Autophagy
Methods and Protocols
(Sprache: Englisch)
This volume details a comprehensive and extensive set of protocols for the study of autophagy in vitro and in vivo. Chapters focus on mammals, various model organisms, and provide protocols for the study of autophagy-related processes outside of the...
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Klappentext zu „Autophagy “
This volume details a comprehensive and extensive set of protocols for the study of autophagy in vitro and in vivo. Chapters focus on mammals, various model organisms, and provide protocols for the study of autophagy-related processes outside of the canonical autophagy pathways. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Autophagy: Methods and Protocols aims to ensure successful results in the further study of this vital field.
Inhaltsverzeichnis zu „Autophagy “
Part I: Autophagry In Vitro1. Recombinant Expression, Purification and Assembly of p62 Filaments
Abul K. Tarafder, Audrey Guesdon, Tanja Kuhm, and Carsten Sachse
2. Structural Studies of Autophagy-related Proteins
Melanie Schwarten, Oliver H. Weiergräber, DuSan Petrovic, Birgit Strodel, and Dieter Willbold
3. Structural Studies of Mammalian Autophagy Lipidation Complex
Kazuto Ohashi, Chinatsu Otomo, Zoltan Metlagel, and Takanori Otomo
4. Structural Studies of Selective Autophagy in Yeast
Akinori Yamasaki, Yasunori Watanabe and Nobuo N. Noda
5. Biophysical Studies of LC3 Family Proteins
Javier H. Hervás, Zuriñe Antón, and Alicia Alonso 6. Reconstituting Autophagy Initiation from Purified Components
Peter Mayrhofer and Thomas Wollert
7. Cell-free Reconstitution of Autophagic Membrane Formation
Min Zhang and Liang Ge
8. Use of Peptide Arrays for Identification and Characterization of LIR Motifs
Mads Skytte Rasmussen, Åsa Birna Birgisdottir and Terje Johansen
9. Studying Autophagic Lysosome Reformation in Cells and by an in vitro Reconstitution System
Yang Chen, Qian Peter Su, and Li Yu
10. Formation of Autophagosomes Coincides With Relaxation of Membrane Curvature
Jaime Agudo-Canalejo and Roland L. Knorr 11. Studies of Receptor-Atg8 Interactions during Selective Autophagy Christine Abert and Sascha Martens
Part II: Imaging Autophagy in Tissue Culture
12. Correlative Light and Electron Miscopy of Autophagosomes
Sigurdur Gudmundsson, Jenny Kahlhofer, Nastassia Baylac, Katri Kallio, and Eeva-Liisa Eskelinen
13. Improved Electron Microscopy (EM) Fixation Methods for Tracking Autophagy-associated Membranes in Cultured Mammalian Cells
Ritsuko Arai and Satoshi Waguri
14. 3-color Simultaneous Live Imaging of Autophagy-related Structures
Maho
... mehr
Hamasaki, Hiroyuki Ueda, Ouin Kunitaki, and Tamotsu Yoshimori
15. Correlative Live-cell Imaging and Super-resolution Microscopy of Autophagy
Eleftherios Karanasios
16. Methods for Imaging Autophagosome Dynamics in Primary Neurons
Audrey Dong, Vineet Vinay Kulkarni, and Sandra Maday
17. Imaging Autophagy in hiPSC-derived Midbrain Dopaminergic Neuronal Cultures for Parkinson's Disease Research
Stathakos, P., Jimenez-Moreno, N., Crompton, L., Nistor, P, Caldwell, M.A., and Lane, J.D
18. Correlative Light Electron Microscopy to analyze LC3 Proteins in Caenorhabditis elegans embryo
Céline Largeau and Renaud Legouis
19. Imaging Non-canonical Autophagy and LC3-associated Phagocytosis in Cultured Cells
Elise Jacquin, Katherine Fletcher, and Oliver Florey
Part III: Assays to Measure (and Screen For) Autophagy and Related Processes
20. Measurement of Bulk Autophagy by a Cargo Sequestration Assay
Nikolai Engedal, Morten Luhr, Paula Szalai, and Per O. Seglen
21. Methods to Detect Loss of Lysosomal Membrane Integrity
Sonja Aits
22. Monitoring of Autophagy and Cell Volume Regulation in Kidney Epithelial Cells in Response to Fluid Shear Stress
Maria M. Lazari, Idil Orhon, Patrice Codogno, and Nicolas Dupont
23. Identification and Regulation of Multimeric Protein Complexes in Autophagy via SILAC- based Mass Spectrometry Approaches
Stéphanie Kaeser-Pebernard, Britta Diedrich, and Jörn Dengjel
