Full Text Journal Articles by
Author Daniel Kaganovich

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Quantitative photoconversion analysis of internal molecular dynamics in stress granules and other membraneless organelles in live cells.

Triana Amen, Daniel Kaganovich,

Photoconversion enables real-time labeling of protein sub-populations inside living cells, which can then be tracked with submicrometer resolution. Here, we detail the protocol of comparing protein dynamics inside membraneless organelles in live HEK293T cells using a CRISPR-Cas9 PABPC1-Dendra2 marker of stress granules. Measuring internal dynamics of membraneless organelles provides insight ... Read more >>

STAR Protoc (STAR protocols)
[2020, 1(3):100217]

Cited: 0 times

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Vimentin protects differentiating stem cells from stress.

Sundararaghavan Pattabiraman, Gajendra Kumar Azad, Triana Amen, Shlomi Brielle, Jung Eun Park, Siu Kwan Sze, Eran Meshorer, Daniel Kaganovich,

Vimentin is one of the first cytoplasmic intermediate filaments to be expressed in mammalian cells during embryogenesis, but its role in cellular fitness has long been a mystery. Vimentin is acknowledged to play a role in cell stiffness, cell motility, and cytoplasmic organization, yet it is widely considered to be ... Read more >>

Sci Rep (Scientific reports)
[2020, 10(1):19525]

Cited: 0 times

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Water is a biomarker of changes in the cellular environment in live animals.

Pratibha Siwach, Evgeniya Levy, Leonid Livshits, Yuri Feldman, Daniel Kaganovich,

The biological processes that are associated with the physiological fitness state of a cell comprise a diverse set of molecular events. Reactive oxygen species (ROS), mitochondrial dysfunction, telomere shortening, genomic instability, epigenetic changes, protein aggregation, and down-regulation of quality control mechanisms are all hallmarks of cellular decline. Stress-related and decline-related ... Read more >>

Sci Rep (Scientific reports)
[2020, 10(1):9095]

Cited: 0 times

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Stress granules sense metabolic stress at the plasma membrane and potentiate recovery by storing active Pkc1.

Triana Amen, Daniel Kaganovich,

As the physical barrier between the cell and the outside environment, the plasma membrane is well-positioned to be the first responder to stress. The membrane is also highly vulnerable to many types of perturbation, including heat, force, osmotic pressure, lipid shortage, and starvation. To determine whether the structural changes in ... Read more >>

Sci Signal (Science signaling)
[2020, 13(623):]

Cited: 1 time

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A dominant vimentin variant causes a rare syndrome with premature aging.

Benjamin Cogné, Jamal-Eddine Bouameur, Gaëlle Hayot, Xenia Latypova, Sundararaghavan Pattabiraman, Amandine Caillaud, Karim Si-Tayeb, Thomas Besnard, Sébastien Küry, Caroline Chariau, Anne Gaignerie, Laurent David, Philippe Bordure, Daniel Kaganovich, Stéphane Bézieau, Christelle Golzio, Thomas M Magin, Bertrand Isidor,

Progeroid syndromes are a group of rare genetic disorders, which mimic natural aging. Unraveling the molecular defects in such conditions could impact our understanding of age-related syndromes such as Alzheimer's or cardiovascular diseases. Here we report a de novo heterozygous missense variant in the intermediate filament vimentin (c.1160 T > C; p.(Leu387Pro)) causing ... Read more >>

Eur J Hum Genet (European journal of human genetics : EJHG)
[2020, 28(9):1218-1230]

Cited: 1 time

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Mitochondrial dysfunction in protein conformational disorders.

Shlomi Brielle, Daniel Kaganovich,

Protein aggregation is a hallmark of many neurodegenerative diseases. In Parkinson's disease protein misfolding of α-synuclein involves conformational changes in the protein structure that often results in self-association and aggregation leading to accumulation of α-synuclein in neuronal cells. The underlying mechanisms by which aggregations can lead to impaired cellular functions ... Read more >>

J Genet (Journal of genetics)
[2018, 97(3):703-713]

Cited: 1 time

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Integrative modules for efficient genome engineering in yeast.

