Title Analiza sortirajućih neksina u transkriptomu i proteomu trombocita
Title (english) Analysis of sorting nexins in platelet transcriptome and proteome
Author Sara Patačko
Mentor Antonija Jurak Begonja (mentor)
Committee member Ivana Ratkaj (predsjednik povjerenstva)
Committee member Ivana Munitić (član povjerenstva)
Granter University of Rijeka (Faculty of Biotechnology and Drug Development) Rijeka
Defense date and country 2022-09-08, Croatia
Scientific / art field, discipline and subdiscipline BIOTECHNICAL SCIENCES Biotechnology
Abstract Proteinska homeostaza stanice, poznata kao proteostaza, je stanje stanice u kojem proteom omogućava njeno pravilno funkcioniranje, a naposlijetku i njenu vijabilnost. Mnogobrojni procesi uključeni u održavanje navedenog stanja osiguravaju da proteini budu sintetizirani u odgovarajućim koncentracijama, smotani u valjanim konformacijama te pravilno locirani u stanici. Jedna od mnogobrojnih obitelji proteina uključena u procese održavanja proteinske homeostaze jest obitelj sortirajućih neksina (eng. sorting nexins, SNX). Ovu skupinu proteina karakterizira prisutnost phox domene koja veže fosfolipide (phox, PX domena). Interakcijom PX domene s fosfatidilinozitol 3-monofosfatom (PI3P) na membranama endocitnog sustava dolazi do pravovaljane lokalizacije SNX te koordinacije unutarstaničnog prometa proteina. Njihova uloga u endocitnom sustavu jest usmjeriti proteine na recikliranje i povratak na površinu stanice ili potaknuti njihovu degradaciju u lizosomima. Valja napomenuti kako pojedini članovi SNX obitelji uz PX domenu sadrže i druge domene koje doprinose sortiranju proteina. Prema tome koje funkcionalne domene sadrže, SNX se mogu podijeliti u sljedeće kategorije: SNX-PX, SNX-BAR, SNX-FERM, SNX-SH3, SNX-MIT, SNX-kinezin. Obzirom da su SNX uključeni u održavanje proteinske homeostaze ukoliko dođe do njihove disfunkcije posljedično dolazi do agregacije proteina ili do manjka istih što može dovesti do patoloških stanja.
U ovom radu napravljen je pregled SNX koji su prisutni u mišjim i ljudskim trombocitima korištenjem dostupnih transkriptomskih i proteomskih baza. Proučene su konzistentnosti između vrsta koje potencijalno mogu poslužiti za buduća istraživanja. Dodatno je analizirana uspješnost dobivanja staničnih linija te mišjih modela s delecijom odabranih SNX proteina izučavanjem dostupnih baza. Ovakav pregled omogućava bolje razumijevanje unutarstaničnog prometa proteina te uloge koju bi SNX mogli imati u nastanku ili funkciji trombocita.
Abstract (english) Protein homeostasis, also known as proteostasis, is the state of the cell where proteome enables normal cellular function and viability. Many processes, that are involved in maintaining this state, ensure that proteins are synthesized in right concentrations, folded in the right conformation and correctly localized in the cell. One of many protein families involved in processes that maintain protein homeostasis is the family of sorting nexins (SNX). This group of proteins is characterized by the presence of phospholipid binding domain (phox, PX domain). Association of the PX domain with phosphatidylinositol phosphate enriched membranes ensures the right subcellular localization of SNXs. Their role in the endocytic network is to direct protein recycling back to the cell membrane or to induce protein degradation in lysosomes. Thus, SNXs regulate intracellular cargo trafficking. Certain members of SNX family possess domains other that the PX domain. These domains are equally involved in the protein sorting process, and therefore SNX can further be divided into categories depending on the functional domains they possess: SNX-PX, SNX-BAR, SNX-FERM, SNX-SH3, SNX-MIT, SNX-kinesin.
In this thesis, an overview of the SNX proteins present in murine or human platelets was done using available transcriptomic and proteomic data bases. Consistencies in expression pattern among the species were examined, providing useful information for future research. In addition to that, available data on KO cell lines of highly expressed SNXs were examined to decipher which of SNX proteins is essential. This overview enables better understanding of intracellular protein trafficking and the potential role that SNXs could have in biogenesis or function of platelets.
Keywords
trombociti
sortirajući neksini (SNX)
transkriptom
proteom
Keywords (english)
platelets
sorting nexins (SNX)
transcriptome
proteome
Language croatian
URN:NBN urn:nbn:hr:193:759623
Study programme Title: Biotechnology and drug research Study programme type: university Study level: undergraduate Academic / professional title: sveučilišni/a prvostupnik/prvostupnica biotehnologije i istraživanja lijekova (sveučilišni/a prvostupnik/prvostupnica biotehnologije i istraživanja lijekova)
Type of resource Text
File origin Born digital
Access conditions Access restricted to students and staff of home institution
Terms of use
Repository Repository of the University of Rijeka, Faculty of Biotechnology and Drug Development
Created on 2022-09-07 15:51:47