24. Identification and Validation of Novel Autophagy Regulators using an Endogenous Readout siGENOME Screen
Maria New, Tim Van Acker, Ming Jiang, Rebecca Saunders, Jaclyn S. Long, Jun-ichi Sakamaki, Kevin M. Ryan, Michael Howell, and Sharon A. Tooze
25. Autophagy Pathway Mapping to Elucidate the Function of Novel Autophagy Regulators Identified by High-throughput Screening
Martina Wirth1 and Sharon A. Tooze
26. In vitro Screening Platforms for Identifying Autophagy Modulators in Mammalian Cells Elena Seranova, Carl Ward, Miruna Chipara, Ratul Banerjee, Tatiana R. Rosenstock, and Sovan Sarkar
27. In vitro Screening Platforms for Identifying Autophagy Modulators in Mammalian Cells
Elena Seranova, Carl Ward, Miruna Chipara, Ratul Banerjee, Tatiana R. Rosenstock, and Sovan Sarkar
28. Methods for the Study of Entotic Cell Death
Jens C. Hamann, Sung Eun Kim, and Michael Overholtzer
29. MHC Class I Internalization via Autophagy Proteins
Monica Loi, Laure-Anne Ligeon and Christian Münz
Part IV: Measuring and Imaging Autophagy In Vitro
30. Analysis of Autophagy for Liver Pathogenesis
Nazmul Huda, Hui Zou, Shengmin Yan, Bilon Khambu, and Xiao-Ming Yin
31. Autophagy in 3D In Vitro and Ex Vivo Cancer Models
Carlo Follo, Dario Barbone, William G. Richard2, Raphael Bueno, and V. Courtney Broaddus
32. Autophagy in Platelets
Meenakshi Banerjee , Yunjie Huang, Madhu M. Ouseph , Smita Joshi , Irina Pokrovskaya , Brian Storrie , Jinchao Zhang , Sidney W. Whiteheart , and Qing Jun Wang
33. Methods to Image Macroautophagy in the Brain In Vivo
Xigui Chen, Kanoh Kondo, and Hitoshi Okazawa
34. Measuring Nonselective and Selective Autophagy in the Liver
Takashi Ueno and Masaaki Komatsu
35. Measuring Autophagy in Pancreatitis
Alejandro Ropolo, Daniel Grasso, and Maria I. Vaccaro
36. Characterization of the "autophagic flux" in Prostate Cancer Tissue Biopsies by LC3A/LAMP2a Immunofluorescence and Confocal Microscopy
Kalamida D., Giatromanolaki A., and Koukourakis M.I
37. Methods to Determine the Role of Autophagy Proteins in C. elegans Ageing
Sivan Henis-Korenblita and Alicia Meléndez
Part V: Mitophagy and Other Selective Autophagy Pathways
38. Investigating Non-selective Autophagy in Drosophila
Szabolcs Takáts, Sarolta Tóth, Gyozo Szenci, and Gábor Juhász
39. Imaging the Dynamics of Mitophagy in Live Cells
Andrew S. Moore and Erika L.F. Holzbaur 40. Triggering Mitophagy with Photosensitizers
Cheng-Wei Hsieh and Wei Yuan Yang
41. Investigating Mitophagy and Mitochondrial Morphology in vivo using mito-QC
Thomas G. McWilliams and Ian G. Ganley
42. Assays to Monitor Mitophagy in Drosophila
Panagiotis Tsapras, Anne-Claire Jacomin, and Ioannis P. Nezis
43. Mitophagy Dynamics in Caenorhabditis elegans
Konstantinos Palikaras, Eirini Lionaki, and Nektarios Tavernarakis
44. Methods for Studying Mitophagy in Yeast
Panagiota Kolitsida and Hagai Abeliovich
45. Measuring Anti-bacterial Autophagy
Keith B Boyle and Felix Randow
46. Quantitative Phosphoproteomics of Selective Autophagy Receptors
Thomas Juretschke, Petra Beli, and Ivan Dikic
47. Analysis of Chaperone-mediated Autophagy
Y.R. Juste and A.M. Cuervo
48. Interactive Autophagy: Monitoring a Novel Form of Selective Autophagy by Macroscopic Observations
Jana Petri and Roland L. Knorr
15. Correlative Live-cell Imaging and Super-resolution Microscopy of Autophagy
Eleftherios Karanasios
16. Methods for Imaging Autophagosome Dynamics in Primary Neurons
Audrey Dong, Vineet Vinay Kulkarni, and Sandra Maday
17. Imaging Autophagy in hiPSC-derived Midbrain Dopaminergic Neuronal Cultures for Parkinson's Disease Research
Stathakos, P., Jimenez-Moreno, N., Crompton, L., Nistor, P, Caldwell, M.A., and Lane, J.D
18. Correlative Light Electron Microscopy to analyze LC3 Proteins in Caenorhabditis elegans embryo
Céline Largeau and Renaud Legouis
19. Imaging Non-canonical Autophagy and LC3-associated Phagocytosis in Cultured Cells
Elise Jacquin, Katherine Fletcher, and Oliver Florey
Part III: Assays to Measure (and Screen For) Autophagy and Related Processes
20. Measurement of Bulk Autophagy by a Cargo Sequestration Assay
Nikolai Engedal, Morten Luhr, Paula Szalai, and Per O. Seglen
