Fractioned DNA pooling: a new cost-effective strategy for fine mapping of quantitative trait loci

Selective DNA pooling (SDP) is a cost-effective means for an initial scan for linkage between marker and quantitative trait loci (QTL) in suitable populations. The method is based on scoring marker allele frequencies in DNA pools from the tails of the population trait distribution. Various analytical approaches have been proposed for QTL detection using data on multiple families with SDP analysis. This article presents a new experimental procedure, fractioned-pool design (FPD), aimed to increase the reliability of SDP mapping results, by "fractioning" the tails of the population distribution into independent subpools. FPD is a conceptual and structural modification of SDP that allows for the first time the use of permutation tests for QTL detection rather than relying on presumed asymptotic distributions of the test statistics. For situations of family and cross mapping design we propose a spectrum of new tools for QTL mapping in FPD that were previously possible only with individual genotyping. These include: joint analysis of multiple families and multiple markers across a chromosome, even when the marker loci are only partly shared among families; detection of families segregating (heterozygous) for the QTL; estimation of confidence intervals for the QTL position; and analysis of multiple-linked QTL. These new advantages are of special importance for pooling analysis with SNP chips. Combining SNP microarray analysis with DNA pooling can dramatically reduce the cost of screening large numbers of SNPs on large samples, making chip technology readily applicable for genomewide association mapping in humans and farm animals. This extension, however, will require additional, nontrivial, development of FPD analytical tools.

Molecular-genetic biodiversity in a natural population of the yeast Saccharomyces cerevisiae from "Evolution Canyon": microsatellite polymorphism, ploidy and controversial sexual status

The yeast S. cerevisiae is a central model organism in eukaryotic cell studies and a major component in many food and biotechnological industrial processes. However, the wide knowledge regarding genetics and molecular biology of S. cerevisiae is based on an extremely narrow range of strains. Studies of natural populations of S. cerevisiae, not associated with human activities or industrial fermentation environments, are very few. We isolated a panel of S. cerevisiae strains from a natural microsite, "Evolution Canyon" at Mount Carmel, Israel, and studied their genomic biodiversity. Analysis of 19 microsatellite loci revealed high allelic diversity and variation in ploidy level across the panel, from diploids to tetraploids, confirmed by flow cytometry. No significant differences were found in the level of microsatellite variation between strains derived from the major localities or microniches, whereas strains of different ploidy showed low similarity in allele content. Maximum genetic diversity was observed among diploids and minimum among triploids. Phylogenetic analysis revealed clonal, rather than sexual, structure of the triploid and tetraploid subpopulations. Viability tests in tetrad analysis also suggest that clonal reproduction may predominate in the polyploid subpopulations.

Patterns of urinary 17-ketosteroid fractions in hirsutism

Fractionated 17-ketosteroids were determined in 60 females with hirsutism. The chromatographic method was adapted in the Oncological Institute of Cluj-Napoca. In 32 patients the idiopathic form of hirsutism was confirmed with normal results for all the fractions and only sometimes a slight rise of androsterone. In 18 patients an ovarian origin was affirmed; all of them had androsterone and etiocholanolone over normal limits. In ten patients, who had an adrenal origin of hirsutism the great values of DHEA (dehydroepiandrosterone) were observed. In one patient with virilizing adrenal tumour, both total 17-ketosteroids, and all fractions were much elevated DHEA being over 100 mg/24 hours.

Urinary 17-ketosteroid fractions in young patients with breast cancer

The main fractions of 17-ketosteroids were estimated in 30 young women (under 40 years) with breast cancer and 20 controls of the same age. The determination of the fractionated ketosteroids was made by thin layer chromatography on silicagel. The mean levels of etiocholanolone, androsterone, total ketosteroids and the sum of the fractions of 17-ketosteroids were significantly decreased in patients with breast cancer in comparison with the controls. No significant differences between the mean levels of dehydroepiandrosterone and 11-oxygenated-17-ketosteroids were noted in these groups.