Characterization of follicular lymphoma lacking the Hallmark translocation t(14;18) [Elektronische Ressource] / vorgelegt von Ellen Leich

Leich

Sujets

• Biologie
• Gesundheit

Informations

• Publié par: julius-maximilians-universitat_wurzburg
• Publié le: 01 janvier 2009
• Nombre de lectures: 7
• Langue: English
• Poids de l'ouvrage: 5 Mo

Extrait

Characterization of Follicular Lymphoma Lacking the Hallmark
Translocation t(14;18)





Dissertation zur Erlangung des
naturwissenschaftlichen Doktorgrades
der Julius-Maximilians-Universität Würzburg


vorgelegt von

Ellen Leich
aus Ludwigshafen am Rhein


Würzburg 2009

Eingereicht am: 02.06.2009

Mitglieder der Promotionskommission:
Vorsitzender: Prof. Dr. Martin J. Müller
Gutachter : PD Dr. Andreas Rosenwald
Gutachter: PD Dr. Robert Hock

Tag des Promotionskolloquiums: 23.09.2009

Doktorurkunde ausgehändigt am:
















Contents
1 Zusammenfassung.................................................................................................1
2 Abstract...................................................................................................................4
3 Introduction.............................................................................................................7
3.1 Non Hodgkin Lymphoma (NHL) ............................................................................7
3.2 Molecular Background of B-Cell and T-Cell Derived Malignancies...................8
3.3 Apoptosis and Its Deregulation in Cancer .........................................................12
3.4 Morphology and Immunophenotype of Follicular Lymphoma.........................14
3.5 Clinical Background of Follicular Lymphoma ...................................................15
3.6 Molecular Background of Follicular Lymphoma ...............................................16
3.7 Translocation t(14;18)-Negative FL.....................................................................19
4 Aims of the Thesis................................................................................................20
5 Material and Methods...........................................................................................22
5.1 Chemicals and Reagents .....................................................................................22
5.2 Kits.........................................................................................................................27
5.3 Buffers/Solutions..................................................................................................28
5.4 Culture Medium....................................................................................................36
5.5 Cell Lines...............................................................................................................37
5.6 Primer Combinations for PCR and Genescan Analysis....................................37
5.6.1 Detection of BCL2 Breakpoints .........................................................................37
5.6.2 Clonal Rearrangements ................................................................37
5.6.3 Primers for Sequencing Analysis ......................................................................38
5.7 Laboratory Equipment/Material...........................................................................38
5.8 Databases and Software ......................................................................................40
5.9 Methods.................................................................................................................42
5.9.1 Tissue Samples.................................................................................................
5.9.2 Clinical Data......................................................................................................43
5.9.3 Tissue Microarray Assembly (TMA) ..................................................................
5.9.4 Cell Culture........................................................................................................44
5.9.5 Disaggregation of Cells from FFPE Tissue .......................................................45
5.9.6 Classical Cytogenetic Banding Analysis ...........................................................45
5.9.7 Fluorescence In Situ Hybridization (FISH) Analysis..........................................46
5.9.8 Probe Design and Probe Labeling ....................................................................47
5.9.9 Positive Controls for FISH Segregation Assays................................................49
5.9.10 Fluorescence Immunophenotyping and Interphase Cytogenetics as a Tool for
the Investigation of Neoplasms (FICTION)51
5.9.11 Comparative Genomic Hybridization (CGH) Analysis.......................................52
5.9.12 Immunohistochemistry (IHC).............................................................................52
5.9.13 Polymerase Chain Reaction (PCR) for the Detection of BCL2 Breakpoints .....53
5.9.14 Gene Expression Analysis and Statistical Evaluation53
5.9.15 High Density Single Nucleotide Polymorphism (SNP) Array Analysis ..............56
5.9.16 Clonality Analysis (Genescan) ..........................................................................57
5.9.17 Analysis of Ongoing Somatic Hypermutation (SHM).........................................58
6 Results...................................................................................................................60
6.1 Establishment of TMA-Based FISH Assays Using Paraffin Embedded
Material of Peripheral T-Cell Lymphomas..........................................................60
6.1.1 TCR Breakpoint Analysis in Mature T-Cell Lymphomas ...................................60
6.2 Molecular Characterization of “Classic” FL Grades 1-3A.................................61
6.2.1 Genetic Alterations in FL and Their Correlation with Survival...........................61
6.2.2 Correlation of Genetic Alterations with Gene Expression63
6.3 Characterization of t(14;18)-Negative FL............................................................65
6.3.1 Study Cohorts....................................................................................................65
6.3.2 Definition of the Subgroups Based on BCL2-Breakpoint and BCL2-Protein
Status ................................................................................................................65
6.3.3 Clonality Analysis..............................................................................................66
6.3.4 FL Cases with and without Translocation t(14;18) Differ in Gains/Amplifications
of the Chromosomal Region 18q11-q21 ...........................................................69
6.3.5 Genetic Assessment of FL Cases without t(14;18) Using High Density SNP
Arrays71
6.3.6 tion t(14;18) Differ in Gene Expression
Profiles ..............................................................................................................72
6.3.7 Differences in Clinical Parameters Between FL Cases with and without t(14;18)
..........................................................................................................................75
6.3.8 Validation of Gene Expression Data by IHC Analysis on FL Cases of an
Independent Test Set........................................................................................76
6.4 Characterization of a Specific Morphological Variant of ..................................79
t(14;18)-Negative Diffuse FL ................................................................................79
6.4.1 Immunophenotypic and Clinical Features of FL with an Unusual Predominantly
Diffuse Growth Pattern......................................................................................79
6.4.2 Conventional Cytogenetic Characterization of FL with an Unusual
Predominantly Diffuse Growth Pattern..............................................................82
6.4.3 Gene Expression Profiling of Predominantly Diffuse FL ...................................83
7 Discussion ............................................................................................................86
7.1 Mature T-cell Lymphomas are Only Rarely Affected by Breakpoints in the
TCR Gene Loci......................................................................................................86
7.2 The Follicular Lymphoma Dataset of This Study is Representative and Shows
Characteristic Molecular Features......................................................................88
7.3 Follicular Lymphomas Lacking the Translocation t(14;18) Belong to the
Spectrum of “Classic” FL But Show Distinct Clinical and Molecular Features
................................................................................................................................90
7.4 Definition of a New t(14;18)-Negative FL Subset that Shows an Unusual
Predominantly Diffuse Growth Pattern and a Chromosomal Deletion in 1p36.96
8 Future Perspectives ...........................................................................................100
9 Supplements.......................................................................................................102
10 References ..........................................................................................................129
11 Appendix .............................................................................................................136
11.1 Abbreviations...........................