21. Methods to Detect Loss of Lysosomal Membrane Integrity
Sonja Aits
22. Monitoring of Autophagy and Cell Volume Regulation in Kidney Epithelial Cells in Response to Fluid Shear Stress
Maria M. Lazari, Idil Orhon, Patrice Codogno, and Nicolas Dupont
23. Identification and Regulation of Multimeric Protein Complexes in Autophagy via SILAC- based Mass Spectrometry Approaches
Stéphanie Kaeser-Pebernard, Britta Diedrich, and Jörn Dengjel
24. Identification and Validation of Novel Autophagy Regulators using an Endogenous Readout siGENOME Screen
Maria New, Tim Van Acker, Ming Jiang, Rebecca Saunders, Jaclyn S. Long, Jun-ichi Sakamaki, Kevin M. Ryan, Michael Howell, and Sharon A. Tooze
25. Autophagy Pathway Mapping to Elucidate the Function of Novel Autophagy Regulators Identified by High-throughput Screening
Martina Wirth1 and Sharon A. Tooze
26. In vitro Screening Platforms for Identifying Autophagy Modulators in Mammalian Cells Elena Seranova, Carl Ward, Miruna Chipara, Ratul Banerjee, Tatiana R. Rosenstock, and Sovan Sarkar
27. In vitro Screening Platforms for Identifying Autophagy Modulators in Mammalian Cells
Elena Seranova, Carl Ward, Miruna Chipara, Ratul Banerjee, Tatiana R. Rosenstock, and Sovan Sarkar
28. Methods for the Study of Entotic Cell Death
Jens C. Hamann, Sung Eun Kim, and Michael Overholtzer
29. MHC Class I Internalization via Autophagy Proteins
Monica Loi, Laure-Anne Ligeon and Christian Münz
Part IV: Measuring and Imaging Autophagy In Vitro
30. Analysis of Autophagy for Liver Pathogenesis
Nazmul Huda, Hui Zou, Shengmin Yan, Bilon Khambu, and Xiao-Ming Yin
31. Autophagy in 3D In Vitro and Ex Vivo Cancer Models
Carlo Follo, Dario Barbone, William G. Richard2, Raphael Bueno, and V. Courtney Broaddus
32. Autophagy in Platelets
Meenakshi Banerjee , Yunjie Huang, Madhu M. Ouseph , Smita Joshi , Irina Pokrovskaya , Brian Storrie , Jinchao Zhang , Sidney W. Whiteheart , and Qing Jun Wang
33. Methods to Image Macroautophagy in the Brain In Vivo
Xigui Chen, Kanoh Kondo, and Hitoshi Okazawa
34. Measuring Nonselective and Selective Autophagy in the Liver
Takashi Ueno and Masaaki Komatsu
35. Measuring Autophagy in Pancreatitis
Alejandro Ropolo, Daniel Grasso, and Maria I. Vaccaro
36. Characterization of the "autophagic flux" in Prostate Cancer Tissue Biopsies by LC3A/LAMP2a Immunofluorescence and Confocal Microscopy
Kalamida D., Giatromanolaki A., and Koukourakis M.I
37. Methods to Determine the Role of Autophagy Proteins in C. elegans Ageing
Sivan Henis-Korenblita and Alicia Meléndez
Part V: Mitophagy and Other Selective Autophagy Pathways
38. Investigating Non-selective Autophagy in Drosophila
Szabolcs Takáts, Sarolta Tóth, Gyozo Szenci, and Gábor Juhász
39. Imaging the Dynamics of Mitophagy in Live Cells
Andrew S. Moore and Erika L.F. Holzbaur 40. Triggering Mitophagy with Photosensitizers
Cheng-Wei Hsieh and Wei Yuan Yang
41. Investigating Mitophagy and Mitochondrial Morphology in vivo using mito-QC
Thomas G. McWilliams and Ian G. Ganley
42. Assays to Monitor Mitophagy in Drosophila
Panagiotis Tsapras, Anne-Claire Jacomin, and Ioannis P. Nezis
43. Mitophagy Dynamics in Caenorhabditis elegans
Konstantinos Palikaras, Eirini Lionaki, and Nektarios Tavernarakis
44. Methods for Studying Mitophagy in Yeast
Panagiota Kolitsida and Hagai Abeliovich
45. Measuring Anti-bacterial Autophagy
Keith B Boyle and Felix Randow
46. Quantitative Phosphoproteomics of Selective Autophagy Receptors
Thomas Juretschke, Petra Beli, and Ivan Dikic
47. Analysis of Chaperone-mediated Autophagy
Y.R. Juste and A.M. Cuervo
48. Interactive Autophagy: Monitoring a Novel Form of Selective Autophagy by Macroscopic Observations
Jana Petri and Roland L. Knorr
... weniger
Bibliographische Angaben
- 2019, 1st ed. 2019, XVII, 741 Seiten, 99 farbige Abbildungen, Maße: 18,3 x 26 cm, Gebunden, Englisch
- Herausgegeben: Nicholas Ktistakis, Oliver Florey
- Verlag: Springer, Berlin
- ISBN-10: 1493988727
- ISBN-13: 9781493988723
- Erscheinungsdatum: 05.01.2019
Sprache:
Englisch
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