Diferencijalna ekspresija varijanti alternativnog prekrajanja uročnjakova gena BPM2 u uvjetima temperaturnog stresa

master's thesis

• Title (english): Differential expression of arabidopsis BPM2 gene splicing variants in response to temperature stress
• Author: Marta Frlin
• Mentor: Dunja Leljak-Levanić (mentor)
• Mentor: Mateja Jagić (komentor)
• Committee member: Dunja Leljak-Levanić (predsjednik povjerenstva)
• Committee member: Nataša Bauer (član povjerenstva)
• Committee member: Željka Vidaković-Cifrek (član povjerenstva)
• Committee member: Mirjana Pavlica (član povjerenstva)
• Granter: University of Zagreb; Faculty of Science; (Department of Biology); Zagreb
• Defense date and country: 2024-07-17, Croatia
• Scientific / art field, discipline and subdiscipline: NATURAL SCIENCES; Biology

Abstract

Proteini MATH-BTB sudjeluju u proteasomalnoj razgradnji proteina ovisnoj o ubikvitinu kao adaptori ligaza E3 ovisnih o kulinu 3 i odgovorni su za specifičnost prema supstratu. Na ovaj način proteini MATH-BTB reguliraju i biljni odgovor na temperaturni stres. Dok je ova porodica u genomu uročnjaka Arabidopsis thaliana zastupljena sa samo šest gena BPM1-6, genomi različitih vrsta trava sadrže desetke gena uslijed vrsno-specifične ekspanzije. Ovaj fenomen najčešće se povezuje s porodicama proteina uključenim u odgovor na stresne uvjete u okolišu. U ovom radu provedena je in silico analiza promotorske regije gena BPM2 te su utvrđeni regulatorni elementi. Metodama standardne i kvantitativne lančane reakcije polimerazom analizirana je ekspresija odabranih varijanti alternativnog prekrajanja gena BPM2 u klijancima, cvjetnim pupovima i oplođenim cvjetovima biljaka izloženih niskim ili povišenim temperaturama. Na ovaj način je istražen utjecaj temperaturnog stresa na zastupljenost varijanti alternativnog prekrajanja gena BPM2, ali i potencijalna uloga alternativnog prekrajanja kao mehanizma kompenzacije smanjenog broja gena porodice MATH-BTB u uročnjaku. Temperaturni tretman utjecao je na zastupljenost i razinu ekspresije varijanti alternativnog prekrajanja BPM2.3, BPM2.8, BPM2.9 i BPM2.15. Razlike su bile najizraženije u klijancima. Detektirane su i neočekivane, potencijalno nove varijante alternativnog prekrajanja gena BPM2.

Abstract (english)

MATH-BTB proteins participate in ubiquitin-dependent protein degradation as substrate-specific adaptors of cullin3-dependent E3 ligases. Through this mechanism they are involved in the regulation of plant response to temperature stress. Only six genes from this family are present in Arabidopsis thaliana genome (BPM1-6), while genomes of different grass species contain dozens of them due to lineage-specific expansion. Many protein families which underwent lineage-specific expansion are involved in response to environmental stress. In this thesis, an in silico analysis of BPM2 gene promoter region was performed. The expression of selected BPM2 gene splicing variants was analysed in seedlings, flower buds and flowers of plants exposed to low or elevated temperature by standard and quantitative polymerase chain reactions. Using these methods, the effect of temperature stress on the expression of BPM2 gene splicing variants was studied. The role of alternative splicing as a compensatory mechanism for the presence of only six BPM genes in arabidopsis genome was investigated. Temperature stress affected the expression of BPM2.3, BPM2.8, BPM2.9 and BPM2.15 splicing variants. The differences were the most pronounced in seedlings. Unexpected, potentially new BPM2 gene splicing variants were also detected.

• Keywords: MATH-BTB; BPM2; alternativno prekrajanje gena; promotorski motivi
• Keywords (english): MATH-BTB; BPM2; alternative gene splicing; promoter motifs
• Language: croatian
• URN:NBN: urn:nbn:hr:217:483467
• Project: Number: IP-2022-10-7874; Title: Alternativno prekrajanje gena BPM2 kao mehanizam uspostave funkcionalne raznolikosti porodice proteina MATH-BTB u uročnjaku Arabidopsis thaliana; Title: Alternative splicing of BPM2 as a mechanism for establishing a functional diversity of MATH-BTB protein family in Arabidopsis thaliana; Acronym: SpliceFun; Leader: Nataša Bauer; Jurisdiction: Croatia; Funder: Hrvatska zaklada za znanost; Funding stream: Research Projects
• Study programme: Title: Molecular Biology-University graduate programme; Study programme type: university; Study level: graduate; Academic / professional title: sveučilišni/a magistar/magistra molekularne biologije (sveučilišni/a magistar/magistra molekularne biologije)
• Type of resource: Text
• File origin: Born digital
• Access conditions: Open access
• Created on: 2024-08-26 12:19:04