Cell-free reconstitution of autophagy to dissect molecular mechanisms

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)

Author(s): Daniel J. Klionsky, Amal Kamal Abdel-Aziz, Sara Abdelfatah, Mahmoud Abdellatif, Asghar Abdoli, Steffen Abel, Hagai Abeliovich, Marie H. Abildgaard, Yakubu Princely Abudu, Abraham Acevedo-Arozena, Iannis E. Adamopoulos, Khosrow Adeli, Timon E. Adolph, Annagrazia Adornetto, Elma Aflaki, Galila Agam, Anupam Agarwal, Bharat B. Aggarwal, Maria Agnello, Patrizia Agostinis, Javed N. Agrewala, Alexander A
Published in: Autophagy, Issue 2, 2020, ISSN 1554-8627
Publisher: Landes Bioscience

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)

Author(s): Daniel J. Klionsky, Amal Kamal Abdel-Aziz, Sara Abdelfatah, Mahmoud Abdellatif, Asghar Abdoli, Steffen Abel, Hagai Abeliovich, Marie H. Abildgaard, Yakubu Princely Abudu, Abraham Acevedo-Arozena, Iannis E. Adamopoulos, Khosrow Adeli, Timon E. Adolph, Annagrazia Adornetto, Elma Aflaki, Galila Agam, Anupam Agarwal, Bharat B. Aggarwal, Maria Agnello, Patrizia Agostinis, Javed N. Agrewala, Alexander A
Published in: Autophagy, 2021, ISSN 1554-8627
Publisher: Landes Bioscience
DOI: 10.1080/15548627.2020.1797280

Beyond the C-terminal Glycine of ATG8 Proteins – The Story of Some Neglected Amino Acids

Author(s): Saskia Barz, Kay Hofmann, Fulvio Reggiori, Claudine Kraft
Published in: Journal of Molecular Biology, Issue 436, 2024, Page(s) 168588, ISSN 0022-2836
Publisher: Academic Press
DOI: 10.1016/j.jmb.2024.168588

ULK1-mediated phosphorylation regulates the conserved role of YKT6 in autophagy

Author(s): Pablo Sánchez-Martín; Franziska Kriegenburg; Ludovico Alves; Julius Adam; Jana Elsaesser; Riccardo Babic; Hector Mancilla; Mariya Licheva; Georg Tascher; Christian Münch; Stefan Eimer; Claudine Kraft
Published in: Journal of Cell Science, Issue 5, 2023, ISSN 0021-9533
Publisher: The Company of Biologists Ltd.
DOI: 10.1242/jcs.260546

Autophagosomes are formed at a distinct cellular structure

Author(s): David M. Hollenstein, Claudine Kraft
Published in: Current Opinion in Cell Biology, Issue 65, 2020, Page(s) 50-57, ISSN 0955-0674
Publisher: Elsevier BV
DOI: 10.1016/j.ceb.2020.02.012

LRBA deficiency impairs autophagy and contributes to enhanced antigen presentation and T-cell dysregulation

Author(s): Elena Sindram, Marie-Celine Deau, Laure-Anne Ligeon, Pablo Sanchez-Martin, Sigrun Nestel, Sophie Jung, Stefanie Ruf, Pankaj Mishra, Michele Proietti, Stefan Günther, Kathrin Thedieck, Eleni Roussa, Angelika Rambold, Christian Münz, Claudine Kraft, Bodo Grimbacher, Laura Gámez-Díaz
Published in: EMBO Reports, 2025, ISSN 1469-3178
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s44319-025-00504-7

Autophagy in major human diseases

Author(s): Daniel J Klionsky, Giulia Petroni, Ravi K Amaravadi, Eric H Baehrecke, Andrea Ballabio, Patricia Boya, José Manuel Bravo‐San Pedro, Ken Cadwell, Francesco Cecconi, Augustine M K Choi, Mary E Choi, Charleen T Chu, Patrice Codogno, Maria Isabel Colombo, Ana Maria Cuervo, Vojo Deretic, Ivan Dikic, Zvulun Elazar, Eeva‐Liisa Eskelinen, Gian Maria Fimia, David A Gewirtz, Douglas R Green, Malene Han
Published in: EMBO Reports, 2021, ISSN 0261-4189
Publisher: Nature Publishing Group
DOI: 10.15252/embj.2021108863

