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Population Clusters (population + cluster)
Selected AbstractsPhylogeography, phylogeny and hybridization in trichechid sirenians: implications for manatee conservationMOLECULAR ECOLOGY, Issue 2 2006JULIANA A. VIANNA Abstract The three living species of manatees, West Indian (Trichechus manatus), Amazonian (Trichechus inunguis) and West African (Trichechus senegalensis), are distributed across the shallow tropical and subtropical waters of America and the western coast of Africa. We have sequenced the mitochondrial DNA control region in 330 Trichechus to compare their phylogeographic patterns. In T. manatus we observed a marked population structure with the identification of three haplotype clusters showing a distinct spatial distribution. A geographic barrier represented by the continuity of the Lesser Antilles to Trinidad Island, near the mouth of the Orinoco River in Venezuela, appears to have restricted the gene flow historically in T. manatus. However, for T. inunguis we observed a single expanding population cluster, with a high diversity of very closely related haplotypes. A marked geographic population structure is likely present in T. senegalensis with at least two distinct clusters. Phylogenetic analyses with the mtDNA cytochrome b gene suggest a clade of the marine Trichechus species, with T. inunguis as the most basal trichechid. This is in agreement with previous morphological analyses. Mitochondrial DNA, autosomal microsatellites and cytogenetic analyses revealed the presence of hybrids between the T. manatus and T. inunguis species at the mouth of the Amazon River in Brazil, extending to the Guyanas and probably as far as the mouth of the Orinoco River. Future conservation strategies should consider the distinct population structure of manatee species, as well as the historical barriers to gene flow and the likely occurrence of interspecific hybridization. [source] Utility of CD26 in flow cytometric immunophenotyping of T-cell lymphomas in tissue and body fluid specimens,CYTOMETRY, Issue 6 2008Diane M. Pierson Abstract Background CD26 is expressed by most CD4+ T cells in normal peripheral blood specimens. Neoplastic T cells are frequently CD26, in mycosis fungoides/Sezary syndrome involving the peripheral blood. However, CD26 expression by reactive and neoplastic T cells in solid tissues and body fluids has not been fully characterized by flow cytometry (FC). Methods Solid tissue and body fluid specimens were assayed for CD26 expression using four-color FC immunophenotyping, by qualitative assessment of population clusters, and by quantitation with comparison with isotype controls. Benign T cells were studied in reactive tissues and in the background of other malignancies. Results Many T-cell lymphomas were dim or negative for CD26, whereas a few were brightly positive. In the majority of T-cell lymphomas, CD26 expression could potentially help identify aberrant population clusters. T cells in reactive tissue specimens and tumor-infiltrating T cells were commonly dim to negative for CD26. Conclusions Both T-cell lymphomas and reactive T cells in tissue and body fluid specimens often show low levels of CD26 expression. Therefore, quantitative methods may not reliably distinguish benign from neoplastic T cells in these specimens. However, CD26, in combination with other T-cell markers, can be helpful for identifying aberrant population clusters in T-cell lymphomas. © 2008 Clinical Cytometry Society [source] Glutathione S -transferase detoxification as a potential pyrethroid resistance mechanism in the maize weevil, Sitophilus zeamaisENTOMOLOGIA EXPERIMENTALIS ET APPLICATA, Issue 1 2003Daniel B. Fragoso Abstract Insecticide resistance patterns among 16 Brazilian populations of the maize weevil, Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae), were recognized by surveying resistance to three organophosphates (chlorpyrifos-methyl, malathion, and pirimiphos-methyl) and three pyrethroids (cypermethrin, deltamethrin, and permethrin). Two population clusters were obtained: one with three populations (Bragança Paulista, Cristalina, and Nova Andradina) showing low frequency of cypermethrin resistance (13,36%) and negligible frequency of deltamethrin resistance (2,9%); and another with six populations (Campos dos Goytacazes, Ivinhema, Patos de Minas, Penápolis, Uberlândia, and Venda Nova) showing low to negligible levels of pyrethroid resistance (0,23%). The remaining seven populations, including a susceptible, and a DDT- and pyrethroid-resistant reference populations (Sete Lagoas and Jacarezinho, respectively), were significantly different from each other and from the two recognized clusters. In contrast with pyrethroid resistance, organophosphate resistance was negligible except for chlorpyrifos-methyl in two populations (Fátima do Sul and Penápolis). There was no correlation between geographic distance and the Mahalanobis distance estimated from the resistance pattern ordination of the populations by canonical variate analysis, suggesting local selection and/or broad dispersal of resistant populations by grain trade. The results of biochemical in vitro studies measuring the activity of detoxification enzymes (esterases and glutathion S -transferases) in conjunction with canonical correlation analysis suggest a major involvement of enhanced conjugation by glutathione S -transferases (> 2-fold increase) in pyrethroid resistance and, in the case of cypermethrin resistance, enhanced phosphotriesterase activity. [source] Fine-scale spatial genetic structure and dispersal among spotted salamander (Ambystoma maculatum) breeding populationsMOLECULAR ECOLOGY, Issue 2 2007KELLY R. ZAMUDIO Abstract We examined fine-scale genetic variation among breeding aggregations of the spotted salamander (Ambystoma maculatum) to quantify dispersal, interpopulation connectivity and population genetic structure. Spotted salamanders rely on temporary ponds or wetlands for aggregate breeding. Adequate breeding sites are relatively isolated from one another and field studies suggest considerable adult site fidelity; therefore, we expected to find population structure and differentiation at small spatial scales. We used microsatellites to estimate population structure and dispersal among 29 breeding aggregations in Tompkins County, New York, USA, an area encompassing 1272 km2. Bayesian and frequency-based analyses revealed fine-scale genetic structure with two genetically defined demes: the North deme included seven breeding ponds, and the South deme included 13 ponds. Nine ponds showed evidence of admixture between these two genetic pools. Bayesian assignment tests for detection of interpopulation dispersal indicate that immigration among ponds is common within demes, and that certain populations serve as sources of immigrants to neighbouring ponds. Likewise, spatial genetic correlation analyses showed that populations , 4.8 km distant from each other show significant genetic correlation that is not evident at higher scales. Within-population levels of relatedness are consistently larger than expected if mating were completely random across ponds, and in the case of a few ponds, within-population processes such as inbreeding or reproductive skew contribute significantly to differentiation from neighbouring ponds. Our data underscore the importance of these within-population processes as a source of genetic diversity across the landscape, despite considerable population connectivity. Our data further suggest that spotted salamander breeding groups behave as metapopulations, with population clusters as functional units, but sufficient migration among demes to allow for potential rescue and recolonization. Amphibian habitats are becoming increasingly fragmented and a clear understanding of dispersal and patterns of population connectivity for taxa with different ecologies and life histories is crucial for their conservation. [source] Cluster Formation as a Measure of Interpretability in Multiple TestingBIOMETRICAL JOURNAL, Issue 5 2008Juliet Popper Shaffer Abstract Multiple test procedures are usually compared on various aspects of error control and power. Power is measured as some function of the number of false hypotheses correctly identified as false. However, given equal numbers of rejected false hypotheses, the pattern of rejections, i.e. the particular set of false hypotheses identified, may be crucial in interpreting the results for potential application. In an important area of application, comparisons among a set of treatments based on random samples from populations, two different approaches, cluster analysis and model selection, deal implicitly with such patterns, while traditional multiple testing procedures generally focus on the outcomes of subset and pairwise equality hypothesis tests, without considering the overall pattern of results in comparing methods. An important feature involving the pattern of rejections is their relevance for dividing the treatments into distinct subsets based on some parameter of interest, for example their means. This paper introduces some new measures relating to the potential of methods for achieving such divisions. Following Hartley (1955), sets of treatments with equal parameter values will be called clusters. Because it is necessary to distinguish between clusters in the populations and clustering in sample outcomes, the population clusters will be referred to as P -clusters; any related concepts defined in terms of the sample outcome will be referred to with the prefix outcome. Outcomes of multiple comparison procedures will be studied in terms of their probabilities of leading to separation of treatments into outcome clusters, with various measures relating to the number of such outcome clusters and the proportion of true vs. false outcome clusters. The definitions of true and false outcome clusters and related concepts, and the approach taken here, is in the tradition of hypothesis testing with attention to overall error control and power, but with added consideration of cluster separation potential. The pattern approach will be illustrated by comparing two methods with apparent FDR control but with different ways of ordering outcomes for potential significance: The original Benjamini,Hochberg (1995) procedure (BH), and the Newman,Keuls (Newman, 1939; Keuls, 1952) procedure (NK). (© 2008 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim) [source] | ||||||||||