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The Human Colon and the Variability of its Microbial Colonization from Adaptations to Different Environmental Conditions
Peterová, Lucie ; Vančata, Václav (advisor) ; Pavlasová, Lenka (referee)
This bachelors's thesis focuses on the study of the human large intestine and the variability of its microbial colonization in relation to different environmental conditions. The human large intestine is considered to be a dynamic ecosystem that is populated by a diverse community of microorganisms known as the gut microbiome. The gut microbiome plays a key role in host physiology, influencing digestion, the immune system and energy metabolism. This thesis summarizes the current state of knowledge in the literature regarding the human large intestine and its microbial population, focusing on the adaptation of the intestinal microbiota to different environmental conditions such as diet, antibiotic use and disease occurrence. It also analyses the impact of lifestyle and environmental factors on the gut microbiota, including the effects of stress, physical activity and geographical location. The thesis provides the reader with a comprehensive overview of the gut microbiome and highlights its importance in maintaining human health. The variability of microbial colonization of the gut is a fascinating phenomenon that deserves careful study and understanding. Understanding these processes may contribute to the development of new strategies for maintaining and restoring a healthy gut microbiota that could...
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The influence of gut microbiome on NAFLD development
Herbstová, Kateřina ; Horáková, Olga (advisor) ; Vodička, Martin (referee)
The composition of the intestinal microbiome (i.e. the set of microorganisms living in the intestines) can significantly contribute to the overall function of the host organism, its state of health and the development of diseases. The aim of this works is to describe the possible connections between the gut microbiome and the development of NAFLD (non-alcoholic fatty liver disease). NAFLD is a disease caused by excessive storage of fat hepatic cells not due to alcohol abuse.
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Metagenomic analysis of child gut microbioma
Zourková, Tereza ; Škutková, Helena (referee) ; Bartoň, Vojtěch (advisor)
The thesis is focused on the influence of the metagenome on child growth and the reasons for the usefulness of investigating the consequences of changes in the human intestinal microbiome. It also describes the general problematics of the microbiome and the history of its studies. The composition of the human intestinal microbiome and the connection with the immune system or, for example, hormone production, are also described here. The thesis also contains information on some methods of metagenome analysis, namely microscopic methods using previous cultivation, mass spectrometry and sequencing methods. The data analysis procedure using various bioinformatics software, with which the data were appropriately pre-processed, is also described here. Filtered data in this way are ready for the following metagenome profiling, which is also described here. At the end of the thesis, the profiling results are evaluated, based on which the course of changes in the microbiome during the aging of the child are estimated, which is the main goal of this bachelor's thesis.
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Effect of pathogens on the vaginal microbiome
Procházková, Jana ; Tachezy, Jan (advisor) ; Smutná, Tamara (referee)
The human body is heavily populated with a wide variety of microorganisms. These microorganisms form coherent communities, which in contact with specific human organs form microbiomes. Each microbiome is unique in its composition. The study of microbiomes enables us to describe their composition and to understand the complex interactions that occur between microorganisms and humans. Methods of microbiome analysis are constantly evolving. For example, next-generation sequencing is currently the most widely used method for the characterization of microbiomes. Bacteria of the genus Lactobacillus are the major component of a healthy vaginal microbiome in most women. A healthy vaginal microbiome is essential for maintaining the natural homeostasis and to assure a proper functioning of the female urogenital tract. Lactobacillus is also important for the protection of the vagina from pathogenic agents such as viruses, bacteria, archaea and eukaryotes. In this bachelor's thesis the major pathogens of the Bacteria and the Eukaryota domain are described. Hereby a particular focus is on Trichomonas vaginalis, which is the most prevalent pathogenic agent of the female urogenital tract worldwide. Studying the immunity of the vaginal microbiome to this parasite is therefore essential. Furthermore, the mechanisms of...
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Host-microbiota, pro-inflammatory immunity and physiological senescence in wild birds
Těšický, Martin
Triggered by microbial ligands, inflammation serves as a "double-edged sword" to fight infections on the one hand, but on the other hand causing tissue damage due to oxidative stress if it is dysregulated. For example, chronic inflammation can contribute to inflammaging, which is now widely regarded as one of the causes of ageing. In my interdisciplinary dissertation, my colleagues and I investigated three interrelated aspects of inflammation, using an evolutionary framework and various free-living birds as models: (1) ecological and evolutionary determinants of gut microbiota (GM) composition and diversity, a driver of wild bird immunity, (2) diversity in immune genes affecting inflammatory responses in wild birds and (3) inflammation-related physiological senescence in a free-living passerine bird, the great tit (Parus major). Firstly, using 16S rRNA gene metabarcoding, we revealed high intra- and interspecific variation in passerine gut microbiota (GM) dominated by the major phyla Proteobacteria, Firmicutes, Actinobacteria and Bacteroidetes. Although in mammals GM depends strongly on host phylogeny and diet, in birds we found only moderate effects of phylogeny and very limited effects of host geography and ecology on GM composition. While microbiota diverged between the upper and lower...
