This is the companion volume to Daniel Klionsky’s Autophagy: Lower Eukaryotes, which features the basic methods in autophagy covering yeasts and alternative fungi (aspergillus, podospora, magnaporthe). Klionsky is one of the leading authorities in the field. He is the editor-in-chief of Autophagy. The November 2007 issue of Nature Reviews highlighted his article, “Autophagy: From phenomenology to molecular understanding in less than a decade.” He is currently editing guidelines for the field, with 230 contributing authors, that will publish in Autophagy. Particularly in times of stress, like starvation and disease, higher organisms have an internal mechanism in their cells for chewing up and recycling parts of themselves. The process of internal “house cleaning” in the cell is called autophagy – literally self-eating. Breakthroughs in understanding the molecular basis of autophagy came after the cloning of ATG1 (autophagy-related gene 1) in yeast. (To date, 30 additional yeast genes have been identified.) These ATG genes in yeast were the stepping stones to the explosion of research into the molecular analysis of autophagy in higher eukaryotes. In the future, this research will help to design clinical approaches that can turn on autophagy and halt tumor growth.


Researchers in biochemistry, cell and molecular biology, oncology, pharmacology

Table of Contents

Chapter 1 LC3-based assay for monitoring autophagy Shunsuke Kimura, Naonobu Fujita, Takeshi Noda and Tamotsu Yoshimori Chapter 2 Analysis of autophagy using GFP-LC3 transgenic mice Noboru Mizushima Chapter 3 Photoactivatable GFP Jennifer Lippincott-Schwartz and Dale Hailey Chapter 4 Assaying for autophagic protein degradation Fred Meijer Chapter 5 Sequestration assays for mammalian autophagy Per O. Seglen Chapter 6 Incorporation of monodansylcadaverine (MDC) as an assay to assess autophagy induction and monitoring fusion with a degradative compartment Maria Isabel Colombo Chapter 7 The GST-BHMT assay and related assays for autophagy Carol A. Mercer and Patrick B. Dennis Chapter 8 Redox and autophagy-ROS as an indicator for autophagic activity Ruth Scherz-Shouval and Zvulun Elazar Chapter 9 FACS analysis of autophagy Elena Shvets, Ephraim Fass and Zvulun Elazar Chapter 10 Electron microscopy in mammals Päivi Ylä-Anttila and Eeva-Liisa Eskelinen Chapter 11 Monitoring mTOR activity Ken Inoki Chapter 12 Using p62 as a marker for autophagy. Terje Johansen Chapter 13 Cytosolic LC3 ratio as a quantitative index of macroautophagy Motoni Kadowaki and Md. Razaul Karim Chapter 14 Pexophagy in mammalian cells Junji Ezaki,Takashi Ueno, Eiki Kominami and Masaaki Komatsu


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© 2009
Academic Press
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About the editor

Daniel Klionsky

Affiliations and Expertise

Life Sciences Institute, University of Michigan, USA