2024
Fast Fission Yeast Genome Editing by CRISPR/Cas9 Using Gap Repair and Fluoride Selection
Ren Y, Fernandez R, Saito T, Fujita B, Mousavi I, Berro J. Fast Fission Yeast Genome Editing by CRISPR/Cas9 Using Gap Repair and Fluoride Selection. Methods In Molecular Biology 2024, 2862: 141-154. PMID: 39527198, DOI: 10.1007/978-1-0716-4168-2_10.Peer-Reviewed Original ResearchCross-regulations of two connected domains form a mechanical circuit for steady force transmission during clathrin-mediated endocytosis
Ren Y, Yang J, Fujita B, Zhang Y, Berro J. Cross-regulations of two connected domains form a mechanical circuit for steady force transmission during clathrin-mediated endocytosis. Cell Reports 2024, 43: 114725. PMID: 39276354, PMCID: PMC11476202, DOI: 10.1016/j.celrep.2024.114725.Peer-Reviewed Original ResearchClathrin-mediated endocytosisF-actinActin cytoskeletonFission yeast Schizosaccharomyces pombeYeast Schizosaccharomyces pombeCell adhesion complexAdhesion complexesMembrane localizationPN forcesStable bindingEnd4pCross-regulationCytoskeletonActinEndocytosisMembraneBindingMechanical forcesTalinTransmission of forcesThatchForce transmissionDomainCellsFissionCRISPR-Cas9 editing efficiency in fission yeast is not limited by homology search and is improved by combining gap-repair with fluoride selection
Fernandez R, Berro J. CRISPR-Cas9 editing efficiency in fission yeast is not limited by homology search and is improved by combining gap-repair with fluoride selection. MicroPublication Biology 2024, 2024: 10.17912/micropub.biology.001191. PMID: 38778900, PMCID: PMC11109758, DOI: 10.17912/micropub.biology.001191.Peer-Reviewed Original ResearchFission yeastEditing efficiencyHomology searchHomologous recombinational repair machineryDonor DNACRISPR-Cas9 protocolImprove editing efficiencyCRISPR-Cas9 editingModel organismsSelectable markerCut siteYeastGenome editingRepair machineryGap repairGenomeHomologyDNAEditing sequenceFissionLociHaloTagProteinSequenceMachineryIn vivo force measurements on formin Cdc12p using new coiled-coil force sensors
Saito T, Ren Y, Berro J. In vivo force measurements on formin Cdc12p using new coiled-coil force sensors. Biophysical Journal 2024, 123: 465a. DOI: 10.1016/j.bpj.2023.11.2817.Peer-Reviewed Original Research
2023
Force redistribution in clathrin-mediated endocytosis revealed by coiled-coil force sensors
Ren Y, Yang J, Fujita B, Jin H, Zhang Y, Berro J. Force redistribution in clathrin-mediated endocytosis revealed by coiled-coil force sensors. Science Advances 2023, 9: eadi1535. PMID: 37831774, PMCID: PMC10575576, DOI: 10.1126/sciadv.adi1535.Peer-Reviewed Original ResearchConceptsActin cytoskeletonPlasma membraneHuntingtin Interacting Protein 1Clathrin-mediated endocytosisCountless cellular processesEndocytic machineryCellular processesClathrin latticesProtein condensationCytoskeletonEnd4pProtein 1Membrane deformationPiconewton forcesEndocytosisVivo force measurementsMembranePiconewtonsClathrinMachineryProteinCoatMolecular scale2A peptide from ERBV-1 efficiently separates endogenous protein domains in the fission yeast Schizosaccharomyces pombe
Ren Y, Lin Q, Berro J. 2A peptide from ERBV-1 efficiently separates endogenous protein domains in the fission yeast Schizosaccharomyces pombe. MicroPublication Biology 2023, 2023: 10.17912/micropub.biology.000941. PMID: 37767365, PMCID: PMC10520729, DOI: 10.17912/micropub.biology.000941.Peer-Reviewed Original Research
2019
Crosslinking actin networks produces compressive force
Ma R, Berro J. Crosslinking actin networks produces compressive force. Cytoskeleton 2019, 76: 346-354. PMID: 31278856, PMCID: PMC7001507, DOI: 10.1002/cm.21552.Peer-Reviewed Original Research
2018
