Calcium techniques: a laborartory manual / ed. by J.B.Parys, M.D.Bootman, D.I.Yule, G.Bultynck. - Cold Spring Harbor: Cold Spring Harbor lab. press, 2014. - xv, 592 p.: ill. - Bibliogr. at the end of the chapters. - Ind.: p.577-592. - ISBN 978-1-621820-78-9  Место хранения:   02 | Отделение ГПНТБ СО РАН | Новосибирск

Оглавление / Contents

Preface ........................................................ xv SECTION 1 FLUORESCENCE CHAPTER 1 INTRODUCTION Fluorescence Microscopy ......................................... 1 Michael J. Sanderson, Ian Smith, Ian Parker, and Martin D. Bootman CHAPTER 2 INTRODUCTION Ca2+-Sensitive Fluorescent Dyes and Intracellular Ca2+ Imaging ........................................................ 25 Martin D. Bootman, Katja Rietdorf, Tony Collins, Simon Walker, and Michael Sanderson PROTOCOLS 1 Loading Fluorescent Ca2+ Indicators into Living Cells ....... 42 Martin D. Bootman, Katja Rietdorf, Tony Collins, Simon Walker, and Michael Sanderson 2 Converting Fluorescence Data into Ca2+ Concentration ........ 46 Martin D. Bootman, Katja Rietdorf, Tony Collins, Simon Walker, and Michael Sanderson CHAPTER 3 INTRODUCTION Properties and Use of Genetically Encoded FRET Sensors for Cytosolic and Organellar Ca2+ Measurements ..................... 51 J. Genevieve Park and Amy E. Palmer PROTOCOLS 1 Verifying the Function and Localization of Genetically Encoded Ca2+ Sensors and Converting FRET Ratios to Ca2+ Concentrations .............................................. 55 J. Genevieve Park and Amy E. Palmer 2 Measuring the In Situ Kd of a Genetically Encoded Ca2+ Sensor ...................................................... 65 J. Genevieve Park and Amy E. Palmer CHAPTER 4 INTRODUCTION Photolysis of Caged Compounds: Studying Ca2+ Signaling and Activation of Ca2+-Dependent Ion Channels ...................... 75 Janos Almassy and David I. Yule PROTOCOLS 1 Studying the Activation of Epithelial Ion Channels Using Global Whole-Field Photolysis ............................... 79 Janos Almassy and David I. Yule 2 Investigating Ion Channel Distribution Using a Combination of Spatially Limited Photolysis, Ca2+ Imaging, and Patch- Clamp Recording ............................................. 85 Janos Almassy and David I. Yule 3 Analyzing Ca2+ Dynamics in Intact Epithelial Cells Using Spatially Limited Flash Photolysis .......................... 90 Janos Almassy and David I. Yule CHAPTER 5 INTRODUCTION Electroporation Loading and Flash Photolysis to Investigate Intra- and Intercellular Ca2+ Signaling ........................ 93 Elke Decrock, Marijke De Bock, Nan Wang, Melissa Bol, Ashish K. Gadicherla, and Luc Leybaert PROTOCOLS 1 Electroporation Loading of Membrane-Impermeable Molecules to Investigate Intra- and Intercellular Ca2+ Signaling ..... 104 Elke Decrock, Marijke De Bock, Nan Wang, Mélissa Bol, Ashish K. Gadicherla, and Luc Leybaert 2 Flash Photolysis of Caged IP3 to Trigger Intercellular Ca2+ Waves ................................................. 109 Elke Decrock, Marijke De Bock, Nan Wang, Melissa Bol, Ashish K. Gadicherla, and Luc Leybaert CHAPTER 6 INTRODUCTION Investigating Calcium Signaling by Confocal and Multiphoton Microscopy .................................................... 113 Lars Kaestner and Peter Lipp PROTOCOLS 1 Two-Photon Photolysis Combined with a Kilobeam Array Scanner to Probe Calcium Signaling in Cardiomyocytes ....... 