Preface...
Table of Contents...
Contributing Authors...
Part I Model Systems Used to Study Golgi Organization and Function
1. Live Cell Imaging of Yeast Golgi Dynamics
Giancarlo Costaguta, Gregory S. Payne, and Lydia Daboussi
2. Quantification of Golgi Protein Mislocalization to the Budding Yeast Vacuole
Mariana Jimenez, Jordan T. Best, Swapneeta S. Date, and Todd R. Graham
3. Immunofluorescence as a Method to Study Golgi Organization in Larval Salivary Glands of Drosophila melanogaster
Tetyana Chorna and Julie A. Brill
4. Microscopy and Immunocytochemistry-Based Methods to Study Cell Wall Biosynthetic Enzymes in the Golgi
Sang-Jin Kim and Federica Brandizzi
5. Reconstitution of Golgi Biogenesis in Permeabilized Trypanosoma brucei Cells
Graham Warren
6. Generation of GM130 Conditional Knockout Mouse
Mei Mei and Shilai Bao
7. Monitoring Effects of Membrane Traffic via Changes in Cell Polarity and Morphogenesis in Three-Dimensional Human Pluripotent Stem Cell Cysts
Maha M. Hamed, Kenichiro Taniguchi, and Mara C. Duncan
Part II Morphological Studies of Golgi Organization and Function
8. Immunofluorescence Microscopy of the Mammalian Golgi Apparatus
Maryam Arab, Sanjeev Mudavathu, Teresa Vitali, and Martin Lowe
9. Studying the Organization of the Golgi by Super-Resolution Microscopy
Hieng Chiong Tie and Lei Lu
10. Super-Resolution Live Imaging of Cargo Traffic Through the Golgi Apparatus in Mammalian Cells
Takuro Tojima, Daisuke Miyashiro, Yasuhito Kosugi, and Akihiko Nakano
11. Studying Golgi Structure and Function by Thin Section TEM
Helena Vihinen and Eija Jokitalo
12. Algorithm for Modern Electron Microscopic Examination of the Golgi Complex
Alexander A. Mironov and Galina V. Beznoussenko
13. High-Pressure Freezing Followed by Freeze-Substitution, An Optimal Electron Microscope Technique to Study Golgi Apparatus Organization and Membrane Trafficking
Shijie Liu, Irina D. Pokrovskaya, and Brian Storrie
14. Negative Staining Electron Microscopy for Morpho-Functional Characterization of Purified Golgi Membranes from Mammalian Cells
Stefano De Tito, Gabriele Turacchio, and Carmen Valente
15. An Electron Tomographic Analysis of Giantin Deficient Golgi Proposes a New Function of the Golgin Protein Family
Ayano Satoh, Mitsuko Hayashi-Nishino, and Kunihiko Nishino
16. Modeling the Cryo-EM Structure of the Exocyst Complex
Kunrong Mei and Wei Guo
17. Quantitatively Assessing Co-Localization of Golgi Proteins by Distance Analysis Using the DiAna Software
Nina Freimuth and Michael Sauer
18. A Primer on Deep Learning-Based Cellular Image Classification of Changes in the Spatial Distribution of the Golgi Apparatus After Experimental Manipulation
Daisuke Takao, Yuki M. Kyunai, Yasushi Okada, and Ayano Satoh
Part III Biochemical and In Vitro Reconstitution Assays in Golgi Studies
19. Reconstituting Vesicle Budding from the TGN and Immunoisolation of Vesicles Enriched with a Specific Cargo Client
Mo Wang, Jinhui Wang, and Yusong Guo
20. Common Assays in Mammalian Golgi Studies
Jie Li, Jianchao Zhang, Sarah Bui, Erpan Ahat, Divya Kolli, Whitney Reid, Lijuan Xing, and Yanzhuang Wang
21. In Vitro Methods to Investigate the Disassembly of the Golgi Ribbon during the G2-M Transition of the Cell Cycle
Inmaculada Ayala and Antonino Colanzi
22. Generation and Analysis of hTERT-RPE1 VPS54 Knock-Out and Rescued Cell Lines
Amrita Khakurel, Tetyana Kudlyk, and Vladimir V. Lupashin
23. Rapid COG Depletion in Mammalian Cell by Auxin-Inducible Degradation System
