Open Access

Mast cells reside on and near the cerebral vasculature, the predominant site of pneumococcal entry into the central nervous system (CNS). Although mast cells have been reported to be crucial in protecting from systemic bacterial infections, their role in bacterial infections of the CNS remained elusive. Here, we assessed the role of mast cells in pneumococcal infection in vitro and in vivo. In introductory experiments using mouse bone marrow-derived mast cells (BMMC), we found that (i) BMMC degranulate and release selected cytokines upon exposure to Streptococcus pneumoniae, (ii) the response of BMMC varies between different pneumococcal serotypes and (iii) is dependent on pneumolysin. Intriguingly though, apart from a slight enhancement of cerebrospinal fluid (CSF) pleocytosis, neither two different mast cell-deficient Kit mutant mouse strains (WBB6F1-KitW/Wv and C57BL/6 KitW-sh/W-sh mice) nor pharmacologic mast cell stabilization with cromoglycate had any significant impact on the disease phenotype of experimental pneumococcal meningitis. The incomplete reversal of the enhanced CSF pleocytosis by local mast cell engraftment suggests that this phenomenon is caused by other c-Kit mutation-related mechanisms than mast cell deficiency. In conclusion, our study suggests that mast cells can be activated by S. pneumoniae in vitro. However, mast cells do not play a significant role as sentinels of pneumococcal CSF invasion and initiators of innate immunity in vivo.

Background: Clinical features of thyroid dysfunction vary with age, and an oligosymptomatic presentation of hyperthyroidism is frequently observed in the elderly. This suggests age modulation of thyroid hormone (TH) action, which may occur, for example, by alterations in TH production, metabolism and/or TH action in target organs. Objectives: In this paper, we address possible changes in TH transporter expression in liver tissues as a mechanism of age-dependent variation in TH action. Methods: Chronic hyperthyroidism was induced in 4- and 20-month-old C57BL6/NTac male mice (n = 8-10) by intraperitoneal injections of 1 µg/g body weight <smlcap>L</smlcap>-thyroxine (T₄) every 48 h over 7 weeks. Control animals were injected with PBS. Total RNA was isolated from liver samples for analysis of the TH transporter and TH-responsive gene expression. TH concentrations were determined in mice sera. Results: Baseline serum free T₄ (fT₄) concentrations were significantly higher in euthyroid young compared to old mice. T₄ treatment increased total T₄, fT₄ and free triiodothyronine to comparable concentrations in young and old mice. In the euthyroid state, TH transporter expression was significantly higher in old than in young mice, except for Mct8 and Oatp1a1 expression levels. Hyperthyroidism resulted in upregulation of Mct10, Lat1 and Lat2 in liver tissue, while Oatp1a1, Oatp1b2 and Oatp1a4 expression was downregulated. This effect was preserved in old animals. Conclusion: Here, we show age-dependent differences in TH transporter mRNA expression in the euthyroid and hyperthyroid state of mice focusing on the liver as a classical TH target organ.

Humanity is plagued by many diseases. Beside environmental influences, many --- if not all --- diseases are also subject to genetic predisposition and then display molecular alterations such as proteomic or metabolic aberrations. The elucidation of the molecular principles underlying human diseases is one of the prime goals of biomedical research. To this end, there has been an advent of large-scale omics profiling studies. While the field of molecular biology has experienced tremendous development, data analysis remains a bottleneck. In the context of this thesis, we developed a number of analysis strategies for different types of omics data resulting from different experimental settings. These include approaches for associations studies for plasma miRNAs and time-resolved plasma omics data. Furthermore, we devised analyses of different RNA-Seq transcriptome profiling studies coping with problems such as lack of replicates or multifactorial experimental design. We also designed machine learning frameworks for the identification of discriminatory biomolecular signatures analysing case-control or time-to-event data. All of the strategies mentioned above were developed and applied in the contexts of multi-disciplinary endeavours. They aided in the identification of plasma miRNAs associated with age, sex, and BMI as well as plasma miRNAs bearing potential as diagnostic biomarkers for non-alcoholic fatty liver disease (NAFLD). This thesis significantly contributed to a study demonstrating the utility of plasma miRNAs as prognostic biomarkers for major cardiovascular events such as ST-elevation myocardial infarction. Our approaches for analysing RNA-Seq data aided in the characterisation of murine models for Alzheimers disease and the transcriptional response of human gingiva fibroblasts to ionizing radiation exposure. Furthermore, the developed approaches were applied for studying a human model for thyrotoxicosis and for the successful identification of a multi-omics plasma biomarker signature of thyroid status. We are only beginning to understand the molecular principles underlying human diseases. The approaches and results presented in this thesis will contribute to improved understanding of biomolecular processes involved in common diseases such as Alzheimers disease, NAFLD, and cardiovascular diseases.

