In this thesis project housekeeping genes in differentiating human embryonic stem cells were investigated. Housekeeping genes are involved in basic functions in the cells and are assumed to be expressed at relatively constant levels across different cell types and experimental conditions. Based on these features, housekeeping genes are frequently used as controls in calibration of gene expression data. Commonly used housekeeping genes in somatic tissues have shown to vary notably in human embryonic stem cells and are therefore inappropriate as reference genes in this unique cell type. In the present work a novel set of gene expression data obtained by profiling of undifferentiated and early differentiating cardiac cells, was analyzed. Stably expressed genes were identified in this data set and were subsequently intersected with a previously proposed set of 292 stable genes in human embryonic stem cells. A resulting set of 73 genes show stability across all investigated cell lines and experimental conditions. These genes are suggested as a more reliable set of reference genes in differentiating human embryonic stem cells than frequently used housekeeping genes in somatic tissue. In addition, a novel set of 20 genes was identified as very stably expressed during the differentiation towards the cardiac lineage. After further validation of stability with RT-PCR, these genes could be useful as controls in studies of human embryonic stem cells that differentiate towards the cardiac lineage.

<p>In this thesis project housekeeping genes in differentiating human embryonic stem cells were investigated. Housekeeping genes are involved in basic functions in the cells and are assumed to be expressed at relatively constant levels across different cell types and experimental conditions. Based on these features, housekeeping genes are frequently used as controls in calibration of gene expression data. Commonly used housekeeping genes in somatic tissues have shown to vary notably in human embryonic stem cells and are therefore inappropriate as reference genes in this unique cell type. In the present work a novel set of gene expression data obtained by profiling of undifferentiated and early differentiating cardiac cells, was analyzed. Stably expressed genes were identified in this data set and were subsequently intersected with a previously proposed set of 292 stable genes in human embryonic stem cells. A resulting set of 73 genes show stability across all investigated cell lines and experimental conditions. These genes are suggested as a more reliable set of reference genes in differentiating human embryonic stem cells than frequently used housekeeping genes in somatic tissue. In addition, a novel set of 20 genes was identified as very stably expressed during the differentiation towards the cardiac lineage. After further validation of stability with RT-PCR, these genes could be useful as controls in studies of human embryonic stem cells that differentiate towards the cardiac lineage.</p>