Atg1 kinase regulates autophagosome‐vacuole fusion by controlling SNARE bundling

Author(s): Saskia Barz, Franziska Kriegenburg, Anna Henning, Anuradha Bhattacharya, Hector Mancilla, Pablo Sánchez‐Martín, Claudine Kraft
Published in: EMBO reports, 2020, ISSN 1469-221X
Publisher: Nature Publishing Group
DOI: 10.15252/embr.202051869

Phosphoregulation of the autophagy machinery by kinases and phosphatases

Author(s): Mariya Licheva, Babu Raman, Claudine Kraft, Fulvio Reggiori
Published in: Autophagy, 2021, Page(s) 1-20, ISSN 1554-8627
Publisher: Landes Bioscience
DOI: 10.1080/15548627.2021.1909407

Small but mighty: Atg8s and Rabs in Membrane Dynamics during Autophagy

Author(s): Saskia Barz, Franziska Kriegenburg, Pablo Sánchez-Martín, Claudine Kraft
Published in: Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, 2021, Page(s) 119064, ISSN 0167-4889
Publisher: Elsevier BV
DOI: 10.1016/j.bbamcr.2021.119064

Role of the small protein Mco6 in the mitochondrial sorting and assembly machinery

Author(s): Jon V. Busto; Iniyan Ganesan; Hannah Mathar; Conny Steiert; Eva F. Schneider; Sebastian P. Straub; Lars Ellenrieder; Jiyao Song; Sebastian B. Stiller; Philipp Lübbert; Ritwika Chatterjee; Jana Elsaesser; Laura Melchionda; Christina Schug; Fabian den Brave; Uwe Schulte; Till Klecker; Claudine Kraft; Bernd Fakler; Thomas Becker; Nils Wiedemann
Published in: cell reports, Issue 2, 2024, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2024.113805

Phagophore closure, autophagosome maturation and autophagosome fusion during macroautophagy in the yeast <i>Saccharomyces cerevisiae</i>

Author(s): Claudine Kraft; Fulvio Reggiori
Published in: febs letters, Issue 2, 2023, ISSN 0014-5793
Publisher: Elsevier BV
DOI: 10.1002/1873-3468.14720

Driving next-generation autophagy researchers towards translation (DRIVE), an international PhD training program on autophagy

Author(s): Claudine Kraft, Patricia Boya, Patrice Codogno, Zvulun Elazar, Eeva-Liisa Eskelinen, Judith Farrés, Vladimir Kirkin, Heinz Jungbluth, Ana Martinez, Ole Pless, Charlotte Primard, Tassula Proikas-Cezanne, Anne Simonsen, Fulvio Reggiori
Published in: Autophagy, Issue 15/2, 2018, Page(s) 347-351, ISSN 1554-8627
Publisher: Landes Bioscience
DOI: 10.1080/15548627.2018.1515532

The multi-functional SNARE protein Ykt6 in autophagosomal fusion processes

Author(s): Franziska Kriegenburg, Levent Bas, Jieqiong Gao, Christian Ungermann, Claudine Kraft
Published in: Cell Cycle, Issue 18/6-7, 2019, Page(s) 639-651, ISSN 1538-4101
Publisher: Landes Bioscience
DOI: 10.1080/15384101.2019.1580488

An Early mtUPR: Redistribution of the Nuclear Transcription Factor Rox1 to Mitochondria Protects against Intramitochondrial Proteotoxic Aggregates

Author(s): Daniel Poveda-Huertes, Stanka Matic, Adinarayana Marada, Lukas Habernig, Mariya Licheva, Lisa Myketin, Ralf Gilsbach, Sergi Tosal-Castano, Daniel Papinski, Patrycja Mulica, Oliver Kretz, Cansu Kücükköse, Asli Aras Taskin, Lutz Hein, Claudine Kraft, Sabrina Büttner, Chris Meisinger, F.-Nora Vögtle
Published in: Molecular Cell, Issue 77/1, 2020, Page(s) 180-188.e9, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2019.09.026

Reconstitution reveals Ykt6 as the autophagosomal SNARE in autophagosome–vacuole fusion

