and family-based genome-wide association studies in the presence of confounding

Identifying causes and consequences of rhizosphere microbiome heritability

Maggie R. Wagner

PLOS Biology: published April 26, 2024 | https://doi.org/10.1371/journal.pbio.3002604

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Multiple checkpoints ensure ribosomes have the correct end

Jacob Gordon, Robin E. Stanley

PLOS Biology: published April 30, 2024 | https://doi.org/10.1371/journal.pbio.3002603

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Research Articles

Chaperone Hsp70 helps Salmonella survive infection-relevant stress by reducing protein synthesis

Carissa Chan, Eduardo A. Groisman

PLOS Biology: published April 4, 2024 | https://doi.org/10.1371/journal.pbio.3002560

Interpreting population- and family-based genome-wide association studies in the presence of confounding

Carl Veller, Graham M. Coop

PLOS Biology: published April 11, 2024 | https://doi.org/10.1371/journal.pbio.3002511

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Ecological drift during colonization drives within-host and between-host heterogeneity in an animal-associated symbiont

Jason Z. Chen, Zeeyong Kwong, Nicole M. Gerardo, Nic M. Vega

PLOS Biology: published April 25, 2024 | https://doi.org/10.1371/journal.pbio.3002304

The genotype of barley cultivars influences multiple aspects of their associated microbiota via differential root exudate secretion

Alba Pacheco-Moreno, Anita Bollmann-Giolai, Govind Chandra, Paul Brett, Jack Davies, Owen Thornton, Philip Poole, Vinoy Ramachandran, James K. M. Brown, Paul Nicholson, Chris Ridout, Sarah DeVos, Jacob G. Malone

PLOS Biology: published April 25, 2024 | https://doi.org/10.1371/journal.pbio.3002232

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The impact of phage and phage resistance on microbial community dynamics

Ellinor O. Alseth, Rafael Custodio, Sarah A. Sundius, Rachel A. Kuske, Sam P. Brown, Edze R. Westra

PLOS Biology: published April 22, 2024 | https://doi.org/10.1371/journal.pbio.3002346

Single-cell RNA-seq of Drosophila miranda testis reveals the evolution and trajectory of germline sex chromosome regulation

Kevin H-C. Wei, Kamalakar Chatla, Doris Bachtrog

PLOS Biology: published April 30, 2024 | https://doi.org/10.1371/journal.pbio.3002605

Neural populations within macaque early vestibular pathways are adapted to encode natural self-motion

Mohammad Mohammadi, Jerome Carriot, Isabelle Mackrous, Kathleen E. Cullen, Maurice J. Chacron

PLOS Biology: published April 30, 2024 | https://doi.org/10.1371/journal.pbio.3002623

Brain high-throughput multi-omics data reveal molecular heterogeneity in Alzheimer’s disease

Abdallah M. Eteleeb, Brenna C. Novotny, Carolina Soriano Tarraga, Christopher Sohn, Eliza Dhungel, Logan Brase, Aasritha Nallapu, Jared Buss, Fabiana Farias, Kristy Bergmann, Joseph Bradley, Joanne Norton, Jen Gentsch, Fengxian Wang, Albert A. Davis, John C. Morris, Celeste M. Karch, Richard J. Perrin, Bruno A. Benitez, Oscar Harari

PLOS Biology: published April 30, 2024 | https://doi.org/10.1371/journal.pbio.3002607

Mrj is a chaperone of the Hsp40 family that regulates Orb2 oligomerization and long-term memory in Drosophila

Meghal Desai, Hemant, Ankita Deo, Jagyanseni Naik, Prathamesh Dhamale, Avinash Kshirsagar, Tania Bose, Amitabha Majumdar

PLOS Biology: published April 22, 2024 | https://doi.org/10.1371/journal.pbio.3002585

Molecular circadian rhythms are robust in marine annelids lacking rhythmic behavior

N. Sören Häfker, Laurenz Holcik, Audrey M. Mat, Aida Ćorić, Karim Vadiwala, Isabel Beets, Alexander W. Stockinger, Carolina E. Atria, Stefan Hammer, Roger Revilla-i-Domingo, Liliane Schoofs, Florian Raible, Kristin Tessmar-Raible

PLOS Biology: published April 11, 2024 | https://doi.org/10.1371/journal.pbio.3002572

The development of brain pericytes requires expression of the transcription factor nkx3.1 in intermediate precursors

Suchit Ahuja, Cynthia Adjekukor, Qing Li, Katrinka M. Kocha, Nicole Rosin, Elodie Labit, Sarthak Sinha, Ankita Narang, Quan Long, Jeff Biernaskie, Peng Huang, Sarah J. Childs

