FISH Technology

492 Pages·2002·41.53 MB·English

by  Eigil Kjeldsen, Steen Kølvraa (auth.), Bernd W. Rautenstrauss, Thomas Liehr (eds.)

SPRINGER
LAB MANUALS
Springer-Verlag Berlin Heidelberg GmbH
Bernd W. Rautenstrauß Thomas Liehr (Eds.)
FISH Technology
With 78 Figures, 44 in colour
Springer
BERND W. RAUTENSTRAUSS
Institut für Humangenetik
Universität Erlangen-Nürnberg
Schwabachanlage 10
91054 Erlangen
Germany
e-mail: [email protected]
THOMAS LIEHR
Institut für Humangenetik
Universität Jena
Kollegiengasse 10
077743 Jena
Germany
e-mail: [email protected]
Library of Congress Cataloging-in-Publication Data
FISH technology / Bernd W. Rautenstrauss, Thomas Liehr (eds.)
p. cm. - (Springer lab manuals)
Includes bibliographical references.
ISBN 978-3-642-47739-3 ISBN 978-3-642-56404-8 (eBook)
DOI 10.1007/978-3-642-56404-8
I. Fluorescence in situ hybridization ~ Laboratory manuals. I. Rautenstrauss, Bernd W., 1959 -
II. Liehr, Thomas, 1965- III. Springer lab manual.
QP519.9.F56.F574 2002
572.8*028*4-0021
This work is subject to copyright. All rights are reserved, whether the whole or part of the material is concerned,
specifically the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on
microfilm or in any other way, and storage in data banks. Duplication of this publication or parts thereof is
permitted only under the provisions of the German Copyright Law of September 9,1965, in its current version,
and permissions for use must always be obtained from Springer-Verlag. Violations are liable for prosecution
under the German Copyright Law.
© Springer-Verlag Berlin Heidelberg 2002
Originally published by Springer-Verlag Berlin Heidelberg New York in 2002
Softcover reprint of the hardcover 1 st edition 2002
http://www.springer.de
The use of general descriptive names, registered names, trademarks, etc. in this publication does not imply, even
in the absence of a specific statement, that such names are exempt from the relevant protective laws and reg
ulations and therefore free for general use.
Product liability: The publisher cannot guarantee the accuracy of any information about dosage and application
thereof contained in this book. In every individual case the user must check such information by consulting the
relevant literature.
Production: PRO EDIT GmbH, 69126 Heidelberg, Germany
Cover design: design & production GmbH, 69121 Heidelberg, Germany
Typesetting: Mitterweger + Partner, 68723 Plankstadt, Germany
SPIN 10674102 39/3130S0 5 4 3 2 1 0 - Printed on acid free paper
Preface
Thefluorescenceinsituhybridization (FISH) techniquehas nowadaysbe
comeapowerfulandversatiletool inclinicalgenetics,tumorcytogenetics
andscience.Inventedinthe1970'sthereweremanyproblemstoovercome
in working out the methodology. However, the technique is now estab
lished in manycytogenetic and otherclinicallyorientated routine labora
tories as well as in many research facilities allover the world.
Thisbookispartofaseriesoflabmanualsprovidingpracticalaspectsof
technologiesusedinbiology,medicineandgenetics.Asinmanycasespub
lished methods are incomplete or refer back to series ofpreviously pub
lishedpapers,onegoalofthislabmanualforFISHistoprovidealaboratory
handbook that will facilitate research in connection with fluorescence in
situ hybridization approaches.
Thelabmanualfor FISH aimstoprovidearesourceforboththenovice
scientistaswellasforthosemoreexperiencedinvestigatorsseekingtoex
tend their technological base. Thus, apart from the basic technology and
routine applications of FISH, also more sophisticated approaches have
been included into this booklet, like e.g. Fiber FISH, Yeast FISH, FISH
incombinationwithimmunohistochemistryorstylishmulticolor-FISHas
says.Alsofuture aspectsoffurther developmentsofthefield ofmolecular
cytogeneticsarecovered.Thechaptersdealingwiththerecentlydeveloped
FISH techniquescentromere-specificmulticolor FISHorthe microdissec
tion basedmulticolorbandingmethod demonstrate, that the possibilities
ofthis field still did not draw to a close.
Wewouldliketoexpressourgratitudetoallthosewhohavecontributed
to thisbooklet! Moreover,wearegratefultoSpringer-Verlagforaskingus
toputtogethertheseprotocolsofthestateoftheart,andlatestadvancesin
this exciting and inspiring field ofmolecular cytogenetics.
Jena, July 2001 THOMAS LIEHR, PhD
Erlangen, July 2001 BERND RAUTENSTRAUSS, PhD
List of Contents
The Standard FISH Procedure - an Introduction
Chapter 1 FISH Techniques, FISH Probes and Their Applications
in Medicine and Biology - An Overview . . . . . . . . . . . 3
EIGIL KJELDSEN, and STEEN K0LVRAA