116 Benjamin Sauer, Martin Oberhofer, Peter Lipp, and Lars Kaestner 2 Multibeam Two-Photon Imaging of Fast Ca2+ Signals in the Langendorff Mouse Heart ................................ 121 Karin Hammer, Peter Lipp, and Lars Kaestner 3 Multichannel Imaging of Cellular Signaling: Interplay of Ca2+ and Conventional Protein Kinase ........................ 126 С Peter Lipp, Xin Hui, Gregor Reither, and Lars Kaestner 4 Two-Dimensional Imaging of Fast Intracellular Ca2+ Release .................................................... 130 Qinghai Tian, Lars Kaestner, and Peter Lipp 5 Confocal FLIM of Genetically Encoded FRET Sensors for Quantitative Ca2+ Imaging .................................. 134 Benjamin Sauer, Qinghai Tian, Peter Lipp, and Lars Kaestner CHAPTER 7 INTRODUCTION Combining Calcium Imaging with Other Optical Techniques ....... 139 Marco Canepari, Dejan Zecevic, Kaspar E. Vogt, David Ogden, and Michel De Waard PROTOCOLS 1 Combining Ca2+ and Membrane Potential Imaging in Single Neurons .................................................... 146 Marco Canepari, Kaspar E. Vogt, Michel De Waard, and Dejan Zecevic 2 Combining Ca2+ Imaging with L-Glutamate Photorelease ....... 150 Marco Canepari, Michel De Waard, and David Ogden CHAPTER 8 INTRODUCTION High-Throughput Analyses of IP3 Receptor Behavior ............. 155 Colin W. Taylor, Stephen C. Tovey, and Ana M. Rossi PROTOCOLS 1 High-Throughput Functional Assays of IP3-Evoked Ca2+ Release .................................................... 159 Stephen C. Tovey and Colin W. Taylor 2 High-Throughput Fluorescence Polarization Assay of Ligand Binding to IP3 Receptors ............................ 167 Ana M. Rossi and Colin W. Taylor SECTION 2. LUMINESCENCE CHAPTER 9 INTRODUCTION The Use of Aequorin and Its Variants for Ca2+ Measurements .... 177 Veronica Granatiero, Maria Patron, Anna Tosatto, Giulia Merli, and Rosario Rizzuto PROTOCOL 1 Using Targeted Variants of Aequorin to Measure Ca2+ Levels in Intracellular Organelles ....................... Veronica Granatiero, Maria Patron, Anna Tosatto, Giulia Merli, and Rosario Rizzuto INTRODUCTION Introduction of Aequorin into Zebrafish Embryos for Recording Ca2+ Signaling during the First 48 h of Development ................................................... 193 Sarah E. Webb, Ching Man Chan, and Andrew L. Miller PROTOCOLS 1 Microinjecting Holo-Aequorin into Dechorionated and Intact Zebrafish Embryos ................................... 197 Sarah E. Webb and Andrew L. Miller 2 Reconstitution of Holo-Aequorin with Apoaequorin mRNA and Coelenterazine in Zebrafish Embryos ....................... 206 Ching Man Chan, Andrew L. Miller, and Sarah E. Webb SECTION 3. RADIOACTIVE TECHNIQUES CHAPTER 11 INTRODUCTION Measurement of Intracellular Ca2+ Release in Intact and Permeabilized Cells Using 45Ca2+ .............................. 211 Ludwig Missiaen, Tomas Luyten, Ceert Bultynck, Jan B. Parys, and Humbert De Smedt PROTOCOLS 1 Measurement of Intracellular Ca2+ Release in Permeabilized Cells Using 45Ca2+ ........................... 219 Tomas Luyten, Geert Bultynck, Jan B. Parys, Humbert De Smedt, and Ludwig Missiaen 2 Measurement of Intracellular Ca2+ Release in Intact Cells Using 45Ca2+ ......................................... 225 Tomas Luyten, Geert Bultynck, Jan B. Parys, Humbert De Smedt, and Ludwig Missiaen CHAPTER 12 INTRODUCTION Measuring Ca2+ Pump Activity in Overexpression Systems and Cardiac Muscle Preparations ............................... 