Staphylococcus aureus (S. aureus) is the leading cause of serious diseases in human both from hospital and community associated infections. Some clinical manifestations of S. aureus infections are infective endocarditis (IE), osteoarticular infections, skin and soft tissue, pleuropulmonary, and device-related infections. In Germany, S. aureus is the second most common cause of hospital-acquired (HA) infections. About 16.7% of these nosocomial infections are caused by HA-MRSA clinical isolates. It has been a huge threat for the clinicians/scientists to control the emergence of such infections caused by S. aureus. S. aureus exhibits increasing virulence and resistance to various antibiotics, complicating prevention and treatment of infections. Eventually, active and passive vaccines might be the alternative strategy to deal with S. aureus related diseases. An effective S. aureus vaccine would provide great potential security and many societal benefits. However, so far vaccine trials have failed often due to limited number of available antigen candidates (monovalent/single antigen) in the clinical trials. Efforts to develop not only S. aureus vaccine but also prognosis or diagnosis tools are challenging tasks. That was the motivation point for the current thesis to identify potential antigen candidates for the aid of vaccine development using immunoproteomics approaches. From the earlier studies, passive immunisation with CP5, CP8, PNAG, ClfA, SdrG, alpha-hemolysin and active immunisation with IsdB, SEB, ClfA, CP5, CP8 were examined during preclinical trials and found to be the best examples for potential vaccine candidates. The antibody responses against S. aureus infections are heterogenous, still it is possible to identify the antibody signatures to a number of corresponding S. aureus antigens, whose abundance and presence could correlate to the disease state and may predict treatment outcome. To support this hypothesis, goals were set to develop and validate serological assay by indirect detection using suspension array technology (SAT). During the study, an antigen library of 140 recombinant S. aureus antigens was generated. Further serological assay were developed and validated to monitor the insights of antibody mediated humoral responses during S. aureus infection from various episodes of S. aureus infection. As an outcome, potential immunogenic antigen candidates were identified which may be used as candidates in active/passive vaccination and to stratify the patient. In total, three studies were carried out using serum and plasma samples from S. aureus nasal colonised healthy individuals (carriers and non-carriers) and bacteraemia patients (control, complicated and uncomplicated sepsis). Bead-based assays were performed and subsequent statistical analyses were done to identify immunogenic antigens that might discriminate between the different clinical status and outcome. Screening of healthy individuals (study-1) have shown significantly higher IgG responses against 14 antigens in S. aureus nasal carriers compared to non-carriers. Furthermore, the clonal complex 30 group of healthy carriers has shown significantly higher IgG responses against toxic shock syndrome toxin-1 (Tsst1) in comparison to non-clonal complex 30 healthy carriers. Study-2 have shown extensively higher IgG responses against 67 antigens in control samples compared to sepsis patients. 50% of the antigens eliciting different immune responses belonged to the extracellular components of S. aureus. The IgG responses against MSCRAMM proteins such as FnbA, FnbB, Efb-1 have been shown to be significantly higher in complicated sepsis. Study-3 have shown notably higher IgG responses against 8 antigens (Plc, SspB, IsaA, SEM, GlpQ, HlgC, SACOL0444, SACOL0985) at baseline in uncomplicated sepsis patients compared to patients subsequently developing complicated sepsis. In summary, the group of immunogenic antigens that have been identified in these studies using immunoproteomics approach could be a starting point for the development of S. aureus vaccines. Moreover, the suspension array technology approach facilitated the identification of new S. aureus antigen candidates in addition to earlier reports. The current results of this study support the hypothesis that it is possible to identify a serological response to potential S. aureus antigens that correlate to progression of S. aureus infections.