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002590

Polarised cell intercalation during Drosophila axis extension is robust to an orthogonal pull by the invaginating mesoderm

Claire M. Lye, Guy B. Blanchard, Jenny Evans, Alexander Nestor-Bergmann, Bénédicte Sanson

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002611

Bruno 1/CELF regulates splicing and cytoskeleton dynamics to ensure correct sarcomere assembly Drosophila flight muscles

Elena Nikonova, Jenna DeCata, Marc Canela, Christiane Barz, Alexandra Esser, Jessica Bouterwek, Akanksha Roy, Heidemarie Gensler, Martin Heß, Tobias Straub, Ignasi Forne, Maria L. Spletter

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002575

Umbravirus-like RNA viruses are capable of independent systemic plant infection in the absence of encoded movement proteins

Xiaobao Ying, Sayanta Bera, Jinyuan Liu, Roberto Toscano-Morales, Chanyong Jang, Stephen Yang, Jovia Ho, Anne E. Simon

PLOS Biology: published April 25, 2024 | https://doi.org/10.1371/journal.pbio.3002600

Lytic bacteriophages induce the secretion of antiviral and proinflammatory cytokines from human respiratory epithelial cells

Paula F. Zamora, Thomas G. Reidy, Catherine R. Armbruster, Ming Sun, Daria Van Tyne, Paul E. Turner, Jonathan L. Koff, Jennifer M. Bomberger

PLOS Biology: published April 23, 2024 | https://doi.org/10.1371/journal.pbio.3002566

A host-directed oxadiazole compound potentiates antituberculosis treatment via zinc poisoning in human macrophages and in a mouse model of infection

Alexandra Maure, Emeline Lawarée, Francesco Fiorentino, Alexandre Pawlik, Saideep Gona, Alexandre Giraud-Gatineau, Matthew J. G. Eldridge, Anne Danckaert, David Hardy, Wafa Frigui, Camille Keck, Claude Gutierrez, Olivier Neyrolles, Nathalie Aulner, Antonello Mai, Mélanie Hamon, Luis B. Barreiro, Priscille Brodin, Roland Brosch, Dante Rotili, Ludovic Tailleux

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002259

Optogenetic manipulation of lysosomal physiology and autophagy-dependent clearance of amyloid beta

Wenping Zeng, Canjun Li, Ruikun Wu, Xingguo Yang, Qingyan Wang, Bingqian Lin, Yanan Wei, Hao Li, Ge Shan, Lili Qu, Chunlei Cang

PLOS Biology: published April 23, 2024 | https://doi.org/10.1371/journal.pbio.3002591

CFDP1 regulates the stability of pericentric heterochromatin thereby affecting RAN GTPase activity and mitotic spindle formation

Gokul Gopinathan, Qian Xu, Xianghong Luan, Thomas G. H. Diekwisch

PLOS Biology: published April 17, 2024 | https://doi.org/10.1371/journal.pbio.3002574

Mitofusin-mediated contacts between mitochondria and peroxisomes regulate mitochondrial fusion

Cynthia Alsayyah, Manish K. Singh, Maria Angeles Morcillo-Parra, Laetitia Cavellini, Nadav Shai, Christine Schmitt, Maya Schuldiner, Einat Zalckvar, Adeline Mallet, Naïma Belgareh-Touzé, Christophe Zimmer, Mickaël M. Cohen

PLOS Biology: published April 26, 2024 | https://doi.org/10.1371/journal.pbio.3002602

The human AAA-ATPase VPS4A isoform and its co-factor VTA1 have a unique function in regulating mammalian cytokinesis abscission

Inbar Dvilansky, Yarin Altaras, Nikita Kamenetsky, Dikla Nachmias, Natalie Elia

PLOS Biology: published April 30, 2024 | https://doi.org/10.1371/journal.pbio.3002327

Bacillus subtilis uses the SigM signaling pathway to prioritize the use of its lipid carrier for cell wall synthesis

Ian J. Roney, David Z. Rudner

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002589

The C-terminus of the prototypical M2 muscarinic receptor localizes to the mitochondria and regulates cell respiration under stress conditions

