Autophagy in Mammalian Systems

Chapter 1LC3-based assay for monitoring autophagyShunsuke Kimura, Naonobu Fujita, Takeshi Noda and Tamotsu YoshimoriChapter 2Analysis of autophagy using GFP-LC3 transgenic miceNoboru MizushimaChapter 3Photoactivatable GFPJennifer Lippincott-Schwartz and Dale HaileyChapter 4Assaying for autophagic protein degradationFred MeijerChapter 5Sequestration assays for mammalian autophagyPer O. SeglenChapter 6Incorporation of monodansylcadaverine (MDC) as an assay to assess autophagy induction and monitoring fusion with a degradative compartmentMaria Isabel ColomboChapter 7The GST-BHMT assay and related assays for autophagyCarol A. Mercer and Patrick B. DennisChapter 8Redox and autophagy-ROS as an indicator for autophagic activityRuth Scherz-Shouval and Zvulun ElazarChapter 9FACS analysis of autophagyElena Shvets, Ephraim Fass and Zvulun ElazarChapter 10Electron microscopy in mammalsPäivi Ylä-Anttila and Eeva-Liisa EskelinenChapter 11Monitoring mTOR activityKen InokiChapter 12Using p62 as a marker for autophagy.Terje JohansenChapter 13Cytosolic LC3 ratio as a quantitative index of macroautophagyMotoni Kadowaki and Md. Razaul KarimChapter 14Pexophagy in mammalian cellsJunji Ezaki,Takashi Ueno, Eiki Kominami and Masaaki KomatsuChapter 15Mitophagy in mammalian cells.Ji Zhang and Paul A. NeyChapter 16Quantification of WIPI-1/Atg18 puncta formation for assessing mammalian autophagyTassula Proikas-Cezanne and Simon G. PfistererChapter 17Correlative light and electron microscopy (CLEM) using GFP-LC3 and other autophagosome markersSharon Tooze and Minoo RaziChapter 18Nanotechnology assays for autophagyOleksandr SeleverstovChapter 19Photoconvertible KAEDA-LC3 for monitoring autophagic fluxChristoph Goemans and Aviva TolkovskyChapter 20Methods to monitor Chaperone-mediated autophagyAna Maria Cuervo and Susmita KaushikChapter 21Autophagy in response to Salmonella enterica serovar Typhimurium infectionCheryl Birmingham and John BrumellChapter 22Monitoring autophagy during Mycobacterium tuberculosis infectionVojo DereticChapter 23Shigella, Listeria and Streptococcus induction of autophagyMichinaga Ogawa,Yuko Yoshikawa, Ichiro Nakagawa,Chihiro Sasakawa, and Trinad ChakrabortyChapter 24Measuring the impact of infection on autophagy in macrophagesJean-Francois Dubuisson, Brenda Byrne and Michele Swanson