Author(s): Levent Bas, Daniel Papinski, Mariya Licheva, Raffaela Torggler, Sabrina Rohringer, Martina Schuschnig, Claudine Kraft
Published in: The Journal of Cell Biology, Issue 217/10, 2018, Page(s) 3656-3669, ISSN 0021-9525
Publisher: Rockefeller University Press
DOI: 10.1083/jcb.201804028

Ykt6 mediates autophagosome-vacuole fusion

Author(s): Levent Bas, Daniel Papinski, Claudine Kraft
Published in: Molecular & Cellular Oncology, Issue 5/6, 2018, Page(s) e1526006, ISSN 2372-3556
Publisher: Taylor and Francis
DOI: 10.1080/23723556.2018.1526006

Vac8 spatially confines autophagosome formation at the vacuole in S. cerevisiae

Author(s): David M. Hollenstein, Rubén Gómez-Sánchez, Akif Ciftci, Franziska Kriegenburg, Muriel Mari, Raffaela Torggler, Mariya Licheva, Fulvio Reggiori, Claudine Kraft
Published in: Journal of Cell Science, Issue 132/22, 2019, Page(s) jcs235002, ISSN 0021-9533
Publisher: The Company of Biologists Ltd.
DOI: 10.1242/jcs.235002

Phase separation of initiation hubs on cargo is a trigger switch for selective autophagy

Author(s): Mariya Licheva, Jeremy Pflaum, Riccardo Babic, Hector Mancilla, Jana Elsässer, Emily Boyle, David M. Hollenstein, Jorge Jimenez-Niebla, Jonas Pleyer, Mio Heinrich, Franz-Georg Wieland, Joachim Brenneisen, Christopher Eickhorst, Johann Brenner, Shan Jiang, Markus Hartl, Sonja Welsch, Carola Hunte, Jens Timmer, Florian Wilfling, Claudine Kraft
Published in: Nature Cell Biology, Issue 27, 2025, Page(s) 283-297, ISSN 1465-7392
Publisher: Nature Publishing Group
DOI: 10.1038/s41556-024-01572-y

The lipid flippase Drs2 regulates anterograde transport of Atg9 during autophagy

Author(s): Franziska Kriegenburg; Wouter Huiting; Fleur van Buuren-Broek; Emma Zwilling; Ralph Hardenberg; Muriel Mari; Claudine Kraft; Fulvio Reggiori
Published in: Autophagy Reports, 1(1), 345 - 367, Issue 1, 2022, ISSN 2769-4127
Publisher: Landes Bioscience
DOI: 10.1080/27694127.2022.2104781

Chemical Acetylation of Ligands and Two-Step Digestion Protocol for Reducing Codigestion in Affinity Purification–Mass Spectrometry

Author(s): David M. Hollenstein; Margarita Maurer-Granofszky; Wolfgang Reiter; Dorothea Anrather; Thomas Gossenreiter; Riccardo Babic; Natascha Hartl; Claudine Kraft; Markus Hartl
Published in: Journal of Proteome Research, 2023, ISSN 1535-3893
Publisher: American Chemical Society
DOI: 10.1021/acs.jproteome.3c00424

Posttranslational insertion of small membrane proteins by the bacterial signal recognition particle

Author(s): Ruth Steinberg, Andrea Origi, Ana Natriashvili, Pinku Sarmah, Mariya Licheva, Princess M. Walker, Claudine Kraft, Stephen High, Joen Luirink, Wei. Q. Shi, Martin Helmstädter, Maximilian H. Ulbrich, Hans-Georg Koch
Published in: PLOS Biology, Issue 18/9, 2020, Page(s) e3000874, ISSN 1545-7885
Publisher: Plos Biology
DOI: 10.1371/journal.pbio.3000874

Dual role of Mic10 in mitochondrial cristae organization and ATP synthase-linked metabolic adaptation and respiratory growth

Author(s): Heike Rampelt, Florian Wollweber, Mariya Licheva,Rinse de Boer, Inge Perschil, Liesa Steidle, Thomas Becker, Maria Bohnert, Ida van der Klei, Claudine Kraft, Martin van der Laan, Nikolaus Pfanner
Published in: Cell Reports, 2022, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2021.110290

Spatial control of avidity regulates initiation and progression of selective autophagy.

