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Identification of hypothetical duplicate accessions of plums (Prunus domestica L.) within the Slovene Plant Gene Bank Collection using molecular markers
Metka Šiško, 2016, original scientific article

Abstract: The main goal of the Slovene Plant Gene Bank is preservation, maintenance and evaluation of traditional cultivars and other useful genotypes. The Faculty of Agriculture and Life Sciences houses among other plant materials also numerous accessions of plums (Prunus domestica L.). Duplicates among 15 accessions were studied using six microsatellite primer pairs. These microsatellite markers revealed an average of 7.67 alleles per locus, and a range of 4 to 10 different alleles per locus. The genetic distances between studied accessions were calculated using the Dice coefficient to form a dendrogram. The six SSRs were found to be adequate for differentiating among genotypes within the collection. Among the analysed accessions no duplicates were found.
Keywords: gene bank, duplicate accessions, Prunus domestica, plums, SSR markers
Published: 14.11.2017; Views: 650; Downloads: 337
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Chemical and fruit skin colour markers for simple quality control of tomato fruits
Vesna Bukovac, Tatjana Unuk, 2015, original scientific article

Abstract: The orientation of this research was to evaluate the classic parameters regarding the external and internal quality of tomato fruits cv. ‘Brilliant‘ at different stages of maturity and to define the dynamics of their changes during the ripening in storage at 18 °C. Principal component analysis (PCA) and multivariate canonical discriminant analysis (DA) were used to classify tomato samples according to quality (internal and external) and nutritional value based on fruit mass, fruit skin colour, contents of soluble solids (SS), total titratable acids (TTA), ascorbic acid (AA), and total antioxidant potential (TAP). Several methods are usedfor determining AA content and TAP in plant samples. A simple routine method, direct redox titration with iodate solution and spectrophotometric determination of TAPSP, as described by Singleton and Rossi, also called total phenols, were used respectively. The results show that the stage of maturity (based on fruit skin colour) strongly determines the quality and nutritional value of the tomato fruit. Tomatoes harvested at table maturity (red colour, index a*/b* ≥ 0.85) have a significantly higher nutritional value (in terms of antioxidants – TAPSP and AA content) and overall quality than those harvested at an earlier maturity stage and then ripened in storage. This brings out the importance of short food supply chains and, from the viewpoint of overall fruit quality, it raises doubt about harvesting before reaching table maturity. On the other hand, it is necessary to be extremely attentive when determining optimal maturity, because when the plant becomes over-ripe or when stored, the nutritional value and overall quality decrease drastically. Besides the colour parameters, AA content is the most important chemical marker for a simple quality control. By using a simple and reliable analytical method for determining AA content, such as direct redox titratiation, the monitoring of tomato fruit quality could also be easily performed in situ.
Keywords: chemical markers, quality control, antioxidant, tomato, discriminant analysis
Published: 24.10.2017; Views: 666; Downloads: 108
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Clinical utility of serodiagnostic testing in pediatric inflammatory bowel disease
Darja Urlep Žužej, Jernej Dolinšek, 2006, original scientific article

