Computational analysis of metagenomes of the intestinal tract in patients with liver cirrhosis

Fabijanić, Maja (2015) Computational analysis of metagenomes of the intestinal tract in patients with liver cirrhosis. Diploma thesis, Faculty of Science > Department of Biology.

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Abstract

Prokaryotes occupy two of the three domains of life, and only 1-5% of bacteria can be grown in laboratory conditions. Human metabolism would not be complete without metabolism of microbes that inhabit it, and they have an impact in various diseases such as obesity, inflammatory bowel disease, symptomatic atherosclerosis and liver disease. Metagenomics is an approach that allows us to study the microbial genome by sampling directly from the environment, followed by analyzing patterns of use of synonymous codons. In this way I determined the level of translational optimization of genes in intestinal metagenomes of cirrhotic patients and compared it with that of healthy individuals. Based on levels of translational optimization and initial sample, I have classified genes into groups associated with healthy and diseased phenotype, and then sorted them in their corresponding metabolic pathways. Unequal representation of translationally optimized genes in different metabolic pathways of intestinal microbial communities of healthy and sick individuals opens up a possibility for easier diagnosis of liver cirrhosis as well as mechanistic insight into the interaction between microbial and human metabolism in development of this disease.

Item Type: Thesis (Diploma thesis)
Keywords: microbes, optimization of translation, codon usage, MILC,MELP
Supervisor: Vlahoviček, Kristian
Date: 2015
Number of Pages: 41
Subjects: NATURAL SCIENCES > Biology
Divisions: Faculty of Science > Department of Biology
Depositing User: Silvana Šehić
Date Deposited: 04 Mar 2016 12:50
Last Modified: 04 Mar 2016 12:50
URI: http://digre.pmf.unizg.hr/id/eprint/4538

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