Das Ziel dieser Arbeit war es einen geeigneten internen Standard für die linksventrikuläre mRNA-Quantifizierung bei kardialer Hypertrophie und Herzinsuffizienz in der Ratte zu finden. Die mRNA-Expression von GAPDH, 18SrRNA, Cyclophilin and Porphobilinogen-Desaminase (PBGD) wurde vier Wochen nach Induktion von Hypertrophie (kleiner aortokavaler Shunt) und Herzinsuffizienz (großer aortokavaler Shunt bzw. Myokardinfarkt) mit Hilfe des Ribonuklease Protektion Assay (RPA) und der TaqMan PCR bestimmt. Die linksventrikuläre ANP-mRNA-Expression war in allen untersuchten Modellen unabhängig von der angewendeten Detektionsmethode erhöht. Die mRNA-Expression der Housekeeping Gene mit Hilfe des RPA bestimmt, war in allen untersuchten Modellen im Vergleich zu den Kontrollen unverändert (GAPDH: kleiner Shunt: 105.1+-7.4, großer Shunt: 105.2+-6.8, MI: 88.4+-3.7; 18SrRNA: kleiner Shunt: 110.7+-8.2, großer Shunt: 104.4+-8.9, MI: 107.5+-12.0; Cyclophilin: kleiner Shunt: 96.4+-7.9, großer Shunt: 112.9+-4.9, MI: 95.7+-13.8; PBGD: kleiner Shunt: 81.9+-6.3, großer Shunt: 83.7+-4.7, MI: 79.8+-9.7; % Kontrolle). In der sehr sensitiven TaqMan PCR zeigte sich eine veränderte mRNA-Expression von GAPDH, PBGD und Cyclophilin, lediglich 18S wurde unverändert exprimiert (GAPDH: kleiner Shunt: 114.5+-18.7, großer Shunt: 133.6+-19.1, MI: 64.2+-6.2, p / The purpose of this study was to identify an appropriate left ventricular mRNA as internal standard in gene expression analysis in cardiac hypertrophy and heart failure in the rat. Expression levels of GAPDH, 18SrRNA, Cyclophilin and porphobilinogen desaminase (PBGD) were measured four weeks after induction of either cardiac hypertrophy (small aortocaval shunt) or heart failure (large aortocaval shunt or myocardial infarction) using Ribonuclease protection assay (RPA) and TaqMan PCR. The left ventricular expression of ANP mRNA was increased in all these experimental models independently of the used method. Using RPA the mRNA expression of all studied housekeeping genes was unchanged in all experimental models compared to controls (GAPDH: small shunt: 105.1+-7.4, large shunt: 105.2+-6.8, MI: 88.4+-3.7; 18SrRNA: small shunt: 110.7+-8.2, large shunt: 104.4+-8.9, MI: 107.5+-12.0; Cyclophilin: small shunt: 96.4+-7.9, large shunt: 112.9+-4.9, MI: 95.7+-13.8; PBGD: small shunt: 81.9+-6.3, large shunt: 83.7+-4.7, MI: 79.8+-9.7; % control). Using the TaqMan PCR as a much more sensitive method only 18SrRNA levels were unchanged whereas GAPDH, PBGD and Cyclophilin mRNA expression was regulated (GAPDH: small shunt: 114.5+-18.7, large shunt: 133.6+-19.1, MI: 64.2+-6.2, p

Hyaluronic acid (HA) is an important substance, which is mostly used in pharmaceutical and cosmetic industry. This substance is commonly found in the human body. HA is one of the factors contributing to virulence of microorganisms. Some bacterial strains produce hyaluronic acid in the form of a mucoid capsule that encapsulates the cell to protect bacteria against the immune system of the host organism. One of the main producers is the bacterial strain Streptococcus equi subsp. zooepidemicus. Contipro a.s. uses the strain CO4A to produce hyaluronic acid in large scale. The production strain was obtained by random mutagenesis by UV light. The aim of the work was to study changes in the genome, which led to a significant increase in hyaluronic acid production, using DNA microarray and real-time PCR (qPCR). The genome of the strain CO4A was sequenced and compared to reference ATCC35246 [1]. The size of the genome is 2,167,251 bp and 83 relevant variants (59 SNV and 34 indels) have been identified. Variants in coding regions were annotated and amino acid sequence changes were determined. In SNV mutations there was a change in the amino acid sequence in 45 cases. The change was identified in every case of indel mutations. The expression level of selected groups of genes was monitored in both strains by the method of DNA microarrays. A cascade of increased expression level of amino sugar metabolism genes leading to the synthesis of UDP-N-acetyl glucosamine was observed in strain CO4A (the increase in expression level of these genes compared to ATCC35246 was on average 28 %). Subsequently, the expression of selected genes was verified by qPCR. There was no significant difference in the expression level of the has operon genes of both strains. The effect of supplementation of the culture medium with N-acetylglucosamine (GlcNAc), which is one of the precursors of HA synthesis, was also studied by qPCR. A positive effect of the supplementation of the culture medium with external GlcNAc in the CO4A strain has been recorded. Also, the supplementation has positive effect on the yield of HA from the medium (increase in yield was on average by 17 %). GlcNAc has been shown to have a positive effect on the yield of HA in ATCC35246 strain as well (increase in yield was 9 % on average), but no significant changes in the expression levels were found in selected groups of genes in ATCC35246.

