Upotreba mikrosatelitskih DNA markera za identifikaciju sorata višnje (Prunus cerasus)

master's thesis

• Author: Dora Karamatić
• Mentor: Ivan Pejić (mentor)
• Committee member: Ivan Pejić (predsjednik povjerenstva)
• Committee member: Hrvoje Šarčević (član povjerenstva)
• Committee member: Martina Skendrović Babojelić (član povjerenstva)
• Committee member: Silvio Šimon (član povjerenstva)
• Granter: University of Zagreb; Faculty of Agriculture; (Plant Breeding Genetics, Biometrics and Experimentation); Zagreb
• Defense date and country: 2016-09-27, Croatia
• Scientific / art field, discipline and subdiscipline: BIOTECHNICAL SCIENCES; Agronomy

Abstract

U Hrvatskoj se višnja uzgaja u dva proizvodna područja: u sjevernom kontinentalnom i u sredozemnom dijelu. Postoje mnogobrojne sorte višanja, ali samo najbolje i najkvalitetnije su zadržane u proizvodnji. Problem identifikacije mnogobrojnih sorata je da često pojedine sorte imaju više naziva (sinonima), a često se događa i da se istim imenom naziva više različith genotipova (homonima). Do unazad dvadesetak godina, identifikacija se vršila promatranjem morfoloških i fizioloških svojstava, no danas se iste nadopunjuju s genetičkim analizama koje daju pouzdanije rezultate. To je razlog korištenja mikrosatelitnih markera (SSR) koji omogućavaju bržu i sigurniju identifikaciju sorata, te su neovisni o utjecajima okoline.
Cilj ovog rada bio je ispitati mogućnost amplifikacije i detekcije različitih SSR markera razvijenih u rodu Prunus za potrebe identifikacije sorata višnje iz regije Jugoistočne Europe. Također, cilj je bio utvrditi minimalni set polimorfnih lokusa koji pouzdano razdvajaju sve istraživane genotipove, te izraditi tablicu SSR profila analiziranih genotipova višnje. U istraživanju je korišteno šest SSR markera na 24 genotipa višnje (19 sorata od kojih je jedna bila zastupljena sa 6 klonova). Primijenjeni SSR markeri uspješno su razdvojili 19 sorata višnje, osim šest klonova 'Oblačinske', čime je potvrđena njihova prikladnost u razlikovanju sorata višnje. Odabrani set markera pokazao se vrlo informativnim, te je detektirao visok stupanj polimorfizma. Najinformativniji su bili lokusi BPPCT 26 i BBPCT 34 koje ujedno možemo smatrati i minimalnim setom markera dovoljnim za identifikaciju, jer su dovoljno polimorfni da sami razdvoje sve analizirane genotipove. Isto tako, na svih šest korištenih SSR lokusa kod 'Oblačinske' nije utvrđena varijabilnost između njenih klonova, a neredundantna tablica profila predstavlja početak baze SSR profila koja može služiti za daljnju identifikaciju germplazme višnje kao i u istraživanju porijekla sorata višnje.

Abstract (english)

In Croatia, sour cherry is grown in two production areas: the northern continental and in Mediterranean part. There are many varieties of sour cherry but only the best ones with highest quality are used in production. The common problem of cultivar identification is also burdened by the fact that some varieties have multiple names (synonyms), as well as that often happens that one name is used for more different genotypes, phenomena called homonymy. Until recently, identification was carried out by measurement of morphological and physiological characteristics, but nowadays it is combined with genetic fingerprinting whose results are more reliable. This is the reason for application of microsatellite markers (SSR) in this research which are suitable for fast and reliable variety identification due to their independency of environmental factors.
The aim of this study was to examine the possibility of amplification and detection of different SSR markers developed for genus Prunus, all for the purpose of identifying sour cherry varieties from the South East European region. Moreover, the aim was to determine the minimum set of polymorphic loci that can separate all analyzed genotypes and also to create a database of sour cherry SSR profiles. Six SSR markers that were used to genotype 24 sour cherry accessions (19 cultivars, one of them being represented by six clones) successfully amplified and distinguished all 19 cultivars except of six clones of 'Oblačinska' sour cherry thus confirming their suitability for cultivar identification. The selected set of markers proved to be very informative and detected a high level of polymorphism. The most polymorphic loci were BPPCT 26 and BPPCT 34 which can also be considered as a minimum set of markers sufficient for identification in this study because they were sufficiently polymorphic to separate all analyzed cultivars. Also, genetic profiles of six analyzed clones were identical and as expected, showed no variability. Non-redundant table of genetic profiles represents the core database that can be used for further identification of sour cherry germplasm and for research of the origin of sour cherry varieties.

• Keywords: višnja; sorte; SSR markeri; identifikacija
• Keywords (english): sour cherry; variety; SSR markers; identification
• Language: croatian
• URN:NBN: urn:nbn:hr:204:163652
• Study programme: Title: Plant Sciences; Study programme type: university; Study level: graduate; Academic / professional title: magistar / magistra inženjer/inženjerka biljnih znanosti (magistar / magistra inženjer/inženjerka biljnih znanosti)
• Type of resource: Text
• File origin: Born digital
• Access conditions: Access restricted to students and staff of home institution
• Created on: 2016-10-17 06:53:04