231 Tine Holemans, Use Vandecaetsbeek, Frank Wuytack, and Peter Vangheluwe PROTOCOLS 1 High-Throughput Measurement of the Ca2+-Dependent ATPase Activity in COS Microsomes .......................... 234 Ilse Vandecaetsbeek, Tine Holemans, Frank Wuytack, and Peter Vangheluwe 2 Measuring Ca2+-Dependent Ca2+-Uptake Activity in the Mouse Heart ...................................................... 245 Tine Holemans, Ilse Vandecaetsbeek, Frank Wuytack, and Peter Vangheluwe SECTION 4. ELECTROPHYSIOLOGY CHAPTER 13 INTRODUCTION Patch-Clamp Recording of Voltage-Sensitive Ca2+ Channels ...... 257 María A. Candini, Alejandro Sandoval, and Ricardo Felix PROTOCOLS 1 Whole-Cell Patch-Clamp Recordings of Ca2+ Currents from Isolated Neonatal Mouse Dorsal Root Ganglion (DRG) Neurons .................................................... 264 María A. Gandini, Alejandro Sandoval, and Ricardo Felix 2 Whole-Cell Patch-Clamp Recording of Recombinant Voltage- Sensitive Ca2+ Channels Heterologously Expressed in HEK-293 Cells .............................................. 271 María A. Candini, Alejandro Sandoval, and Ricardo Felix CHAPTER 14 INTRODUCTION Patch-Clamp Measurement of /CRAC and ORAI Channel Activity .... 277 Dalia Alansary, Tatiana Kilch, Christian Holzmann, Christine Peinelt, Markus Hoth, and Annette Lis PROTOCOLS 1 Measuring Endogenous /CRAC and ORAI Currents with the Patch-Clamp Technique ...................................... 283 Dalia Alansary, Tatiana Kilch, Christian Holzmann, Christine Peinelt, Markus Hoth, and Annette Lis 2 The Minimal Requirements to Use Calcium Imaging to Analyze /CRAC .............................................. 291 Dalia Alansary, Tatiana Kilch, Christian Holzmann, Christine Peinelt, Markus Hoth, and Annette Lis INTRODUCTION Patch-Clamp Electrophysiology of Intracellular Ca2+ Channels .. 297 Don-On Daniel Маk, Horia Vais, King-Ho Cheung, and J. Kevin Foskett CHAPTER 15 PROTOCOLS 1 Isolating Nuclei from Cultured Cells for Patch-Clamp Electrophysiology of Intracellular Ca2+ Channels ........... 308 Don-On Daniel Маk, Horia Vais, King-Ho Cheung, and J. Kevin Foskett 2 Nuclear Patch-Clamp Electrophysiology of Ca2+ Channels ..... 313 Don-On Daniel Маk, Horia Vais, King-Ho Cheung, and J. Kevin Foskett CHAPTER 16 INTRODUCTION Bilayer Measurement of Endoplasmic Reticulum Ca2+ Channels .... 321 Ilya Bezprozvanny PROTOCOLS 1 Preparation of Microsomes to Study Ca2+ Channels ........... 326 Ilya Bezprozvanny 2 Reconstitution of Endoplasmic Reticulum lnsP3 Receptors into Black Lipid Membranes ................................. 330 Ilya Bezprozvanny CHAPTER 17 INTRODUCTION Measurement of Mitochondrial Ca2+ Transport Mediated by Three Transport Proteins: VDAC1, the Na+/Ca2+ Exchanger, and the Ca2+ Uniporter ........................................ 337 Danya Ben-Hail, Raz Palty, and Varda Shoshan-Barmatz PROTOCOLS 1 Purification of VDAC1 from Rat Liver Mitochondria .......... 343 Danya Ben-Hail and Varda Shoshan-Barmatz 2 Reconstitution of Purified VDAC1 into a Lipid Bilayer and Recording of Channel Conductance ........................... 349 Danya Ben-Hail and Varda Shoshan-Barmatz 3 Assay of Ca2+ Transport by VDAC1 Reconstituted into Liposomes .................................................. 355 Danya Ben-Hail and Varda Shoshan-Barmatz 4 Assays of Mitochondrial Ca2+ Transport and Ca2+ Efflux via the MPTP ............................................... 