Magister Scientiae (Medical Bioscience) - MSc(MBS) / Purpose: Breast cancer is one of the most frequent and fatal diseases women all around the globe are challenged with today. In women, breast cancer has the highest mortality rate of all cancers and the incidence rate is on the increase. It is estimated that by the year 2025, 19.3 million women will become a victim of this grave health problem. This disease is a result of the formation of malignant tumours caused by genetic alterations that are involved in the proliferation of cells, cellular differentiation and the disturbance in homeostasis which subsequently leads to the abnormal multiplication and growth of cells. Breast cancer is considered a multifactorial disease with various risk factors such as age, radiation exposure, hormone therapy, oral contraceptives, dietary factors, environmental exposure and genetic predispositions. Breast cancers can be subdivided and classified based on their cellular surface receptors such as Estrogen Receptors, Progesterone Receptors and Human Epidermal Growth Factor Receptor 2. Of the various subtypes, the triple-negative breast cancer subtype which is negative for all 3 surface receptors and presents as the most aggressive form of breast cancer with a poor prognosis. Between 10-20% of all breast cancer cases are classified as triple-negative breast cancer. Due to the hormonal status of triple-negative breast cancer, treatment options are limited and thus of great concern. Chemotherapy remains the most common treatment modality, but prognosis is poor with relapse within years ultimately leading to poor survival outcome. Due to this lack of effective treatment plans, an alternative treatment with minimal side effects and better survival remains an imperative area to explore. A wide scope of literature highlights red palm oil and its health benefits, with its growth inhibitory potential drawing great attention. Red palm oil, extracted from the Elaeis guineensis palm tree is red in colour due to the abundance of carotenoids, tocotrienols and tocopherols found in the oil. Various compounds make up the oil such as lycopene, carotenes, vitamin E and coenzyme Q10. Most studies have researched the effects of vitamin E extracted from the oil as a contributor to its growth inhibitory activity. This study focuses on the effects of the commercial red palm oil as a whole with all its compounds on the proliferation of breast cancer cells as well as the effect it has on various genes associated with breast cancer. Method: This study investigated the effect of red palm oil concentrations (1, 10, 100, 500 and 1000 μg/ml) on breast cancer cells—MCF-7 and MDA-MB-231 with comparison to a non-cancerous cell line—MCF-12A for 24-, 48- and 72-hour treatment periods. The parameter investigated was cell proliferation through the CCK-8 cell proliferation assay and the morphology following red palm oil treatment was observed and captured. Additionally, this study also investigated the effect of red palm oil on the expression of Human Mammaglobin (hMAM) and Maspin genes through the PCR assay and results visualised through agarose gel electrophoresis. Data was statistically analysed using GraphPad version 6.0 software. Results: Following treatment of red palm oil, no apparent changes in the cell morphology was observed despite using variable treatment concentrations over variable times for MCF-7, MDA-MB-231 and MCF-12A cells relative to their respective controls. Immortalised MCF-12A cells showed a significant increase in proliferation with the varying treatment concentrations, but more prominently with the highest concentration at 24, 48 and 72 hours. MCF-7 cells showed significant decreases at 24 and 72 hours. Decreased proliferation was observed at all dosages used, particularly at 10, 100, and 500 μg/ml. Furthermore, MDA-MB-231 cells demonstrated a gradual increase in cell proliferation for the 3 selected time periods in the varying concentrations. Additionally, red palm oil did not alter the gene expression of Maspin at any of the varying treatments for MDA-MB-231 nor MCF-7 cells. However, changes in hMAM gene expression were observed at treatment concentration of 100 μg/ml in MDA-MB-231 cells that were incubated for 24 and 48 hours. However, the hMAM expression was not affected in treated MCF-7 cells. Conclusion: Red palm oil, as an alternative dietary oil, seems to have potential growth inhibitory properties as demonstrated by the change in the cell proliferation of the MCF-7 cells. Literature show that various individual compounds extracted from red palm oil have anti-proliferative and inhibitory effects on breast cancer cells making them good candidates for therapy. However, this study concludes that red palm oil as a whole component would not be a suitable therapeutic agent for highly aggressive triple-negative breast cancer.

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