Chapter 2 Microscopy and Imaging Systems 51
ANDREAS PLESCH
FISH on Native, Human Tissues
Chapter 3 FISH on Chromosome Preparations
ofPeripheral Blood ........................... 73
THOMAS LIEHR and UWE CLAUSSEN
Chapter 4 FISH on Uncultured Blood or Bone Marrow ...•.... 82
THOMAS LIEHR
Chapter 5 FISH on Blood or Bone Marrow Smears ........... 90
THOMAS LIEHR
Chapter 6 Epithelial Cells from Buccal Smears and Urine 97
ANITA RAUCH
Chapter 7 FISH on Hair Root Cells ....................... 109
THOMAS LIEHR
...............
Chapter 8 Amniotic Fluid Cells - Uncultured 115
RENATE ULMER
Chapter 9 Human Sperm Cells ........................... 127
ANITA RAUCH
VIII List ofContents
FISH on Archival, Human Tissues
Chapter 10 Archival Cytogenetic Slides 141
ERICH GEBHART
Chapter 11 Formalin-Fixed and Paraffin-Embedded
Tissue Sections 148
CHRISTINE SOMMERLAD, YASMIN MEHRAEIN.
MARINA GIERSBERG, KERSTEN MARBEN,
HARALD RIEDER, and HELGA REHDER
Chapter 12 Nucleus Extraction from Formalin
Fixed/paraffin Embedded Tissue . . . . . . . . . . . . . . ... 162
THOMAS LIEHR
Chapter 13 Combined in Situ Nick Translation and mRNA FISH
for Simultaneous Detection ofApoptosis and
Expression ofApoptosis-Related Genes in Sections
from Paraffin-Embedded Tissue 171
NORBERT HECKMANN
Chapter 14 Nucleus Extraction from Cryofixed Tissue 176
BERND RAUTENSTRAUSS, and THOMAS LIEHR
Chapter 15 Preparation ofSamples for CGH
byDOP-PCR from Cryofixed or Paraffin-Embedded,
Microdissected Cells 185
VOLKER JUNG and GEORG A. WEBER
Chapter 16 Comparative Genomic Hybridization 197
BURT G. FEUERSTEIN, YUICHI HIROSE,
MALGORZATA PELLARIN, and GREGG MAGRANE
Special FISH Techniques
(Fiber-FISH, PNA-FISH, Co-FISH, NU-FISH)
Chapter 17 High Resolution FISH ofStretched
Chromosome Fibers 221
BERND RAUTENSTRAUSS and CHRISTINA FUCHS
Chapter 18 Quantitative DNA Fiber Mapping 226
HEINZ-ULRICH G. WEIER
Chapter 19 PNA-FISH 254
WILLIAM M. STRAUSS
List ofContents IX
Chapter 20 Strand-Specific Fluorescence in Situ Hybridization:
CO-FISH and COD-FISH 262
JULIANNE MEYNE, SUSAN M. BAILEY,
and EDWIN H. GOODWIN
Chapter 21 The Combined Use ofNuclease in Situ Digestion
and FISH (NU-FISH) 272
JAIME GOSALVEZ, JOAQUINA DE LA TORRE,
CARMEN LOPEZ-FERNANDEZ,
and JosE LUIS FERNANDEZ
Chapter 22 DNA Breakage Detection-FISH (DBD-FISH) 282
JosE LUIS FERNANDEZ, VICENTE GoYANES,
and JAIME GosALvEz
Chapter 23 Detection ofRadiosensitivity byMeans
ofThree-Color FISH 291
SUSANN NEUBAUER
Chapter 24 Fluorescence in Situ Hybridisation
ofa Complete Set of41 Telomere Specific Probes
in a Single Simultaneous Hybridisation Experiment
Using the Chromoprobe Multiprobe System-T 301
MARTIN LAWRIE, MARIA OCANA GIL,
and DON CARDY
FISH in Zoology and Virology
Chapter 25 Zoo-FISH .......•........................... 309
HARRY SCHERTHAN
Chapter 26 FISH on Insect Cells Transfected
with Heterologous DNA 323
THOMAS LIEHR
Chapter 27 Yeast FISH: Delineation ofChromosomal Targets
in Vegetative and Meiotic Yeast Cells 329
HARRY SCHERTHAN and EDGAR TRELLES-STICKEN
Chapter 28 In Situ Detection ofViral Nucleic Acids
by Chemiluminescence 346
MONICA MUSIANI, PATRIZIA PASINI, ALDO RODA,
and MARIALUISA ZERBINI
X List ofContents
Multicolor FISH Applications
Chapter 29 Spectral Imaging Analysis ofMetaphase
and Interphase Cells 363
JINGLY FUNG, HEINZ-ULLI G. WEIER,
ROGER A. PEDERSEN, and HORST F. ZITZELSBERGER
Chapter 30 Microdissection ofChromosomes
and Reverse FISH 388
ILSE CHUDOBA and GABRIELE SENGER
Chapter 31 Multicolor FISH Techniques for the Detection
ofInter- and Intrachromosomal Rearrangements . . .. 408
HORST ZITZELSBERGER, BENJAMIN O'BRIEN,
and HEINZ-ULRICH WEIER
Chapter 32 Centromere-Specific Multicolor-FISH (cenM-FISH) .. 425
ANGELA NIETZEL, ANITA HELLER, HElKE STARKE,
UWE CLAUSEN, and THOMAS LIEHR
Chapter 33 Simultaneous Multicolor-FISH and Immunocyto-
chemical Analysis ofFresh Tumor Material 432
HElKE STEILEN-GIMBEL and STEFFI URBSCHAT
Chapter 34 Simultaneous Fluorescence Immunophenotyping
and FISH (FICTION) ...............•.......... 442
BRIGITTE SCHLEGELBERGER, STEFAN GESK,
YANMING ZHANG, and REINER SIEBERT
Not FISH but Almost
Chapter 35 PRINS: Hybridization and Primed in Situ Labeling
in One Step 463
JORN KocH
Chapter 36 Microarrays and DNA-Chips in the Analysis
ofGenetic Abberrations 473
UWE R. MULLER, Y. PAUL BAO, GUANGSHAN LI,
XINYING XIE, and NALINI RAGHAVACHARI
Appendix . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .. 485
Subject index . . . . . . . . .. . . . . . . . . . . . .. . . . . . . . . . . . . . . . . . .. 487
Part A
The Standard FISH Procedure
an Introduction