prikaz prve stranice dokumenta Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine
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master's thesis
Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine
Zagreb: University of Zagreb, Faculty of Science, 2022. urn:nbn:hr:217:976183
Noršić, Dominik
University of Zagreb
Faculty of Science
Department of Biology

Institutional repository: Repository of the Faculty of Science

Cite this document

Noršić, D. (2022). Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine (Master's thesis). Zagreb: University of Zagreb, Faculty of Science. Retrieved from https://urn.nsk.hr/urn:nbn:hr:217:976183

Noršić, Dominik. "Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine." Master's thesis, University of Zagreb, Faculty of Science, 2022. https://urn.nsk.hr/urn:nbn:hr:217:976183

Noršić, Dominik. "Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine." Master's thesis, University of Zagreb, Faculty of Science, 2022. https://urn.nsk.hr/urn:nbn:hr:217:976183

Noršić, D. (2022). 'Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine', Master's thesis, University of Zagreb, Faculty of Science, accessed 21 May 2024, https://urn.nsk.hr/urn:nbn:hr:217:976183

Noršić D. Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine [Master's thesis]. Zagreb: University of Zagreb, Faculty of Science; 2022 [cited 2024 May 21] Available at: https://urn.nsk.hr/urn:nbn:hr:217:976183

D. Noršić, "Genetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine", Master's thesis, University of Zagreb, Faculty of Science, Zagreb, 2022. Available at: https://urn.nsk.hr/urn:nbn:hr:217:976183

Metadata
TitleGenetic and epigenetic landscapes of spontaneus genome rearrangements in grapevine
Title (croatian)Genetička i epigenetička obilježja spontanih rearanžmana genoma vinove loze
AuthorDominik Noršić
MentorDetlef Weigel (mentor)
MentorDunja Leljak-Levanić (sumentor)
Committee memberDunja Leljak-Levanić (predsjednik povjerenstva)
Committee memberNenad Malenica (član povjerenstva)
Committee memberBiljana Balen (član povjerenstva)
Committee memberŽeljka Vidaković-Cifrek (član povjerenstva)
GranterUniversity of Zagreb
Faculty of Science
(Department of Biology)
Zagreb
Defense date and country2022-02-22, Croatia
Scientific / art field,
discipline and subdiscipline		NATURAL SCIENCES
Biology
Abstract
Grapevine cultivars (Vitis vinifera ssp. vinifera), depending on the color of their berries, can be divided into black, white and red. White cultivars lack functional copies of the VviMybA1 and VviMybA2 genes that regulate the accumulation of anthocyanins in grape skin, whose level determines the color of the berry. The focus of this study was to characterize genetic and epigenetic processes that result in natural grape color somatic variants. Two genome structural variation events were bioinformatically identified previously as the cause of the white berry phenotype in ‘Garnacha Blanca’ derivative cultivar. These two structural variation events were validated here by polymerase chain reaction and were confirmed as the likely only two independent origins for this cultivar after genotyping a collection of clonal accessions. Samples of the ancestral black-berried ‘Garnacha Tinta’ cultivar were also genotyped for the same structural variations, identifying one likely epidermal cell monolayer chimera mutant. To characterize the genetic origin of mutants with altered berry color, Oxford Nanopore target enrichment sequencing using UNCALLED method was tested. Among others, the region harbouring VviMybA1 gene was targeted in a color re-gain somatic variant of the white-berried cultivar Alvarinho, confirming that a Gret1 transposable element excision from VviMybA1 promoter is the cause of color recovery.
Abstract (croatian)
Kultivari vinove loze (Vitis vinifera ssp. vinifera), ovisno o boji bobica, mogu se podijeliti na crne, bijele i crvene. Bijelim sortama nedostaju funkcionalne kopije gena VviMybA1 i VviMybA2 koji reguliraju nakupljanje antocijana u kožici grožđa, čija razina određuje boju bobica. Fokus ovog istraživanja bio je karakterizirati genetičke i epigenetičke procese koji rezultiraju prirodnim somatskim varijantama boje grožđa. Dva događaja strukturne varijacije genoma prethodno su bioinformatički identificirana kao uzrok fenotipa bijele bobice u sorti 'Garnacha Blanca'. Ova dva događaja strukturne varijacije ovdje su potvrđena metodom lančane reakcije polimeraze i potvrđena su kao vjerojatno jedina dva nezavisna podrijetla za ovu sortu nakon genotipizacije zbirke klonskih akcesija. Uzorci sorte 'Garnacha Tinta' s crnom bobicom također su genotipizirani za iste strukturne varijacije, identificirajući jednu kimeru vjerojatnu mutantnu u sloju stanica kože. Kako bi se okarakteriziralo genetsko podrijetlo mutanata s promijenjenom bojom bobica, testirana je metoda sekvenciranja Oxford Nanopore pomoću programa UNCALLED koja omogućuje selektivno ciljanje i obogaćenje specifičnih regija genoma. Između ostalih, regija u kojoj se nalazi gen VviMybA1 bila je ciljana u somatskoj varijanti sa povraćenom bojom bobice kultivara 'Alvarinho', potvrđujući da je izrezivanje transpozabilnog elementa Gret1 iz VviMybA1 promotora uzrok oporavka boje.
Keywords
Keywords (croatian)
Languageenglish
URN:NBNurn:nbn:hr:217:976183
Study programmeTitle: Molecular Biology
Study programme type: university
Study level: graduate
Academic / professional title: magistar/magistra molekularne biologije (magistar/magistra molekularne biologije)
Type of resourceText
File originBorn digital
Access conditionsOpen access
Terms of useLicence In copyright icon
Created on2022-03-16 10:48:44