“Essentially, all models are wrong, but some are useful”—a cross-disciplinary agenda for building useful models in cell biology and biophysics
Berro J. “Essentially, all models are wrong, but some are useful”—a cross-disciplinary agenda for building useful models in cell biology and biophysics. Biophysical Reviews 2018, 10: 1637-1647. PMID: 30421276, PMCID: PMC6297095, DOI: 10.1007/s12551-018-0478-4.Peer-Reviewed Original ResearchMolecular mechanisms of force production in clathrin‐mediated endocytosis
Lacy MM, Ma R, Ravindra NG, Berro J. Molecular mechanisms of force production in clathrin‐mediated endocytosis. FEBS Letters 2018, 592: 3586-3605. PMID: 30006986, PMCID: PMC6231980, DOI: 10.1002/1873-3468.13192.Peer-Reviewed Original ResearchQuantitative Biology of Endocytosis
Berro J, Lacy M. Quantitative Biology of Endocytosis. Colloquium Series On Quantitative Cell Biology 2018, 4: i-74. DOI: 10.4199/c00164ed1v01y201805qcb004.BooksStructural organization and energy storage in crosslinked actin assemblies
Ma R, Berro J. Structural organization and energy storage in crosslinked actin assemblies. PLOS Computational Biology 2018, 14: e1006150. PMID: 29813051, PMCID: PMC5993335, DOI: 10.1371/journal.pcbi.1006150.Peer-Reviewed Original ResearchQuantitative Biology of Endocytosis.
Berro J, Lacy MM. Quantitative Biology of Endocytosis. In: Colloquium Series on Quantitative Cell Biology (Marshall WF, ed). San Rafael (CA): Morgan & Claypool Life Sciences Publishers. doi: 10.4199/C00164ED1V01Y201805QCB004. ISBN: 9781615047864 (hardcover)/ 9781615047840 (paperback) / 9781615047857 (ebook).Books
2017
High-speed super-resolution imaging of the proteins in fission yeast clathrin-mediated endocytic actin patches
Arasada R, Sayyad WA, Berro J, Pollard TD. High-speed super-resolution imaging of the proteins in fission yeast clathrin-mediated endocytic actin patches. Molecular Biology Of The Cell 2017, 29: mbc.e17-06-0415. PMID: 29212877, PMCID: PMC5996959, DOI: 10.1091/mbc.e17-06-0415.Peer-Reviewed Original ResearchMeSH KeywordsActin CytoskeletonActin-Related Protein 2-3 ComplexActinsAdaptor Proteins, Vesicular TransportCell MembraneClathrinClathrin-Coated VesiclesCytokinesisCytoplasmEndocytosisMicrofilament ProteinsMicroscopy, FluorescenceMyosin Type IProtein BindingSchizosaccharomycesSchizosaccharomyces pombe ProteinsConceptsActin filamentsLive fission yeast cellsEndocytic actin patchesSites of endocytosisFission yeast cellsNucleation-promoting factorsActin binding proteinsActin filament polymerizationCell surface receptorsActin patchesVesicle scissionFission yeastYeast clathrinArp2/3 complexSuperresolution localization microscopyTubule elongationFilament polymerizationRegulated mannerRegulatory proteinsMolecular mechanismsYeast cellsBinding proteinClathrinIndependent pathwaysCell surfaceSingle-molecule imaging of the BAR-domain protein Pil1p reveals filament-end dynamics
Lacy MM, Baddeley D, Berro J. Single-molecule imaging of the BAR-domain protein Pil1p reveals filament-end dynamics. Molecular Biology Of The Cell 2017, 28: 2251-2259. PMID: 28659415, PMCID: PMC5555653, DOI: 10.1091/mbc.e17-04-0238.Peer-Reviewed Original ResearchConceptsBAR domain proteinsSingle-molecule strategySingle-molecule imagingOligomeric filamentsFission yeastConventional fluorescence microscopyDynamic filamentsCytoplasmic faceMolecular assembliesLocalized recruitmentPlasma membraneEisosomesMacromolecular assembliesProtein dynamicsStable assemblyFluorescence microscopySuch assembliesPhysiological conditionsNanometer-scale featuresFirst direct observationProteinAssemblyHeterogeneous dynamicsPhotobleachingFilamentsHow will kinetics and thermodynamics inform our future efforts to understand and build biological systems?