Irene Fasciani, Francesco Petragnano, Ziming Wang, Ruairidh Edwards, Narasimha Telugu, Ilaria Pietrantoni, Ulrike Zabel, Henrik Zauber, Marlies Grieben, Maria E. Terzenidou, Jacopo Di Gregorio, Cristina Pellegrini, Silvano Santini Jr, Anna R. Taddei, Bärbel Pohl, Stefano Aringhieri, Marco Carli, Gabriella Aloisi, Francesco Marampon, Eve Charlesworth, Alexandra Roman, Sebastian Diecke, Vincenzo Flati, Franco Giorgi, Fernanda Amicarelli, Andrew B. Tobin, Marco Scarselli, Kostas Tokatlidis, Mario Rossi, Martin J. Lohse, Paolo Annibale, Roberto Maggio

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002582

Short Reports

Removal of older males increases extra-pair siring success of yearling males

Emmi Schlicht, Carol Gilsenan, Peter Santema, Agnes Türk, Andrea Wittenzellner, Bart Kempenaers

PLOS Biology: published April 16, 2024 | https://doi.org/10.1371/journal.pbio.3002584

Visual perception of highly memorable images is mediated by a distributed network of ventral visual regions that enable a late memorability response

Benjamin Lahner, Yalda Mohsenzadeh, Caitlin Mullin, Aude Oliva

PLOS Biology: published April 1, 2024 | https://doi.org/10.1371/journal.pbio.3002564

Neuronal cell cycle reentry events in the aging brain are more prevalent in neurodegeneration and lead to cellular senescence

Deng Wu, Jacquelyne Ka-Li Sun, Kim Hei-Man Chow

PLOS Biology: published April 23, 2024 | https://doi.org/10.1371/journal.pbio.3002559

Developmental fine-tuning of medial superior olive neurons mitigates their predisposition to contralateral sound sources

Martijn C. Sierksma, J. Gerard G. Borst

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002586

Direct Salmonella injection into enteroid cells allows the study of host–pathogen interactions in the cytosol with high spatiotemporal resolution

Chantal Ernst, Patrick R. Andreassen, Gabriel H. Giger, Bidong D. Nguyen, Christoph G. Gäbelein, Orane Guillaume-Gentil, Stefan A. Fattinger, Mikael E. Sellin, Wolf-Dietrich Hardt, Julia A. Vorholt

PLOS Biology: published April 29, 2024 | https://doi.org/10.1371/journal.pbio.3002597

YeeD is an essential partner for YeeE-mediated thiosulfate uptake in bacteria and regulates thiosulfate ion decomposition

Mai Ikei, Ryoji Miyazaki, Keigo Monden, Yusuke Naito, Azusa Takeuchi, Yutaro S. Takahashi, Yoshiki Tanaka, Keina Murata, Takaharu Mori, Muneyoshi Ichikawa, Tomoya Tsukazaki

PLOS Biology: published April 24, 2024 | https://doi.org/10.1371/journal.pbio.3002601

Methods and Resources

Blik is an extensible 3D visualisation tool for the annotation and analysis of cryo-electron tomography data

Lorenzo Gaifas, Moritz A. Kirchner, Joanna Timmins, Irina Gutsche

PLOS Biology: published April 30, 2024 | https://doi.org/10.1371/journal.pbio.3002447

Meta-Research Article

Shortcut citations in the methods section: Frequency, problems, and strategies for responsible reuse

Kai Standvoss, Vartan Kazezian, Britta R. Lewke, Kathleen Bastian, Shambhavi Chidambaram, Subhi Arafat, Ubai Alsharif, Ana Herrera-Melendez, Anna-Delia Knipper, Bruna M. S. Seco, Nina Nitzan Soto, Orestis Rakitzis, Isa Steinecker, Philipp van Kronenberg Till, Fereshteh Zarebidaki, Parya Abbasi, Tracey L. Weissgerber

PLOS Biology: published April 2, 2024 | https://doi.org/10.1371/journal.pbio.3002562

Update Article

The kinase Rio1 and a ribosome collision-dependent decay pathway survey the integrity of 18S rRNA cleavage

Melissa D. Parker, Elise S. Brunk, Adam J. Getzler, Katrin Karbstein

PLOS Biology: published April 25, 2024 | https://doi.org/10.1371/journal.pbio.3001767

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Formal Comments

Realism and robustness require increased sample size when studying both sexes

Szymon M. Drobniak, Malgorzata Lagisz, Yefeng Yang, Shinichi Nakagawa

PLOS Biology: published April 11, 2024 | https://doi.org/10.1371/journal.pbio.3002456

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A response to “Realism and robustness require increased sample size when studying both sexes”

Benjamin Phillips, Timo N. Haschler, Natasha A. Karp

PLOS Biology: published April 12, 2024 | https://doi.org/10.1371/journal.pbio.3002578

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