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Poskus inženiringa reporterskega faga za detekcijo bakterije Staphylococcus aureus
ID Malalan, Kaja (Author), ID Vodovnik, Maša (Mentor) More about this mentor... This link opens in a new window, ID Smrekar, Frenk (Co-mentor)

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Abstract
Pomanjkanje učinkovite metode za detekcijo bakterije Staphylococcus aureus je velik izziv za javno zdravstvo, saj je le-ta odgovorna za visoke stopnje obolevnosti in smrtnosti po vsem svetu. V magistrskem delu smo želeli predstaviti inovativno strategijo, ki združuje prednosti fagnih delcev in proteina GFP, za hitro in učinkovito detekcijo bakterije S. aureus. Z vključitvijo gena gfp v fagni genom, se lahko gen gfp med okužbo tarčne bakterije izrazi in omogoči zaznavanje produkta z merjenjem fluorescence. Reporterski fag smo želeli konstruirati z uporabo sistema CRISPR-Cas9, ki bi v fagni genom uvedel dvojni zlom in posredoval rekombinacijo med fagnim genomom in donorsko DNK. Za to je potrebna elektroporacija celic S. aureus s plazmidom z zapisom za gen gfp, obdan s homolognimi regijami, in komponentami sistema CRISPR-Cas9. V predstavljenem delu smo preizkusili različne pogoje elektroporacije celic S. aureus, vendar nam s pripravljenimi elektrokompetentnimi celicami ni uspelo pridobiti transformant. Nazadnje smo uporabili komercialne elektrokompetentne celice in uspeli pridobiti dve transformanti, od katerih smo v eni potrdili prisotnost vstavljenega plazmida z metodo PCRKOL. Ob izolaciji plazmidne DNK iz transformiranih celic smo dobili zelo nizke donose, kar je lahko posledica slabe lize celic, majhnega števila kopij plazmida, uporabe celic v neustrezni fazi bakterijske rasti in nestabilnosti ali toksičnosti plazmida. Zaradi časovnih omejitev v okviru magistrske naloge, nadaljnjih korakov načrtovanega poskusa nismo izpeljali.

Language:Slovenian
Keywords:Staphylococcus aureus, elektroporacija, protein GFP, reporterski fag, urejanje fagnega genoma, CRISPR-Cas9
Work type:Master's thesis/paper
Typology:2.09 - Master's Thesis
Organization:BF - Biotechnical Faculty
Publisher:[K. Malalan]
Year:2023
PID:20.500.12556/RUL-148048 This link opens in a new window
UDC:602.621:579.86
COBISS.SI-ID:159865603 This link opens in a new window
Publication date in RUL:26.07.2023
Views:306
Downloads:56
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Secondary language

Language:English
Title:An attempt to engineer a reporter phage for the detection of Staphylococcus aureus
Abstract:
Lack of an effective method for detection of Staphylococcus aureus is a major challenge for public health, as the bacterium is responsible for high rates of morbidity and mortality worldwide. In this thesis, we aimed to introduce an innovative strategy that combines the advantages of phage particles and the GFP protein for a rapid and efficient detection of S. aureus. By incorporating the gfp gene into the phage genome, GFP can be expressed during infection of the target bacteria, enabling detection by measuring fluorescence. We attempted to construct a reporter phage using the CRISPR-Cas9 system, which would introduce a double-strand break in the phage genome and mediate recombination between the phage genome and donor DNA. This requires electroporation of S. aureus with a plasmid containing the gfp gene, flanked by homologous regions and components of the CRISPR-Cas9 system. We tested various conditions for electroporation of S. aureus, but haven't been able to obtain transformants with electrocompetent cells prepared by standard protocol. Finally, we used commercial electrocompetent cells and managed to obtain two transformant colonies. In one of the transformants, the presence of the insert within the plasmid was also confirmed by the PCRKOL method. However, we obtained very low yields of isolated plasmid DNA from the transformed cells. This may be associated with poor cell lysis, low plasmid copy number, harvesting cells at an inappropriate stage of bacterial growth, plasmid instability or plasmid toxicity. Due to time constraints within the scope of the master's thesis, we were unable to proceed with further planned steps of the experiment.

Keywords:Staphylococcus aureus, electroporation, GFP protein, reporter phage, phage genome editing, CRISPR-Cas9

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