Triana Amen, Daniel Kaganovich,

We present a set of vectors containing integrative modules for efficient genome integration into the commonly used selection marker loci of the yeast <i>Saccharomyces cerevisiae</i>. A fragment for genome integration is generated via PCR with a unique set of short primers and integrated into <i>HIS3</i>, <i>URA3</i>, <i>ADE2</i>, and <i>TRP1</i> loci. ... Read more >>

Microb Cell (Microbial cell (Graz, Austria))
[2017, 4(6):182-190]

Cited: 3 times

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There Is an Inclusion for That: Material Properties of Protein Granules Provide a Platform for Building Diverse Cellular Functions.

Daniel Kaganovich,

Proteins perform a staggering variety of functions in the cell. Traditionally, protein function was thought to be hard-wired into the folded structure and conformational dynamics of each protein molecule. Recent work describes a new mode of protein functionality driven by the collective behavior of many different proteins; most of which ... Read more >>

Trends Biochem Sci (Trends in biochemical sciences)
[2017, 42(10):765-776]

Cited: 9 times

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Getting stress out of stressed-out stress granules.

Pratibha Siwach, Daniel Kaganovich,

EMBO J (The EMBO journal)
[2017, 36(12):1647-1649]

Cited: 2 times

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Asymmetric Inheritance of Aggregated Proteins and Age Reset in Yeast Are Regulated by Vac17-Dependent Vacuolar Functions.

Sandra Malmgren Hill, Xinxin Hao, Johan Grönvall, Stephanie Spikings-Nordby, Per O Widlund, Triana Amen, Anna Jörhov, Rebecca Josefson, Daniel Kaganovich, Beidong Liu, Thomas Nyström,

Age can be reset during mitosis in both yeast and stem cells to generate a young daughter cell from an aged and deteriorated one. This phenomenon requires asymmetry-generating genes (AGGs) that govern the asymmetrical inheritance of aggregated proteins. Using a genome-wide imaging screen to identify AGGs in Saccharomyces cerevisiae, we discovered ... Read more >>

Cell Rep (Cell reports)
[2016, 16(3):826-838]

Cited: 24 times

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Look Out Autophagy, Ubiquilin UPS Its Game.

Rachel Brown, Daniel Kaganovich,

Mutations in Ubiquilin-2 are linked to the onset of amyotrophic lateral sclerosis, but its connection to disease processes has remained unknown. Hjerpe et. al now report that Ubiquilin-2 enables the ubiquitin proteasome system (UPS) to single-handedly clear aggregated proteins, a cellular function previously thought to rely at least partially on ... Read more >>

Cell (Cell)
[2016, 166(4):797-799]

Cited: 2 times

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Dynamic Sumoylation of a Conserved Transcription Corepressor Prevents Persistent Inclusion Formation during Hyperosmotic Stress.

Michelle L Oeser, Triana Amen, Cory M Nadel, Amanda I Bradley, Benjamin J Reed, Ramon D Jones, Janani Gopalan, Daniel Kaganovich, Richard G Gardner,

Cells are often exposed to physical or chemical stresses that can damage the structures of essential biomolecules. Stress-induced cellular damage can become deleterious if not managed appropriately. Rapid and adaptive responses to stresses are therefore crucial for cell survival. In eukaryotic cells, different stresses trigger post-translational modification of proteins with ... Read more >>

PLoS Genet (PLoS genetics)
[2016, 12(1):e1005809]

Cited: 10 times

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Yeast screening platform identifies FDA-approved drugs that reduce Aβ oligomerization.

Triana Amen, Daniel Kaganovich,

Microb Cell (Microbial cell (Graz, Austria))
[2016, 3(3):97-100]

Cited: 4 times

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Architecture and Characteristics of Bacterial Nanotubes.