Die Transfusionsassoziierte Akute Lungeninsuffizienz (TRALI) ist die häufigste tödliche Nebenwirkung der Transfusion von Blutprodukten und wird oft durch mittransfundierte leukozytenreaktive Antikörper (AK) induziert. AK gegen das Humane Neutrophilenantigen (HNA)-3a verursachen häufig schwere Fälle der TRALI. HNA-3a ist auf dem Großteil der Blutzelltypen exprimiert und entsteht durch einen Einzelnukleotidpolymorphismus im Gen des „choline transporter-like protein 2“ (CTL2), welcher zur Substitution der Aminosäureposition 154 in der Sequenz des Proteins führt. Klinische Beobachtungen und zahlreiche Studien legen nahe, dass TRALI-induzierende AK die Akkumulation und Aktivierung von Granulozyten im Lungenkapillarbett verursachen. Durch den Zusammenbruch der Kapillarbarriere kommt es in der Folge zu einem Lungenödem. Die Entwicklung eines Hochdurchsatzverfahrens zur Detektion von HNA-3a-AK in Blutprodukten und die Identifizierung therapierelevanter Schaltstellen, im Pathomechanismus der HNA-3a-AK-induzierten TRALI, waren daher Hauptschwerpunkte dieser Studie. In diesem Zusammenhang wurde ein Nachweissystem für HNA-3a-AK auf der Grundlage von CTL2-Fragmenten etabliert. Ein Screening zahlreicher Anti-HNA-3a-Plasmen ergab, dass mit CTL2-Peptiden in Festphasentests jedoch nur etwa 50% aller HNA-3a-AK nachgewiesen werden können. Weitere Untersuchungen ergaben, dass die Detektion aller HNA-3a-AK nur mit zellbasierten Methoden möglich ist, bei denen CTL2 in seiner natürlichen Konformation vorliegt. Diese Studie leistet damit einen wichtigen Beitrag zur Charakterisierung des konformationssensitiven Epitops der HNA-3a-AK und identifiziert wichtige Grundvoraussetzungen für Methoden zum Nachweis dieser AK. Ein weiterer Schwerpunkt dieser Arbeit war die Untersuchung der Interaktion zwischen HNA-3a-AK und Granulozyten. Dieser experimentelle Ansatz gründet auf histopathologischen Lungenuntersuchungen verstorbener TRALI-Patienten, die eine massive Akkumulation und Aggregation von Granulozyten in den Kapillaren aufzeigen. Aus diesem Grund erfolgte die Untersuchung dieser Interaktion zunächst hinsichtlich verschiedener Parameter, die zu einer gesteigerten Sequestrierung von Granulozyten in der Lunge führen können. Hierzu gehören die Granulozytenaggregation (GA), die Versteifung von Zellen und die Zelladhäsion. Die Modifikation des Standard-Granulozytenaggregationstests ergab, dass die HNA-2- und HNA-3a-AK-induzierte GA aktive Prozesse sind, welche unabhängig von Plasmafaktoren stattfinden, jedoch von der Aktivität einer bislang noch nicht identifizierten Serinprotease abhängig sind. Hierbei wurden potente Aggregationsinhibitoren identifiziert welche auch als potenzielle Therapeutika zur Behandlung von TRALI in Frage kommen. Mit Hilfe desselben Testsystems konnte ermittelt werden, dass voraktivierte Granulozyten eine erhöhte Aggregationsneigung aufweisen. Im Zusammenhang mit dem Schwellenwertmodell der TRALI liefert dieses Ergebnis eine mögliche Erklärung, warum Patienten mit schweren Vorerkrankungen häufiger an TRALI erkranken. Neben der GA wurden in dieser Studie zwei weitere Eigenschaften identifiziert, die eine Akkumulation der Zellen in den engen Lungenkapillaren erklären: deren Elastizität und Adhäsivität. Mithilfe der Rasterkraftmikroskopie wurde nachgewiesen, dass HNA-3a-AK eine Versteifung von Granulozyten induzieren. Ebenso wurde gezeigt, dass HNA-3a-AK das Integrin Mac-1 (CD11b/CD18) auf der Granulozytenoberfläche aktivieren, was zu einer verstärkten Adhäsion der Zellen an Fibrinogen führt. Steifere und adhäsivere Granulozyten akkumulieren möglicherweise vermehrt in den Lungenkapillaren. Eine weitere wichtige Fragestellung dieser Studie war, ob HNA-3a-AK eine direkte Aktivierung von Granulozyten auslösen. Die Untersuchungen ergaben, dass die Aktivierung von CD11b, weder mit der Erhöhung der CD11b-Expression, bzw. mit der proteolytischen Abspaltung von L-Selektin, noch mit einer Sauerstoffradikalproduktion einhergeht. Dieses ungewöhnliche Muster an Veränderungen deutet nicht auf eine Aktivierung zytotoxischer Antworten hin. Seit kurzem ist bekannt, dass HNA-3a-AK Kapillarendothelzellen auch auf direktem Wege aktivieren und dass selbst in Granulozyten-depletierten Mäusen schwache TRALI-Symptome auftreten. Demzufolge ergibt sich ein neues Modell der HNA-3a-AK-induzierten TRALI: Nach Transfusion von HNA-3a-AK bleiben aggregierte, steifere und adhäsivere Granulozyten in den engen Lungenkapillaren stecken und interagieren dort mit dem aktivierten Gefäßendothel. Durch diese Interaktion kommt es vermutlich zur Aktivierung der Granulozyten und zu einer starken Inflammationsreaktion, welche eine weitere Zerstörung der Lungenkapillaren und schließlich ein schweres Lungenödem zur Folge hat. Die besondere Schwere der HNA-3a-AK-induzierter TRALI entsteht also vermutlich nicht aufgrund einer direkten und starken Granulozytenaktivierung, sondern vielmehr durch die gleichzeitige Beeinflussung verschiedener epitoptragender Zelltypen.