359 Danya Ben-Hail and Varda Shoshan-Barmatz 5 Mitochondrial Na+/Ca2+ Exchange Assays ..................... 362 Raz Palty and Varda Shoshan-Barmatz CHAPTER 18 INTRODUCTION Calcium-Sensitive Mini- and Microelectrodes ................... 367 Roger C. Thomas and Donald M. Bers PROTOCOLS 1 How to Make Calcium-Sensitive Minielectrodes ............... 372 Roger C. Thomas and Donald M. Bers 2 How to Make Calcium-Sensitive Microelectrodes .............. 376 Roger C. Thomas and Donald M. Bers SECTION 5. SPECIAL TISSUES CHAPTER 19 INTRODUCTION The Xenopus Oocyte: A Single-Cell Model for Studying Ca2+ Signaling ..................................................... 381 Yaping Lin-Moshier and Jonathan S. Marchant PROTOCOLS 1 Nuclear Microinjection to Assess How Heterologously Expressed Proteins Impact Ca2+ Signals in Xenopus Oocytes .. 388 Yaping Lin-Moshier and Jonathan S. Marchant 2 A Rapid Western Blotting Protocol for the Xenopus Oocyte ... 395 Yaping Lin-Moshier and Jonathan S. Marchant CHAPTER 20 PROTOCOL Imaging and Manipulating Calcium Transients in Developing Xenopus Spinal Neurons ........................................ 399 Nicholas C. Spitzer, Laura N. Borodinsky, and Cory M. Root CHAPTER 21 INTRODUCTION A Systematic Approach for Assessing Ca2+ Handling in Cardiac Myocytes .............................................. 411 Karin R. Sipido, Niall Macquaide, and Virginie Bito PROTOCOLS 1 Basic Methods for Monitoring Intracellular Ca2+ in Cardiac Myocytes Using Fluo-3 .............................. 414 Virginie Bito, Karin R. Sipido, and Niall Macquaide 2 Characterizing the Trigger for Sarcoplasmic Reticulum Ca2+ Release in Cardiac Myocytes ........................... 420 Virginie Bito, Niall Macquaide, and Karin R. Sipido 3 Measuring Sarcoplasmic Reticulum Ca2+ Content, Fractional Release, and Ca+ Buffering in Cardiac Myocytes .. 425 Niall Macquaide, Virginie Bito, and Karin R. Sipido 4 Measuring Ca2+ Sparks in Cardiac Myocytes .................. 430 Niall Macquaide, Virginie Bito, and Karin R. Sipido 5 Assessing Ca2+-Removal Pathways in Cardiac Myocytes ........ 438 Virginie Bito, Karin R. Sipido, and Niall Macquaide CHAPTER 22 INTRODUCTION Monitoring Ca2+ Signaling in Yeast ............................ 445 Renata Tisi, Enzo Martegani, and Rogelio L. Brandão PROTOCOLS 1 Monitoring Yeast Intracellular Ca2+ Levels Using an In Vivo Bioluminescence Assay .............................. 456 Renata Tisi, Enzo Martegani, and Rogelio L. Brandão 2 Total Cellular Ca2+ Measurements in Yeast Using Flame Photometry ................................................. 460 Renata Tisi, Enzo Martegani, and Rogelio L. Brandão 3 Measurement of Calcium Uptake in Yeast Using 45Ca .......... 463 Renata Tisi, Enzo Martegani, and Rogelio L. Brandão CHAPTER 23 INTRODUCTION Ca2+ Imaging in Plants Using Genetically Encoded Yellow Cameleon Ca2+ Indicators ...................................... 465 Smrutisanjita Behera, Melanie Krebs, Giovanna Loro, Karin Schumacher, Alex Costa, and Jörg Kudla PROTOCOLS 1 Live Cell Imaging of Cytoplasmic Ca2+ Dynamics in Arabidopsis Guard Cells .................................... 469 Smrutisanjita Behera and Jörg Kudla 2 High-Resolution Imaging of Cytoplasmic Ca2+ Dynamics in Arabidopsis Roots .......................................... 474 Smrutisanjita Behera and Jörg Kudla 3 Live Cell Imaging of Cytoplasmic and Nuclear Ca2+ Dynamics in Arabidopsis Roots .............................. 