Farhana Taher Sumya, Irina D. Pokrovskaya, and Vladimir V. Lupashin
24. Generation of Stable Cell Lines Expressing Golgi Reassembly Stacking Proteins (GRASPs) by Viral Transduction
Sarah Bui, Jie Li, Drew Stark, Ali Houmani, and Yanzhuang Wang
25. Quantitative Proteomics Analysis of Purified Rat Liver Golgi
Xuequn Chen and Yanzhuang Wang
26. Comparative Genomics for Evolutionary Cell Biology using AMOEBAE: Understanding the Golgi and Beyond
Lael D. Barlow, William Maciejowski, Kiran More, Kara Terry, Romana Vargová, Kristína Záhonová, and Joel B. Dacks
27. Common Markers and Small Molecule Inhibitors in Golgi Studies
Sarah Bui, Drew Stark, Jie Li, Jianchao Zhang, and Yanzhuang Wang
Part IV Mechanism of Golgi Structure Formation and Membrane Trafficking
28. Visualizing Reversible Cisternal Stacking in Budding Yeast Pichia pastoris
Roma Dahara, Bhawik Jain, and Dibyendu Bhattacharyya
29. Methods for Studying Membrane-Proximal GAP Activity on Prenylated Rab GTPase Substrates
Carolyn M. Highland, Laura L. Thomas, and J. Christopher Fromme
30. Studying the Role of Lipid Geometry in COPI Vesicle Formation
Hyewon Choi, Kunyou Park, Victor W. Hsu, and Seung-Yeol Park
31. Unbiased Quantification of Golgi Scattering and Golgi-Centrosome Association
Keyada B. Frye, Xiaodong Zhu, Alexey Khodjakov, and Irina Kaverina
32. Detection and Analysis of Microtubule Nucleator ¿-Tubulin Ring Complex
Franco K.C. Au, Khoi T.D. Le, and Robert Z. Qi
33. Quantification of Golgi Entry and Exit Kinetics of Protein Cargoes
Jingqi Wang, Ellie Hyun-Jung Cho, Paul A. Gleeson, and Lou Fourriere
34. CARTS Formation Assay
Yuichi Wakana and Mitsuo Tagaya
35. Quantification of Protein Exit at the Trans-Golgi Network
Mai Ly Tran, Yeongho Kim, and Julia von Blume
36. Endosomal Transport to Lysosomes and the Trans-Golgi Network in Neurons and Other Cells: Visualizing Maturational Flux
Ryan J. Mulligan, Chan Choo Yap, and Bettina Winckler
37. Immunoprecipitation and Western Blot Analysis of AP-1 Clathrin-Coated Vesicles
Margaret Kell, Abby Halpern, and Heike Fölsch
38. Live imaging of Golgi Outposts in Drosophila Dendritic Arbors
Josephine W. Mitchell and Jill Wildonger
39. Targeted Protein Unfolding at the Golgi Apparatus
Jasmin Schillinger and Doris Hellerschmied
Part V Golgi Functions in Physiology and Pathology
40. Modeling N-Glycosylation: A Systems Biology Approach for Evaluating Changes in the Steady State Organization of Golgi Resident Proteins
Rebecca Morgan, Ben West, A. Jamie Wood, and Daniel Ungar
41. Simple N-Glycan Profile Analysis Using Lectin Staining, Mass Spectrometry, and GlycoMaple
Wei-Wei Ren and Morihisa Fujita
42. In Vitro Methods to Study the Golgi Apparatus Role in Proteoglycan and Glycosaminoglycan Synthesis
Kristian Prydz
43. Analysis of Golgi Protein Acetylation using In Vitro Assays and Parallel Reaction Monitoring Mass Spectrometry
Dea Slade and Markus Hartl
44. Identification and Characterization of GRASP55 O-GlcNAcylation
Xiaoyan Zhang
45. Assaying Sterol-Regulated ER-to-Golgi Transport of SREBP Cleavage-Activating Protein Using Immunofluorescence Microscopy
Chiaki T. Ishida, Wei Shao, and Peter J. Espenshade
46. Analysis of Golgi Morphology Using Immunofluorescence and CellProfiler Software
Isabel Mejia, Yu-Chuan Chen, and Begoña Díaz
47. Analysis of Golgi Secretory Functions in Cancer
Priyam Banerjee, Xiaochao Tan, William K. Russell, and Jonathan M. Kurie
Subject Index List...