Staphylococcus aureus can be a harmless colonizer of the human body, which colonizes about 20-30% of the population. If S. aureus overcomes the outer physical barrier of the body, comprised of the skin and mucous surfaces, it can also cause severe diseases such as endocarditis, pneumonia, or sepsis. S. aureus possesses a variety of secreted and surface bound virulence factors to mediate attachment and invasion into the host, to disseminate an infection and to modulate and evade the immune system. But not only the huge amount of virulence factors turn S. aureus into a dangerous human pathogen, also its resistances to a broad spectrum of commonly used antibiotics make infections hard to treat. During the last years it became apparent that S. aureus can be internalized by as well as replicate and persist in professional and non-professional phagocytic cells. It is suggested that the intracellular compartment protects S. aureus from antibiotic treatment and the immune system. To accomplish the adaptation to the intracellular compartment, S. aureus needs to regulate its gene expression by regulatory systems. One of these regulators is the alternative sigma factor SigB, which directly and indirectly regulates the expression of about 200 genes in vitro. However, the stimuli leading to the activation of SigB in S. aureus are barely known and also its role during an infection varies, depending on the S. aureus strain and infection model used. Therefore, the importance of SigB during the early adaption of S. aureus to the intracellular environment should be elucidated using a cell culture infection model. First, the existing cell culture infection workflow had to be modified to improve the data analysis and to increase the yield of identified proteins to comparatively monitor the adaption reaction of S. aureus HG001 and its isogenic ΔsigB mutant to the intracellular milieu of S9 human bronchial epithelial cells. The proteome analysis in conjunction with RT-qPCR analysis of the wild type and the ΔsigB mutant revealed a fast and transient activation of SigB directly after internalization. Quantitative analysis of the intracellular bacterial titer demonstrated a requirement of SigB for intracellular replication. Differences in the proteome composition of the ΔsigB mutant in comparison to the wild type after internalization reflected the different growth rates, resistance to antibiotics and toxic compounds, adaptation to oxidative stress, and protein quality control mechanisms. The accessory gene regulator (Agr) is like SigB also a global regulator of gene expression in S. aureus. To elucidate possible benefits in the intracellular survival of the co-occurrence of S. aureus wild type and Δagr mutant cells, like it can be found in sites of an infection, a co-infection assay was established. With the co-infection assay the simultaneous and competitive intracellular survival in comparison to the individual intracellular survival was followed for three days post-infection (p.i.). The single and the co-infection revealed that the wild type was able to replicate more efficiently during the first hours p.i. than the Δagr mutant, but the mutant was able to survive more efficiently. The extracellular proteome of S. aureus represents the key compartment for virulence factors. Virulence factors are secreted or bound to the surface of the S. aureus cell. With the infection workflow applied in this study, secreted proteins are lost during the enrichment of the intracellular bacteria for proteome analysis. Therefore, no information about the levels or the regulation of virulence factor expression can be acquired in the cell culture infection model using cell sorting approaches. Hence, the extracellular proteome of S. aureus was analyzed in vitro from shake flask experiments. To get a comprehensive overview of the regulatory impact of different global regulators onto the secretome, S. aureus LS1 mutants lacking the global regulators Agr, SarA and SigB were compared to the respective wild type. Additionally the protein level of the secretome of the well characterized and frequently used S. aureus strains 6850, CowanI, HG001, LS1, SH1000, and USA300 was comparatively analyzed. This project was performed in collaboration with the group of Prof. Löffler from the Institute of Medical Microbiology in Jena. The data of the extracellular proteome generated in this thesis were combined with phenotypic and toxicity data to explain strain differences in invasiveness, cytotoxicity, phagosomal escape, and intracellular persistence in infection experiments.