Author(s): Hollenstein David M, Licheva Mariya, Konradi Nicole, Schweida David, Mancilla Hector, Mari Muriel, Reggiori Fulvio, Kraft Claudine
Published in: Nature Communications, 2021, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-27420-3

mRNA targeting eliminates the need for the signal recognition particle during membrane protein insertion in bacteria

Author(s): Pinku Sarmah, Wenkang Shang, Andrea Origi, Mariya Licheva, Claudine Kraft, Maximilian Ulbrich, Elisabeth Lichtenberg, Annegret Wilde, Hans-Georg Koch
Published in: Cell Reports, Issue 42, 2024, Page(s) 112140, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2023.112140

FIP200 Phosphorylation Regulates Late Steps in Mitophagy

Author(s): Christopher Eickhorst, Riccardo Babic, Jorrell Rush-Kittle, Leon Lucya, Fatimah Lami Imam, Pablo Sánchez-Martín, David M. Hollenstein, Jonas Michaelis, Christian Münch, Chris Meisinger, Dea Slade, Laura Gámez-Díaz, Claudine Kraft
Published in: Journal of Molecular Biology, Issue 436, 2024, Page(s) 168631, ISSN 0022-2836
Publisher: Academic Press
DOI: 10.1016/j.jmb.2024.168631

Decoding the function of Atg13 phosphorylation reveals a role of Atg11 in bulk autophagy initiation

Author(s): Anuradha Bhattacharya; Raffaela Torggler; Wolfgang Reiter; Natalie Romanov; Mariya Licheva; Akif Ciftci; Muriel Mari; Lena Kolb; Dominik Kaiser; Fulvio Reggiori; Gustav Ammerer; David M Hollenstein; Claudine Kraft
Published in: Embo reports, Issue 2, 2024, ISSN 1469-221X
Publisher: Nature Publishing Group
DOI: 10.1038/s44319-023-00055-9

Global kinome profiling reveals DYRK1A as critical activator of the human mitochondrial import machinery

Author(s): Corvin Walter, Adinarayana Marada, Tamara Suhm, Ralf Ernsberger, era Muders, Cansu Kücükköse, Pablo Sánchez-Martín, Zehan Hu, Abhishek Aich, Stefan Loroch, Fiorella Andrea Solari, Daniel Poveda-Huertes, Alexandra Schwierzok, Henrike Pommerening, Stanka Matic, Jan Brix, Albert Sickmann, Claudine Kraft, Jörn Dengjel, ven Dennerlein, Tilman Brummer, F.-Nora Vögtle, Chris Meisinger
Published in: Nature Communications, 2021, ISSN 0000-0000
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-24426-9

Quantitative high-confidence human mitochondrial proteome and its dynamics in cellular context

Author(s): Marcel Morgenstern, Christian D. Peikert, Philipp Luebbert, Ida Suppanz, Cinzia Klemm, Oliver Alka, Conny Steiert, Nataliia Naumenko, Alexander Schendzielorz, Laura Melchionda, Wignand W.D. Muehlhaeuser, Bettina Knapp, Jakob D. Busch, Sebastian B. Stiller, Stefan Dannenmaier, Caroline Lindau, Mariya Licheva, Christopher Eickhorst, Riccardo Galbusera, Ralf M. Zerbes, Michael T. Ryan, Claudine Kraf
Published in: Cell Metabolism, 2021, ISSN 1550-4131
Publisher: Cell Press
DOI: 10.1016/j.cmet.2021.11.001

Synthetic Dimerization Approaches for In Vivo Studies in Saccharomyces cerevisiae

Author(s): Jana Elsässer, Claudine Kraft
Published in: Methods in Molecular Biology, Selective Autophagy, 2024, Page(s) 27-37
Publisher: Springer US
DOI: 10.1007/978-1-0716-4067-8_3

Selective Autophagy

Author(s): Jana Elsaesser, Claudine Kraft
Published in: Methods in Molecular Biology, 2024
Publisher: Springer US
DOI: 10.1007/978-1-0716-4067-8

The mechanism of macroautophagy: The movie

Author(s): Reggiori F Boya P, da Costa D, Elazar Z, Eskelinen E, Farrés J, Guettler S, Kraft C, Jungbluth H, Martinez A, Moel E, Pless O, Proikas-Cezanne T, Simonsen A
Published in: Autophagy, 2022
Publisher: Landes Bioscience
DOI: 10.1080/27694127.2022.2096115

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