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undergraduate thesis
Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka
Zagreb: University of Zagreb, Faculty of Science, 2023. urn:nbn:hr:217:186179
Matijević, Jana
University of Zagreb
Faculty of Science
Department of Biology

Institutional repository: Repository of the Faculty of Science

Cite this document

Matijević, J. (2023). Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka (Undergraduate thesis). Zagreb: University of Zagreb, Faculty of Science. Retrieved from https://urn.nsk.hr/urn:nbn:hr:217:186179

Matijević, Jana. "Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka." Undergraduate thesis, University of Zagreb, Faculty of Science, 2023. https://urn.nsk.hr/urn:nbn:hr:217:186179

Matijević, Jana. "Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka." Undergraduate thesis, University of Zagreb, Faculty of Science, 2023. https://urn.nsk.hr/urn:nbn:hr:217:186179

Matijević, J. (2023). 'Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka', Undergraduate thesis, University of Zagreb, Faculty of Science, accessed 25 November 2024, https://urn.nsk.hr/urn:nbn:hr:217:186179

Matijević J. Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka [Undergraduate thesis]. Zagreb: University of Zagreb, Faculty of Science; 2023 [cited 2024 November 25] Available at: https://urn.nsk.hr/urn:nbn:hr:217:186179

J. Matijević, "Identifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka", Undergraduate thesis, University of Zagreb, Faculty of Science, Zagreb, 2023. Available at: https://urn.nsk.hr/urn:nbn:hr:217:186179

Metadata
TitleIdentifikacija čekićastog viroida jabuke u retrospektivnoj studiji ekstrakata ukupnih nukleinskih kiselina iz jabuka
Title (english)Apple hammerhead viroid identification in retrospective analysis of total nucleic acids extracts from apples
AuthorJana Matijević
MentorDijana Škorić (mentor)
GranterUniversity of Zagreb
Faculty of Science
(Department of Biology)
Zagreb
Defense date and country2023-07-17, Croatia
Scientific / art field,
discipline and subdiscipline		NATURAL SCIENCES
Biology
Abstract
Čekićasti viroid jabuke (eng. apple hammerhead viroid, AHVd) pripada porodici Avsunviroidae i rodu Pelamoviroid. Primarno inficira jabuke (Malus domestica Borkh.), no njegova prisutnost je potvrđena i u nešpuli (Eriobotrya japonica (Thunb.) Lindl.). Cilj rada bio je potvrditi prisutnost AHVd-a u prethodno istraživanim izolatima kultivara jabuka na području Hrvatske. Analizirano je 15 prethodno istraživanih izolata jabuka i tri izolata pripremljena za potrebe ovog rada. Iz ekstrakata ukupnih nukleinskih kiselina jabuka metodom reverzne transkripcije i lančane reakcije polimeraze (RT-PCR) uz primjenu početnica specifičnih za AHVd u elektroforetskom agaroznom gelu detektirana je prisutnost viroidnih amplikona u čak sedam uzoraka. Iz šest uzorka dobivene su konsenzus-sekvence parcijalnog AHVd-genoma. Viroid je pronađen u raznim sortama jabuka na različitim lokacijama, a njegova prisutnost u izolatima jabuka potvrđena je Sangerovim sekvenciranjem i filogenetskom analizom, te usporedbom sekundarnih struktura viroidnih genoma. Većina hrvatskih AHVd-varijanti se na filogenetskom stablu grupirala zajedno zbog blizine lokacija jabuka iz kojih su prikupljani uzorci, dok su se dva uzorka izdvojila i grupirala sa sekvencama iz drugih država. Zbog blizine uzgojne lokacije jabuke Mađarskoj jedan je uzorak AHVd u skupini s uzorcima iz Mađarske i Češke, dok je drugi uzorak grupiran s kanadskim uzorcima vjerojatno zbog uvoznog porijekla te sorte jabuke.
Abstract (english)
Apple hammerhead viroid (AHVd) belongs to the family Avsunviroidae and the genus Pelamoviroid. It primarily infects apples (Malus domestica Borkh.). This research was conducted in order to confirm the presence of AHVd in the previously investigated isolates of apple cultivars in Croatia. In the scope of this study, 15 previously researched apple isolates and three samples isolated for the purpose of this work were analyzed. The presence of viroid amplicons in electrophoresis gels was detected in seven total nucleic acids extracts from apple after reverse transcription and polymerase chain reaction (RT-PCR) with primers specific for AHVd. Six consensus sequences of the partial AHVd genome were obtained. The viroid was found in various apple varieties in different locations and its presence was confirmed by phylogenetic analysis of Sanger sequences and the comparison of secondary structures. Most of the Croatian samples were grouped together on the phylogenetic tree due to the proximity of the apple cultivation sites, while two samples grouped with sequences from other countries. One isolate of AHVd from apple growing near the Hungarian border grouped with samples from Hungary and the Czech Republic, whereas the other was grouped with Canadian samples probably due to the origin of the apple variety that was most likely imported.
Keywords
Keywords (english)
Languagecroatian
URN:NBNurn:nbn:hr:217:186179
Study programmeTitle: Ecology
Study programme type: university
Study level: undergraduate
Academic / professional title: sveučilišni/a prvostupnik/prvostupnica (baccalaureus/baccalaurea) biologije (sveučilišni/a prvostupnik/prvostupnica (baccalaureus/baccalaurea) biologije)
Type of resourceText
File originBorn digital
Access conditionsOpen access
Embargo expiration date: 2024-07-17
Terms of useLicence In copyright icon
Created on2023-07-24 09:16:45