In summary, the transcriptome data demonstrated that acute RAP for 7h induces significant changes in the expression of several left atrial genes, including those reflecting ANG II-mediated oxidative stress, tissue remodeling, and energy depletion. Furthermore, the results from the dronedarone study demonstrated that this drug is capable of attenuating most of RAP-induced changes in oxidative stress-related gene expression. Accordingly, the haemodynamic parameters also showed that dronedarone reduced RAP-induced microvascular flow abnormalities. This view is supported by the observation that in the used porcine model of acute AF, dronedarone decreased RAP-dependent PKC phosphorylation, NADPH isoform expression, F2-isoprostane release and IκBα phosphorylation. Additionally, the results of the irbesartan study indicate that ET-1 contributes to AF-dependent atrial fibrosis by synergistic activity with ANG-II to stimulate SGK1 expression and enhance phosphorylation of the SGK1 protein which, in turn, induces CTGF. The latter has been consistently associated with tissue fibrosis. In support of this view, in vitro analyses using HL-1 cells verified CTGF induction after short episodes of RAP and additionally in response to exogenous addition of ET-1. Accordingly, irbesartan was shown to attenuate most of the RAP-dependent changes in atrial or ventricular gene expression.

Genomics is the field of modern biology that studies the genome as the sum of all genes of a given organism. Genomics includes the analysis of genomic variations in order to identify genetic susceptibility loci for various human diseases. Besides genomics, there are related fields summarized by the term "Omics" such as transcriptomics and proteomics, studying the sum of all transcripts and proteins in a defined biological system, respectively. Genetic variants, namely single nucleotide polymorphisms (SNPs) and copy number variations (CNVs) are used to identify genomic loci associated with human traits and diseases. Genome-wide association studies (GWASs) based on SNP data have been performed for a wide range of human traits and diseases. In the population-based Study of Health in Pomerania (SHIP) and the independent SHIP-TREND study, whole-genome genotyping data were available for 4081 and 986 individuals, respectively. In contrast to the widely used GWAS based on SNPs, association studies using CNV data are difficult to implement and thus less common. Therefore, one aim of this work was to detect CNVs using the whole-genome genotyping data available for 4081 individuals from SHIP. Another aim was to develop an efficient workflow for the analysis of these CNVs. As most common genetic variants exhibit only relatively small effects on phenotypic variability, large sample sizes are needed to maximize the statistical power to detect such effects. Therefore, the integration of data from multiple collaborating studies is indispensable. In this context, several CNV studies with the SHIP data have been performed and published, for example on body mass index (BMI) phenotypes where the SHIP cohort was used as a population-based control. Trait-associated genetic markers identified through GWASs are often intergenic or synonymous coding, and those loci identified through whole-genome CNV analyses often contain multiple genes, making it difficult to identify the causal variants. In this context, the functional analysis of identified loci aids in determining causal variant(s). One possibility to conduct functional analysis is the expression quantitative trait loci (eQTL) analysis, defined as the association of genome-wide genotyping data with genome-wide gene expression data based on measured transcriptomes. This allows the identification of genetic variants influencing the expression levels of defined genes. A further example are transcriptome-wide association analysis (TWAS), defined as the association of phenotype data with whole-genome expression data. Thus, another aim of this work was to establish an analysis pipeline for processing such expression data, which were available for about 1000 individuals from the SHIP-TREND study. Here, array-based gene expression data were generated using RNA prepared from whole-blood. Interpretation of TWAS results is often difficult, because of possible reverse causation on gene expression data. Furthermore, technical errors of measurement may bias the results. In a comprehensive work, biological and technical factors influencing measured gene expression data have been identified and were subsequently taken into account to improve the association analyses. To further elucidate the molecular mechanisms underlying the relationship of gene expression levels with human traits or diseases, pathway analyses using the Ingenuity Pathway Analysis (IPA) tool have been performed in connection with the TWAS. As for GWASs, the associations identified in TWAS usually exhibit only small effect sizes, highlighting the need for larger studies or meta-analysis to identify all susceptibility variants. In this context several eQTL- and TWAS meta-analyses using the SHIP-TREND data have been performed, for example on the phenotypes age, sex, BMI, smoking status and serum lipid traits. The results of these analyses are in preparation for publication and the most advanced example, the correlation of expression data with BMI, is presented here. The integration of whole-genome genotyping and expression data provides new functional information of the underlying biological mechanisms of complex human traits and diseases. Within the frame of this work, this could be demonstrated for the example of susceptibility to Helicobacter pylori infection.