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Microbial diversity of breast milk and its influence on the gut microbiome of infants
Novotná, Jana ; Vítová, Eva (referee) ; Trachtová, Štěpánka (advisor)
Breast milk is considered the most important source of nutrition for infants and newborns due to its content of all the necessary nutrients and bioactive components that positively affect the child's immune system. The theoretical part of my work deals with the microbial composition of breast milk and its transformation depending on the stages of breastfeeding and other factors. The experimental part is focused on the identification of selected bacterial strains in breast milk and stool of a breastfed child and a child fed an artificial milk diet. Collection strains of bacteria belonging to the genera Bifidobacterium, Lactobacillus, and Candida were used for the analysis. DNA was isolated by phenol extraction, using magnetic carriers and a commercial kit. The presence of bacterial DNA was proved by q-PCR analysis using genus-specific primers for selected bacteria.
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New trends in the use of probiotics in cosmetic products and their characterization
Dvořáková, Monika ; Němcová, Andrea (referee) ; Trachtová, Štěpánka (advisor)
Probiotic products have always been, in the form of various dairy products, a part of our diet. In recent years, they also became prominent in the pharmaceutical sector, where they can often be found as food supplements, and in the cosmetic sector, where they are being added to intimate hygiene and skin care products. The first part of the thesis consists of conducting a theoretical research in the field of probiotics, microbiome and other possibilities of where we can find probiotic organisms in cosmetic products. Further, a part of the thesis is devoted to methods of cultivating and isolating bacterial DNA from the following products: Benton, Mechnikov, La Rosche-Posay creams and Benton and Neogen masks, in sufficient quality for subsequent PCR amplification. DNA was isolated using magnetic carriers, a commercial kit, and phenol extraction. The presence of bacterial DNA was proved by a q-PCR analysis using genus-specified primers of selected bacteria. Genus identification corresponded with the information declared by the manufacturer. To conclude, a PCR and propidium monoazide dye were used in combination for quantification of viable and dead cells, and a HRM analysis was performed.
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Host-microbiota, pro-inflammatory immunity and physiological senescence in wild birds
Těšický, Martin ; Vinkler, Michal (advisor) ; Tschirren, Barbara (referee) ; Štěpánek, Ondřej (referee)
Triggered by microbial ligands, inflammation serves as a "double-edged sword" to fight infections on the one hand, but on the other hand causing tissue damage due to oxidative stress if it is dysregulated. For example, chronic inflammation can contribute to inflammaging, which is now widely regarded as one of the causes of ageing. In my interdisciplinary dissertation, my colleagues and I investigated three interrelated aspects of inflammation, using an evolutionary framework and various free-living birds as models: (1) ecological and evolutionary determinants of gut microbiota (GM) composition and diversity, a driver of wild bird immunity, (2) diversity in immune genes affecting inflammatory responses in wild birds and (3) inflammation-related physiological senescence in a free-living passerine bird, the great tit (Parus major). Firstly, using 16S rRNA gene metabarcoding, we revealed high intra- and interspecific variation in passerine gut microbiota (GM) dominated by the major phyla Proteobacteria, Firmicutes, Actinobacteria and Bacteroidetes. Although in mammals GM depends strongly on host phylogeny and diet, in birds we found only moderate effects of phylogeny and very limited effects of host geography and ecology on GM composition. While microbiota diverged between the upper and lower...
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Integrated multi-omics analysis of chemical signaling in wild rodents
Matějková, Tereza ; Stopka, Pavel (advisor) ; Macholán, Miloš (referee) ; Bryja, Josef (referee)
Symbiotic bacteria living with the host in so-called microbiomes have been one of the significant pillars of all aspects of animal evolution, chemical communication included. However, the phenotype, genotype, and microbiome of laboratory animals kept for generations in sterile conditions changed from their wild ancestors leading to profound differences in the laboratory results and the reality of wild animals. To describe the chemical communication in neglected wild rodents, this thesis focuses on the body parts involved in chemical communication (i.e. mouth, vagina, and intestines) and are also inhabited by microbiomes that produce metabolites with the capability of transmitting chemical signals. Using next-generation sequencing and state-of-the-art proteome and metabolome chromatography-mass spectrometry, this thesis covers the analysis of changes in the microbiome, proteome, and metabolome of wild mice in the context of transferring the wild individuals into the captivity, cohousing wild, and laboratory animals and hormonal changes during the estrous cycles. Moreover, this thesis describes and discusses the differences and similarities in the microbiome, proteome, and metabolome on the level of different species (Apodemus sp.), subspecies (Mus musculus domesticus vs. musculus), and environment...
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Oral microbiome and carcinogenesis
Šimáčková, Šárka ; Šmahelová, Jana (advisor) ; Horníková, Lenka (referee)
Microorganisms that colonize human body participate to well functioning of human organism and they are very important for human health. The composition of these communities (microbiomes) is specific for everyone and changes in the composition may participate to induce and progression of disease. These diseases also include carcinogenesis and tumors. Main goal of this work are specially tumors in head and neck area which risk factors are smoking, alcohol consumption and human papillomaviruses infection. Depending on these factors is influenced the composition of microbiome of oral cavity. Many studies show differences between oral microbiomes of patients with head and neck cancer and healthy people as controls. Keywords: microbiome, oral cavity, head and neck cancer, papillomavirus
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