Gyanendra P Dubey, Ganesh Babu Malli Mohan, Anna Dubrovsky, Triana Amen, Shai Tsipshtein, Alex Rouvinski, Alex Rosenberg, Daniel Kaganovich, Eilon Sherman, Ohad Medalia, Sigal Ben-Yehuda,

Bacteria display an array of contact-dependent interaction systems that have evolved to facilitate direct cell-to-cell communication. We have previously identified a mode of bacterial communication mediated by nanotubes bridging neighboring cells. Here, we elucidate nanotube architecture, dynamics, and molecular components. Utilizing Bacillus subtilis as a model organism, we found that ... Read more >>

Dev Cell (Developmental cell)
[2016, 36(4):453-461]

Cited: 24 times

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Structural Basis for Modulation of Quality Control Fate in a Marginally Stable Protein.

Kelly P Brock, Ayelet-chen Abraham, Triana Amen, Daniel Kaganovich, Jeremy L England,

The human von Hippel-Lindau (VHL) tumor suppressor is a marginally stable protein previously used as a model substrate of eukaryotic refolding and degradation pathways. When expressed in the absence of its cofactors, VHL cannot fold and is quickly degraded by the quality control machinery of the cell. We combined computational ... Read more >>

Structure (Structure (London, England : 1993))
[2015, 23(7):1169-1178]

Cited: 4 times

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Lipid Droplets Are Essential for Efficient Clearance of Cytosolic Inclusion Bodies.

Ofer Moldavski, Triana Amen, Smadar Levin-Zaidman, Miriam Eisenstein, Ilana Rogachev, Alexander Brandis, Daniel Kaganovich, Maya Schuldiner,

Exposing cells to folding stress causes a subset of their proteins to misfold and accumulate in inclusion bodies (IBs). IB formation and clearance are both active processes, but little is known about their mechanism. To shed light on this issue, we performed a screen with over 4,000 fluorescently tagged yeast ... Read more >>

Dev Cell (Developmental cell)
[2015, 33(5):603-610]

Cited: 36 times

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Dynamic droplets: the role of cytoplasmic inclusions in stress, function, and disease.

Triana Amen, Daniel Kaganovich,

Neurodegenerative diseases and other proteinopathies constitute a class of several dozen illnesses etiologically linked to pathological protein misfolding and aggregation. Because of this strong association with disease pathology, cell death, and aging, accumulation of proteins in aggregates or aggregation-associated structures (inclusions) has come to be regarded by many as a ... Read more >>

Cell Mol Life Sci (Cellular and molecular life sciences : CMLS)
[2015, 72(3):401-415]

Cited: 23 times

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Dynamic JUNQ inclusion bodies are asymmetrically inherited in mammalian cell lines through the asymmetric partitioning of vimentin.

Mikołaj Ogrodnik, Hanna Salmonowicz, Rachel Brown, Joanna Turkowska, Władysław Średniawa, Sundararaghavan Pattabiraman, Triana Amen, Ayelet-chen Abraham, Noam Eichler, Roman Lyakhovetsky, Daniel Kaganovich,

Aging is associated with the accumulation of several types of damage: in particular, damage to the proteome. Recent work points to a conserved replicative rejuvenation mechanism that works by preventing the inheritance of damaged and misfolded proteins by specific cells during division. Asymmetric inheritance of misfolded and aggregated proteins has ... Read more >>

Proc Natl Acad Sci U S A (Proceedings of the National Academy of Sciences of the United States of America)
[2014, 111(22):8049-8054]

Cited: 57 times

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Imperfect asymmetry: The mechanism governing asymmetric partitioning of damaged cellular components during mitosis.

Sundararaghavan Pattabiraman, Daniel Kaganovich,

Aging is universally associated with organism-wide dysfunction and a decline in cellular fitness. From early development onwards, the efficiency of self-repair, energy production, and homeostasis all decrease. Due to the multiplicity of systems that undergo agingrelated decline, the mechanistic basis of organismal aging has been difficult to pinpoint. At the ... Read more >>

Bioarchitecture (Bioarchitecture)
[2014, 4(6):203-209]

Cited: 3 times

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AMPK regulates ER morphology and function in stressed pancreatic β-cells via phosphorylation of DRP1.