Dilated Cardiomyopathy is a chronic myocardial disease characterized by progressive depression of contractile function and ventricular dilatation. It is the leading cause of heart failure and the most common reason for heart transplantation. Besides genetic causes, viral infection and autoimmune response are considered to play a major role in the etiology of the disease. Among different viruses that cause the disease, Coxsackievirus B3 (CVB3) is predominantly associated with the development and progression of the disease. Moreover, Coxsackievirus induced myocarditis in the mouse mimics human myocarditis and dilated cardiomyopathy. In the murine model, the disease progresses over a period of 90 days from acute myocarditis to chronic myocarditis and further develops into dilated cardiomyopathy and congestive heart failure. Though much is known about the progression of the disease, the molecular events occurring after infection with CVB3 are not completely understood. In the current study, comparative proteomic analysis of A.BY/SnJ mouse hearts 84 days post infection (84 d p.i.) with CVB3 and age-matched non-infected mouse hearts was performed. 2D-DIGE and gel-free LC-MS/MS were used to characterize the changes occurring at the molecular level and Western Blot analysis as well as immunohistochemical staining was carried out for validation of results. A total of 101 distinct proteins were identified as displaying dilated cardiomyopathy-associated changes in A.BY/SnJ mouse hearts 84 d p.i. compared to age matched controls. Comprehensive analysis by both DIGE and gel-free proteomics revealed proteins related to lipid metabolism (18%), carbohydrate metabolism (14%), cell morphogenesis (14%) and respiratory electron transport chain (9%) to display significantly altered levels in diseased mouse hearts. The significant increase in extracellular matrix proteins observed in mouse hearts 84 d p.i. indicated extensive fibrosis. On the other hand, proteins related to energy metabolism were identified at lower levels in infected mouse hearts than in controls. These proteomics data and the decrease in activities measured for complexes I-IV of the respiratory electron transport chain in A.BY/SnJ mouse hearts 84 d p.i compared to age matched controls, indicate a diminished energy supply in the dilated hearts of CVB3 infected mice. Furthermore, proteins associated with muscle contraction were identified at lower levels in mouse hearts 84 d p.i. compared to age matched controls indicating compromised myocardial contractility due to virus induced dilated cardiomyopathy. While extracellular matrix proteins and contractile proteins were identified in the DIGE analysis, proteins of lipid metabolism which are mostly mitochondrial in origin and have a pI > 7 were identified by gel-free proteomics indicating the advantages of both methods. Gel based analysis also aided in the identification of protein isoforms/ species which allows conclusions on post translational modifications and protein processing. Thus, the current study also identified infection related changes in the phosphorylation of selected proteins. Phosphospecific staining of the gels demonstrated increased phosphorylation of myosin regulatory light chain - ventricular isoform, actin - aortic smooth muscle isoform, heat shock protein 90B, and heat shock protein beta-1 in infected mouse hearts. Extensive degradation of proteins was not observed in the dilated heart. As described earlier, virus induced dilated cardiomyopathy develops over a period of 90 days in the murine model during which the mice also grow and undergo aging. Since aging is one of the factors influencing the susceptibility of animals to disease, age dependent changes in the proteome of mouse hearts were also studied by comparing 4 months old (84d) A.BY/SnJ mice with 1 month old mice as controls. Complementary analyses by 2D-DIGE and gel-free LC-MS/MS analysis revealed 96 distinct proteins displaying age associated differences in intensity. These proteins are related to lipid metabolism (19%), protein transport (17%) and electron transport chain (12%). Mitochondrial proteins such as carnitine-o-palmitoyltranferase 1, carnitine-o-palmitoyltranferase 2, and carnitine-O-acetyltransferase involved in lipid metabolism and transport were identified at significantly higher levels indicating higher energy demand in 4 months old mice compared to controls. This conclusion