Matrix Metalloproteinase Protocols / Edition 2

by David A. Young, Ian M. Clark, Andrew D. Rowan

Overview

Since the discovery of a collagen-degrading protease in the tadpole tail in 1962, matrix metalloproteinase research has led to the discovery of more than twenty distinct vertebrate MMPs, along with a variety of homologues from diverse organisms such as the sea urchin, plants, insects, and nematode worms. Fully updating and adding to the popular first edition, Matrix Metalloproteinase Prools, Second Edition includes a series of state-of-the-art techniques provided by eminent experts in the field. Beginning with a brief overview of the MMP arena, from how these enzymes fit into the larger degradome to what occurs when their expression and function in the mouse is modulated, the volume continues with sections on the expression and purification of MMPs and TIMPs, the detection of MMPs and TIMPs at both the protein and mRNA level, and our ability to assay MMP and TIMP activities in a wide variety of circumstances. Written in the highly successful Methods in Molecular Biology™ series format, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory prools, and notes on troubleshooting and avoiding known pitfalls.

Comprehensive and cutting-edge, Matrix Metalloproteinase Prools, Second Edition is an ideal source for many of the essential laboratory techniques for both novice and seasoned researchers alike collected in one convenient volume.

Product Details

ISBN-13:	9781603272988
Publisher:	Springer-Verlag New York, LLC
Publication date:	03/04/2010
Series:	Methods in Molecular Biology , #622
Edition description:	2nd ed. 2010
Pages:	492
Product dimensions:	7.20(w) x 10.10(h) x 1.40(d)

About the Author

Clark, Ian M., PhD (Univ of East Anglia, Norwich)

Table of Contents

Preface v

Contributors ix

Section I MMPs and TIMPs: an Overview 1

1 Metalloproteases and the Degradome Alejandro P. Ugalde Gonzalo R. Ordóñez Pedro M. Quirós Xose S. Puente Carlos Löpez-Otín 3

2 Mouse Models of MMP and TIMP Function Sean E. Gill Sean T. Kassim Timothy P. Birkland William C. Parks 31

Section II Expression and Purification of MMPs and TIMPs 53

3 Expression of Recombinant MMP-28 in Mammalian Cells Ursula R. Rodgers Ian M. Clark 55

4 Expression of Recombinant Matrix Metalloproteinases in Escherichia coli L. Jack Windsor Darin L. Steele 67

5 Expression of Recombinant ADAMTS in Insect Cells Gavin C. Jones Mireille N. Vankemmelbeke David J. Buttle 83

6 Expression and Purification of Membrane-Type MMPs Jing Nie Duanqing Pei 99

7 Refolding of TIMP-2 from Escherichia coli Inclusion Bodies Richard A. Williamson 111

8 Purification of MMPs and TIMPs Ken-ichi Shimokawa Hideaki Nagase 123

Section III Detection of MMPs and TIMPs 157

9 Real-Time PCR Expression Profiling of MMPs and TIMPs Caroline J. Pennington Dylan K. Edwards 159

10 Analysis of the Degradome with the CLIP-CHIP™ Microarray Reinhild Kappelhoff Ulrich auf dem Keller Christopher M. Overall 175

11 In Situ Hybridization for Metalloproteinases and Their Inhibitors Tiina L. Hurskainen Suneel S. Apte 195

12 Immunohistochemistry of MMPs and TIMPs Tasunori Okada 211

13 Single Nucleotide Polymorphism Genotyping in MMP Genes: The 5' Nuclease Assay Ross Laxton Shu Te 221

Section IV Assay of MMP and TIMP Activities 231

14 Methods for Studying Activation of Matrix Metalloproteinases Vera Knäupper Gillian Murphy 233

15 Assay of Matrix Metalloproteinases Against Matrix Substrates Tim E. Cawston Rachel L. Lakey Andrew D. Rowan 245

16 Zymography and Reverse Zymography for Detecting MMPs and TIMPs Susan P. Hawkes Hongxia Li Gary T. Taniguchi Marc A Lafleur 257

17 In Situ Zymography Sarah J. George Jason L. Johnson 271

18 Near-Infrared Optical Proteolytic Beacons for In Vivo Imaging of Matrix Metalloproteinase Activity J. Oliver McIntyre Randy L. Scherer Lynn M. Matrisian 279

19 Neoepitope Antibodies Against MMP-Cleaved and Aggrecanase-Cleaved Aggrecan Amanda J. Fosang Karena Last Heather Stanton Suzanne B. Golub Christopher B. Little Lorena Brown David C. Jackson 305

20 In Vitro Model of Cartilage Degradation Wang Hui Tim E. Cawston 341

21 Immunoassays for Collagenase-Mediated Cleavage of Type I and II Collagens R. Clark Billinghurst Mirela Ionescu A. Robin Poole 349

22 Collagen Degradation Assays Anthony P. Hollander 367

23 Analysis of MMP-Dependent Cell Migration and Invasion Ralf Palmisano Toshifumi Itoh 379

24 Using Fluorogenic Peptide Substrates to Assay Matrix Metalloproteinases Gregg B. Fields 393

25 Kinetic Analysis of the Inhibition of Matrix Metalloproteinases: Lessons from the Study of Tissue Inhibitors of Metalloproteinases Frances Willenbrock Daniel A. Thomas Augustin Amour 435

26 Identification of Cellular MMP Substrates Using Quantitative Proteomics: Isotope-Coded Affinity Tags (ICAT) and Isobaric Tags for Relative and Absolute Quantification (iTRAQ) Georgina S. Butler Richard A. Dean Charlotte J. Morrison Christopher M. Overall 451

27 Mechanism-Based Profiling of MMPs Jed F. Fisher Shahriar Mobashery 471

Subject Index 489

Editorial Reviews

Details proven techniques for expression and purification of matrix metalloproteinases (MMPs) and TIMPs, and for the detection of MMPs and TIMPs at both protein and mRNA levels. Part I overviews the MMP arena, and Parts II and III present methods with step-by-step instructions and notes on variant applications and pitfalls. Part IV shows how to assay MMP and TIMP activities in a wide variety of circumstances. Of interest to those in chemistry, biology, and histology. Specific topics include strategies for cloning new MMPs and TIMPs, expression of recombinant membrane-type MMPs, and antibodies to MMP-cleaved aggrecan. Clark is affiliated with the University of East Anglia. Annotation c. Book News, Inc., Portland, OR (booknews.com)

Booknews

Review of the first edition: "The editor, Ian M. Clark, has done an excellent job in putting together a collection of articles that span what is now a fairly wide field. ...the content and writing are of a high standard...In chapter 3, covering structural studies and contributed by Wolfram Bode and Klaus Maskos, the authors point out the absence of specific discussions of three-dimensional structures amongst the plethora of general reviews on MMPs and TIMPs. Their contribution expertly fills that void....Indeed the 'Notes' section, at the end of each chapter, is where the benefit of much, often hard-earned, experience is to be reaped and is a valuable addition in almost every case. The last two sections, between them, cover detection of MMp and TIMP expression at both RNA and protein levels, and actively assays. Hore, particular mention must be made of the chapter dealing with zymography and reverse zymography in which Susan Hawkes and coauthors have carefully explained this technique. Their use of figures with detailed interpretation is really excellent and alone could justify the purchase of this book for many labs....this book is recommended as a reference text for all labs engaged in MMP research. There is enough variety for established research labs to find some new methods, and, for newcomers to the field, it should make working with MMPs and their inhibitors a very straightforward prospect." - TRENDS in Cell Biology

From the Publisher