Jakob D Wikstrom, Tal Israeli, Etty Bachar-Wikstrom, Avital Swisa, Yafa Ariav, Meytal Waiss, Daniel Kaganovich, Yuval Dor, Erol Cerasi, Gil Leibowitz,

Experimental lipotoxicity constitutes a model for β-cell demise induced by metabolic stress in obesity and type 2 diabetes. Fatty acid excess induces endoplasmic reticulum (ER) stress, which is accompanied by ER morphological changes whose mechanisms and relevance are unknown. We found that the GTPase dynamin-related protein 1 (DRP1), a key ... Read more >>

Mol Endocrinol (Molecular endocrinology (Baltimore, Md.))
[2013, 27(10):1706-1723]

Cited: 50 times

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4D imaging of protein aggregation in live cells.

Rachel Spokoini, Maya Shamir, Alma Keness, Daniel Kaganovich,

One of the key tasks of any living cell is maintaining the proper folding of newly synthesized proteins in the face of ever-changing environmental conditions and an intracellular environment that is tightly packed, sticky, and hazardous to protein stability. The ability to dynamically balance protein production, folding and degradation demands ... Read more >>

J Vis Exp (Journal of visualized experiments : JoVE)
[2013, (74):]

Cited: 4 times

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Confinement to organelle-associated inclusion structures mediates asymmetric inheritance of aggregated protein in budding yeast.

Rachel Spokoini, Ofer Moldavski, Yaakov Nahmias, Jeremy L England, Maya Schuldiner, Daniel Kaganovich,

The division of the S. cerevisiae budding yeast, which produces one mother cell and one daughter cell, is asymmetric with respect to aging. Remarkably, the asymmetry of yeast aging coincides with asymmetric inheritance of damaged and aggregated proteins by the mother cell. Here, we show that misfolded proteins are retained in ... Read more >>

Cell Rep (Cell reports)
[2012, 2(4):738-747]

Cited: 107 times

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Compartmentalization of superoxide dismutase 1 (SOD1G93A) aggregates determines their toxicity.

Sarah J Weisberg, Roman Lyakhovetsky, Ayelet-chen Werdiger, Aaron D Gitler, Yoav Soen, Daniel Kaganovich,

Neurodegenerative diseases constitute a class of illnesses marked by pathological protein aggregation in the brains of affected individuals. Although these disorders are invariably characterized by the degeneration of highly specific subpopulations of neurons, protein aggregation occurs in all cells, which indicates that toxicity arises only in particular cell biological contexts. ... Read more >>

Proc Natl Acad Sci U S A (Proceedings of the National Academy of Sciences of the United States of America)
[2012, 109(39):15811-15816]

Cited: 57 times

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Cyclosporin-A-induced prion protein aggresomes are dynamic quality-control cellular compartments.

Tziona Ben-Gedalya, Roman Lyakhovetsky, Yifat Yedidia, Michal Bejerano-Sagie, Natalya M Kogan, Marcela Viviana Karpuj, Daniel Kaganovich, Ehud Cohen,

Despite the activity of cellular quality-control mechanisms, subsets of mature and newly synthesized polypeptides fail to fold properly and form insoluble aggregates. In some cases, protein aggregation leads to the development of human neurodegenerative maladies, including Alzheimer's and prion diseases. Aggregates of misfolded prion protein (PrP), which appear in cells ... Read more >>

J Cell Sci (Journal of cell science)
[2011, 124(Pt 11):1891-1902]

Cited: 21 times

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Polyglutamine shows a urea-like affinity for unfolded cytosolic protein.

Jeremy L England, Daniel Kaganovich,

Noting that the glutamine (Q) amino acid side-chain bears a striking resemblance to urea, the chemical denaturant, we argue on biophysical grounds that polyQ chains should possess a potent denaturant activity. Using live-cell confocal microscopy, we demonstrate that the surface of a polyQ inclusion denatures cytosolic proteins by binding and ... Read more >>

FEBS Lett (FEBS letters)
[2011, 585(2):381-384]

Cited: 11 times

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