is complemented by observation of decreases in the levels of respiratory electron transport chain proteins especially of subunits of ATP synthase as a member of complex V. Furthermore, an increase in intracellular transport proteins was also observed in 4 months old mouse hearts compared to one month old controls. An increase in the level of vesicular transport proteins likely constitutes a secondary effect leading to endoplasmic reticulum associated protein degradation. In the two studies described above, altered mitochondrial functioning and thereby decreased energy/ATP production was very prominent indicating the role of mitochondria in health and disease. The exchange of ADP/ATP across the mitochondrial membrane is carried out by the carrier protein adenine nucleotide translocase1 (ANT1). To improve understanding of the influence of ANT1 in the heart, comparative proteomic analysis using gel-free LC-MS/MS was performed with hearts of 3 months old rats over-expressing ANT1 using hearts from age-matched wild type animals as controls. A total of four hundred and thirty three proteins were identified with at least two peptides, of which eighty seven proteins displayed small but significant (p<0.05) changes in intensity. Proteins related to integrin linked kinase signalling and myocardial contraction displayed increased levels whereas proteins of the mitochondrial respiratory electron transport chain displayed decreased levels in ANT1 overexpressing hearts compared to wild type animals. Oxyblot analysis performed to study changes in the protein oxidation did not reveal any significant difference in the oxidative state of the proteins between the wild type and transgenic animals. To understand the influence of ANT1 overexpression in virus induced dilated cardiomyopathy, comparative proteomic analyses was performed for the mitochondrial fractions from the hearts of 8 months old rats of the wild type and ANT1 transgenic animals infected with CVB3. Of a total of 370 identified proteins, 83 proteins displayed altered levels in ANT1 overexpressing animals compared to controls. Proteins related to mitochondrial electron transport chain, fatty acid metabolism, contractility and cell structure displayed decreased levels in the infected transgenic animals compared to controls indicating decreased energy metabolism and myocardial contractility besides compromised cell structure. Besides viral causes of dilated cardiomyopathy, autoimmunity also plays a major role in the development of myocarditis and dilated cardiomyopathy. Therefore proteomic analyses of experimental models of autoimmune myocarditis generated by active immunization of rats with peptides of FcγIIa receptor -CEPPWIQVLKEDTVTL (peptide 1) designated as FcR animals and CRCRMEETGISEPI (peptide 2) designated as FcR2 animals- was performed. Of the 303 proteins identified with at least two peptides by gel-free LC-MS/MS analysis. 43 proteins displayed intensities greater than 1.2 fold in FcR rat hearts and 49 proteins displayed intensities greater than 1.2 fold in FcR2 rat hearts compared to animals injected with KLH adjuvant treated as controls. The majority of the alterations (>70%) were observed in both autoimmune models. Thus, immunization leading to an induction of the acute phase response signalling was observed in both experimental setups. Furthermore, the increased amount of proteins such as lumican or procollagen alpha 1, type 1 indicated the presence of fibrosis after immunization independent of the peptide used. In summary, using proteomics the current thesis addresses the changes in protein profiles of two models of dilated cardiomyopathy, namely, virus induced dilated cardiomyopathy and autoimmunity induced dilated cardiomyopathy in mouse and rat models of disease. 2D-DIGE and gel-free LC-MS/MS analysis are complementary techniques which provided a comprehensive view of the changes in the protein profile of hearts of the different animal models. Altered mitochondrial function resulting in decreased energy metabolism and compromised myocardial contractility were prominent in viral models of cardiomyopathy whereas intense acute phase response signalling was observed as a characteristic feature of autoimmune dilated cardiomyopathy. Altered mitochondrial function was also prominent in age associated changes in the heart of A.BY/SnJ mice indicating the role and influence of mitochondria in health and in disease.