Doudna J, Bar-Ziv R, Elf J, Noireaux V, Berro J, Saiz L, Vavylonis D, Faulon JL, Fordyce P. [Perspective] How will kinetics and thermodynamics inform our future efforts to understand and build biological systems? Cell Systems. 2017 Feb 22;4(2):144-146.Commentaries, Editorials and Letters
2014
Synergies between Aip1p and capping protein subunits (Acp1p and Acp2p) in clathrin-mediated endocytosis and cell polarization in fission yeast
Berro J, Pollard TD. Synergies between Aip1p and capping protein subunits (Acp1p and Acp2p) in clathrin-mediated endocytosis and cell polarization in fission yeast. Molecular Biology Of The Cell 2014, 25: 3515-3527. PMID: 25143407, PMCID: PMC4230613, DOI: 10.1091/mbc.e13-01-0005.Peer-Reviewed Original ResearchConceptsActin-depolymerizing factorActin filamentsFission yeastNew cellular functionsHeterodimeric capping proteinClathrin-mediated endocytosisActin filament barbedEndocytic patchesEndocytic sitesCellular functionsAip1pCapping proteinEndocytic vesiclesFilament barbedCapping activityPlasma membraneProtein subunitsActin meshworkCell polarizationIndependent pathwaysProteinEndocytosisYeastQuantitative microscopyFilamentsLocal and global analysis of endocytic patch dynamics in fission yeast using a new “temporal superresolution” realignment method
Berro J, Pollard TD. Local and global analysis of endocytic patch dynamics in fission yeast using a new “temporal superresolution” realignment method. Molecular Biology Of The Cell 2014, 25: 3501-3514. PMID: 25143395, PMCID: PMC4230612, DOI: 10.1091/mbc.e13-01-0004.Peer-Reviewed Original ResearchConceptsFission yeastEndocytic actin patchesWild-type cellsEndocytic patchesActin patchesQuantitative microscopyActin assemblyCellular processesVesicle movementEndocytic vesiclesInterphase cellsVesicle formationMolecular mechanismsPatch dynamicsYeastCell lengthGlobal analysisNumber of patchesMicroscopy moviesCellsClathrinEndocytosisNew toolValuable toolPatches
2010
Mathematical Modeling of Endocytic Actin Patch Kinetics in Fission Yeast: Disassembly Requires Release of Actin Filament Fragments
Berro J, Sirotkin V, Pollard TD. Mathematical Modeling of Endocytic Actin Patch Kinetics in Fission Yeast: Disassembly Requires Release of Actin Filament Fragments. Molecular Biology Of The Cell 2010, 21: 2905-2915. PMID: 20587776, PMCID: PMC2921120, DOI: 10.1091/mbc.e10-06-0494.Peer-Reviewed Original ResearchActin CytoskeletonActin Depolymerizing FactorsActin-Related Protein 2-3 ComplexActinsAdenosine TriphosphateAlgorithmsComputer SimulationEndocytosisHydrolysisImmunoblottingKineticsModels, BiologicalPolymersProtein BindingSchizosaccharomycesSchizosaccharomyces pombe ProteinsWiskott-Aldrich Syndrome ProteinQuantitative Analysis of the Mechanism of Endocytic Actin Patch Assembly and Disassembly in Fission Yeast
Sirotkin V, Berro J, Macmillan K, Zhao L, Pollard TD. Quantitative Analysis of the Mechanism of Endocytic Actin Patch Assembly and Disassembly in Fission Yeast. Molecular Biology Of The Cell 2010, 21: 2894-2904. PMID: 20587778, PMCID: PMC2921122, DOI: 10.1091/mbc.e10-02-0157.Peer-Reviewed Original ResearchConceptsFission yeastActin assemblyActin patch assemblyEndocytic actin patchesEndocytic adaptor proteinActivators of Arp2/3Plasma membrane invaginationsRecruitment of dynaminQuantitative confocal microscopyActin filament fragmentationActin patchesArp2/3 complexPatch assemblyAdaptor proteinMembrane invaginationsCross-linked filamentsFluorescent proteinClathrin moleculesFilament fragmentationProteinConfocal microscopyYeastBranched networkIndividual patchesAssembly