479 Melanie Krebs and Karin Schumacher 4 Imaging of Mitochondrial and Nuclear Ca2+ Dynamics in Arabidopsis Roots .......................................... 484 Giovanna Loro and Alex Costa SECTION 6. NAD(P)-DERIVED MESSENGERS CHAPTER 24 INTRODUCTION Cyclic ADP-Ribose: Endogenous Content, Enzymology, and Ca2+ Release ....................................................... 489 Andreas H. Guse, Tanja Kirchberger, and Santina Bruzzone PROTOCOLS 1 Cycling Assay for Determining Intracellular Cyclic ADP-Ribose Levels .......................................... 493 Santina Bruzzone and Andreas H. Guse 2 Measuring CD38 (ADP-Ribosyl Cyclase/Cyclic ADP-Ribose Hydrolase) Activity by Reverse-Phase HPLC .................. 498 Tanja Kirchberger and Andreas H. Guse 3 Measuring Ca2+ Release Evoked by Cyclic ADP-Ribose ......... 503 Andreas H. Guse CHAPTER 25 INTRODUCTION Methods in Nicotinic Acid Adenine Dinucleotide Phosphate Research ...................................................... 509 Antony Galione, Kai-Ting Chuang, Tim M. Funnell, Lianne C. Davis, Anthony J. Morgan, Margarida Ruas, John Parrington, and Grant C. Churchill PROTOCOLS 1 Preparation and Use of Sea Urchin Egg Homogenates for Studying NAADP-Mediated Ca2+ Release ....................... 512 Antony Galione, Kai-Ting Chuang, Tim M. Funnell, Lianne C. Davis, Anthony J. Morgan, Margarida Ruas, John Parrington, and Grant C. Churchill 2 Synthesis of NAADP-AM as a Membrane-Permeant NAADP Analog .. 517 Antony Galione, Kai-Ting Chuang, Tim M. Funnell, Lianne C. Davis, Anthony J. Morgan, Margarida Ruas, John Parrington, and Grant C. Churchill 3 Measurement of Luminal pH of Acidic Stores as a Readout for NAADP Action ........................................... 521 Antony Galione, Kai-Ting Chuang, Tim M. Funnell, Lianne C. Davis, Anthony J. Morgan, Margarida Ruas, John Parrington, and Grant C. Churchill 4 Synthesis of Caged NAADP ................................... 525 Antony Galione, Kai-Ting Chuang, Tim M. Funnell, Lianne C. Davis, Anthony J. Morgan, Margarida Ruas, John Parrington, and Grant C. Churchill 5 Synthesis of [32P]NAADP for Radioreceptor Binding Assay .... 529 Antony Galione, Kai-Ting Chuang, Tim M. Funnell, Lianne C. Davis, Anthony J. Morgan, Margarida Ruas, John Parrington, and Grant C. Churchill SECTION 7. MEASURING AND MODELING CA^+ DYNAMICS INTRODUCTION CHAPTER 26 INTRODUCTION Measuring Ca2+-Binding Kinetics of Proteins ................... 533 Guido С. Faas and Istvan Mody PROTOCOLS 1 Measuring the Steady-State Properties of Ca2+ Indicators with a Set of Calibrated [Ca2+] Solutions ....... 536 Guido С. Faas and Istvan Mody 2 Measuring the Rate Constants of Ca Indicators .............. 541 Guido С. Faas and Istvan Mody 3 Collecting Data to Determine the Ca2+-Binding Properties of DM-Nitrophen and Proteins ............................... 546 Guido С. Faas and Istvan Mody CHAPTER 27 INTRODUCTION Translating Intracellular Calcium Signaling into Models ....... 553 Rüdiger Thul PROTOCOLS 1 Exploring Oscillations in a Point Model of the Intracellular Ca2+ Concentration ........................... 562 Rüdiger Thul 2 Time to Blip—Stochastic Simulation of Single Channel Opening .................................................... 566 Rüdiger Thul APPENDIX 1 General Safety and Hazardous Material Information ............. 571 Index ......................................................... 577