De novo sastavljanje transkriptoma vrste Procambarus virginalis Lyko, 2017 i ekspresija gena u odgovoru na patogen Aphanomyces astaci Shikora, 1906

master's thesis

• Title (english): De novo assembly of Procambarus virginalis Lyko, 2017 transcriptome and gene expression in response to the pathogen Aphanomyces astaci Shikora, 1906
• Author: Ljudevit Luka Boštjančić
• Mentor: Kathrin Theissinger (mentor)
• Mentor: Ivana Maguire (sumentor)
• Committee member: Ivana Maguire (predsjednik povjerenstva)
• Committee member: Marin Ježić (član povjerenstva)
• Committee member: Rosa Karlić (član povjerenstva)
• Committee member: Sandra Hudina (član povjerenstva)
• Granter: University of Zagreb; Faculty of Science; (Department of Biology); Zagreb
• Defense date and country: 2021-01-25, Croatia
• Scientific / art field, discipline and subdiscipline: NATURAL SCIENCES; Biology

Abstract

Jedna on najveći prijetnji za populacije nativnih europskih slatkovodnih rakova je patogen Aphanomyces astaci Shikora, 1906 iz razreda Oomycetes, koji uzrokuje bolest račju kugu letalnu za nativne vrste slatkovodnih rakova. Mramorni rak, Procambarus virginalis Lyko, 2017 invazivna je vrsta i poznati prenositelj račje kuge. U ovom istraživanju proučen je imunosni odgovor 30 jedinki mramornog raka na infekciju s A. astaci. Korištena su dva soja patogena; PsI- visoko virulentan i As- nisko virulentan. Uzorkovanje hepatopankreasa rakova iz pokusa provedeno je tri i 21 dan nakon izlaganja patogenu te je provedena izolacija RNA. Iz fragmenata RNA, dobivenih sekvenciranjem, sastavljan je de novo transkriptom visoke kvalitete kojeg čini 60,004 gena. Za 41.9% transkripata je pronađena anotacija. Analiza diferencijalne ekspresije otkrila je 102 diferencijalno eksprimirana gena. Većina diferencijalno eksprimiranih gena bila je među uzorcima jedinki uzorkovanih 21 dana nakon infekcije. Među diferencijalno eksprimiranim genima bili su prisutni poznati efektori urođene imunosti rakova: serpin, lektini tipa-C i crustini. Novootkriveni su i geni s potencijalnom ulogom u urođenoj imunosti rakova. Oni predstavljaju predmet za buduća istraživanja urođene imunosti rakova

Abstract (english)

One of the biggest threats for freshwater crayfish populations is the pathogen Aphanomyces astaci Shikora, 1906 from the class Oomycetes that causes a disease lethal for native crayfish species, crayfish plague. The marbled crayfish, Procambarus virginalis Lyko, 2017 is an invasive crayfish species, known to be resistant to the crayfish plague disease. In this study the immune response to an A. astaci infection of 30 marbled crayfish exposed to two strains of A. astaci (PsI- high virulence and As- low virulence) was investigated. Hepatopancreas samples were taken at two time points, three days and 21 days post challenge. From the RNA sequencing reads, high-quality de novo transcriptomes of marbled crayfish were assembled containing 60,004 genes. Annotation was available for 41.9% of the transcripts. Differential gene expression analysis revealed in total 102 differentially expressed genes. More differentially expressed genes were observed among the samples from the second time point. Among the differentially expressed genes several known effectors of the crayfish innate immunity were detected. Previously unreported genes with potential role in crayfish innate immunity were also identified. They represent targets for future studies on crayfish innate immunity.

• Keywords: RNA sekvenciranje; maramorni rak; račja kuga; urođena imunost
• Keywords (english): RNA sequencing; marbled crayfish; crayfish plague; innate immunity
• Language: croatian
• URN:NBN: urn:nbn:hr:217:429037
• Study programme: Title: Molecular Biology; Study programme type: university; Study level: graduate; Academic / professional title: magistar/magistra molekularne biologije (magistar/magistra molekularne biologije)
• Type of resource: Text
• File origin: Born digital
• Access conditions: Open access; Embargo expiration date: 2023-01-25
• Created on: 2021-01-28 11:20:00