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How and why to analyze microbiota : a quick guide for clinicians
Sabina Horvat, Maja Rupnik, 2020, review article

Keywords: microbiota, metagenomics, next generation sequencing, personalized medicine, disease markers
Published in DKUM: 24.01.2023; Views: 452; Downloads: 60
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Določanje sekvence DNK na osnovi Eulerjeve poti z uporabo izboljšanega Hierholzerjevega algoritma : magistrsko delo
Filip Mesarić, 2019, master's thesis

Abstract: In the master’s thesis we created the algorithm for DNA sequencing based on an Eulerian path and the improved Hierholzer’s algorithm. The theoretical part explains the graph theory, existing Eulerian path searching algorithms and Hierholzer's algorithmic implementations. Additionally, the theoretical part presents DNA sequencing and its most popular methods. The practical part focuses on the development of an application that shows DNA sequencing based on an Eulerian path and the improved Hierholzer's algorithm. The results represent an improvement of sequencing, taking into consideration time and distance measurements, for our implementation in comparison with the existing Hierholzer’s algorithm.
Keywords: DNA, Eulerian path, Hierholzer’s algorithm, DNA sequencing
Published in DKUM: 15.07.2019; Views: 1249; Downloads: 109
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Effect of Bifidobacterium breve on the intestinal microbiota of coeliac children on gluten free diet : a pilot study
Andrea Quagliariello, Irene Aloisio, Nicole Bozzi Cionci, Donata Luiselli, Giuseppe D'Auria, Llúcia Martinez-Priego, David Pérez-Villarroya, Tomaž Langerholc, Maša Pintarič, Dušanka Mičetić-Turk, Diana Di Gioia, 2016, original scientific article

Abstract: Coeliac disease (CD) is associated with alterations of the intestinal microbiota. Although several Bifidobacterium strains showed anti-inflammatory activity and prevention of toxic gliadin peptides generation in vitro, few data are available on their efficacy when administered to CD subjects. This study evaluated the effect of administration for three months of a food supplement based on two Bifidobacterium breve strains (B632 and BR03) to restore the gut microbial balance in coeliac children on a gluten free diet (GFD). Microbial DNA was extracted from faeces of 40 coeliac children before and after probiotic or placebo administration and 16 healthy children (Control group). Sequencing of the amplified V3-V4 hypervariable region of 16S rRNA gene as well as qPCR of Bidobacterium spp., Lactobacillus spp., Bacteroides fragilis group Clostridium sensu stricto and enterobacteria were performed. The comparison between CD subjects and Control group revealed an alteration in the intestinal microbial composition of coeliacs mainly characterized by a reduction of the Firmicutes/Bacteroidetes ratio, of Actinobacteria and Euryarchaeota. Regarding the effects of the probiotic, an increase of Actinobacteria was found as well as a re-establishment of the physiological Firmicutes/Bacteroidetes ratio. Therefore, a three-month administration of B. breve strains helps in restoring the healthy percentage of main microbial components.
Keywords: coeliac disease, gluten free diet, probiotic, Bifidobacterium breve, intestinal microbiota, qPCR, next generation sequencing
Published in DKUM: 22.06.2017; Views: 2334; Downloads: 250
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