Abstract: Background: Among children and adolescents, the diagnosis of inflammatory bowel disease (IBD) is often missed or delayed because of the nonspecific nature of the clinical symptoms. In such instances noninvasive and accurate diagnostic tests that would accurately distinguish IBD from functional disorders would be most valuable to clinicians. Several serological markers have been used as non-invasive diagnostic tools in IBD pediatric patients. The aim of our study was to determine the prevalence and diagnostic accuracy of perinuclear antineutrophil cytoplasmic antibodies (p-ANCA), anti-Saccharomyces cerevisiae antibodies (ASCA), anti-exocrine pancreatic antibodies (PAB) and anti-goblet cells antibodies (GAB) alone and in combination in children and adolescents with IBD. Patients and methods: Serum specimens were analyzed for p-ANCA, ASCA IgG, ASCA IgA, PAB and GAB antibodies in 49 children and adolescents with confirmed IBD and 53 non-IBD controls. P-ANCA, PAB and GAB antibodies were determined by indirect immunofluorescent test and ASCA by enzyme-linked immunosorbent assay. All patients with Crohn's disease (CD) had genotyping performed using a sequence specific PCR directed against the wild type and the three principal mutations of NOD2/CARD15 gene. Disease location, body mass index (BMI) and disease activity by pediatric Crohn's disease activity index (PCDAI) at the time of diagnosis were determined in CD patients. Results: The prevalence of p-ANCA in patients with UC and ASCA in CD patients was high (82.3 % and 67.9 %, respectively). Positivity for PAB antibodies in CD and GAB in UC was lower (35.7 % and 23.5 %, respectively). Accuracy data (sensitivity, specificity, PPV, NPV, respectively) for differentiating IBD from non-IBD controls were as follows: p-ANCA: 82 %, 100 %, 100 %, 94 %; ASCA IgG: 68 %, 94 %, 86 %, 84 %; ASCA IgA: 54 %, 100 %, 100 %, 80 %; PAB: 36 %, 98 %, 91 %, 74 %; GAB: 23 %, 100 %, 100 %, 80 %. In distinguishing CD from UC we found out the following accuracy data (sensitivity, specificity, PPV, NPV, respectively): p-ANCA: 82 %, 82 %, 74 %, 88 %; ASCA IgG: 68 %, 100 %, 100 %, 65 %; ASCA IgA: 54 %, 100 %, 100 %, 57 %; PAB: 36 %, 100 %, 100 %, 49 %; GAB: 23 %, 100 %, 100 %, 68 %. There were no significant association between ASCA positivity and the three major mutations of NOD2/CARD15 gene, disesase location and family history in CD patients, however an association between BMI and disease activity at the time of diagnosis was found out. Conclusions: Specificity and positive predictive value of serological markers p-ANCA, ASCA IgG, ASCA IgA, PAB and GAB for IBD alone and in combination are high and which make them useful in diagnosis of inflammatory bowel disease in day-to-day clinical practice, particulary in making decision about performing invasive diagnostic procedures. Because of low sensitivity they are less useful as screening tests for inflammatory bowel disease in pediatric population.
Keywords: serological markers, inflammatory bowel disease, children, adolescents, Crohn’s disease, ulcerative colitis, NOD2/CARD15 mutations
Published: 21.12.2015; Views: 919; Downloads: 43
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Effectiveness of AFLP and SSR molecular markers in determination* of genetic relationship among pear (Pyrus spp.) genotypes
Metka Šiško, Branka Javornik, 2007, original scientific article

Abstract: Effectiveness of AFLP and SSR molecular markers in determination of genetic relationship among pear (Pyrus spp.) genotypes
Keywords: molecular markers, AFLP, SSR, pear, Pyrus, discriminating capacity
Published: 10.07.2015; Views: 559; Downloads: 22
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Annotating discourse markers in spontaneous speech corpora on an example for the Slovenian
Darinka Verdonik, Matej Rojc, Marko Stabej, 2007, original scientific article

Abstract: Speech-to-speech translation technology has difficulties processing elements of spontaneity in conversation. We propose a discourse marker attribute in speech corpora to help overcome some of these problems. There have already been some attempts to annotate discourse markers in speech corpora. However, as there is no consistency on what expressions count as discourse markers, we have to reconsider how to set a framework for annotating, and, in order to better understand what we gain by introducing a discourse marker category, we have to analyse their characteristics and functions in discourse. This is especially important for languages such as Slovenian where no or little research on the topic of discourse markers has been carried out. The aims of this paper are to present a scheme for annotating discourse markers based on the analysis of a corpus of telephone conversations in the tourism domain in the Slovenian language, and to give some additional arguments based on the characteristics and functions of discourse markers that confirm their special status in conversation.
Keywords: discourse markers, speech corpora, annotating, conversation, discourse analysis, speech-to-speech translation, spontaneous speech, Slovenian language
Published: 31.05.2012; Views: 1411; Downloads: 31
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