Tissue Distribution and Maternal Transfer of Mercury in Diamondback Terrapins with Implications for Human Health

2010 S.C. Water Resources Conferences - Science and Policy Challenges for a Sustainable Futur

Development and characterization of 16 microsatellite markers for the Louisiana pine snake, Pituophis ruthveni, and two congeners of conservation concern

We isolated and characterized 16 microsatellite loci from the Louisiana pine snake, Pituophis ruthveni. Loci were screened in 24 individuals from locations throughout its distribution in Louisiana and Texas. The number of alleles per locus ranged from 4 to 12, observed heterozygosity ranged from 0.200 to 0.875, and the probability of identity ranged from 0.043 to 0.298. We examined cross-species amplification at these loci in P. catenifer (bullsnakes and gopher snakes) and P. melanoleucus (pine snakes). These new markers provide tools for examining the conservation genetics of this species complex. Louisiana pine snakes face numerous threats: population densities are extremely low and their natural habitat has been severely altered and fragmented. In southern Canada, P. catenifer is at the northern extreme of its range and limited by the availability of suitable over-wintering sites. Hence, for these two species reduction of heterozygosity, potential for inbreeding, and increased effects of genetic drift are all of considerable conservation concern

PointCloudExplore 2: Visual exploration of 3D gene expression

To better understand how developmental regulatory networks are defined inthe genome sequence, the Berkeley Drosophila Transcription Network Project (BDNTP)has developed a suite of methods to describe 3D gene expression data, i.e.,the output of the network at cellular resolution for multiple time points. To allow researchersto explore these novel data sets we have developed PointCloudXplore (PCX).In PCX we have linked physical and information visualization views via the concept ofbrushing (cell selection). For each view dedicated operations for performing selectionof cells are available. In PCX, all cell selections are stored in a central managementsystem. Cells selected in one view can in this way be highlighted in any view allowingfurther cell subset properties to be determined. Complex cell queries can be definedby combining different cell selections using logical operations such as AND, OR, andNOT. Here we are going to provide an overview of PointCloudXplore 2 (PCX2), thelatest publicly available version of PCX. PCX2 has shown to be an effective tool forvisual exploration of 3D gene expression data. We discuss (i) all views available inPCX2, (ii) different strategies to perform cell selection, (iii) the basic architecture ofPCX2., and (iv) illustrate the usefulness of PCX2 using selected examples

Integrating Data Clustering and Visualization for the Analysis of 3D Gene Expression Data

The recent development of methods for extracting precise measurements of spatial gene expression patterns from three-dimensional (3D) image data opens the way for new analyses of the complex gene regulatory networks controlling animal development. We present an integrated visualization and analysis framework that supports user-guided data clustering to aid exploration of these new complex datasets. The interplay of data visualization and clustering-based data classification leads to improved visualization and enables a more detailed analysis than previously possible. We discuss (i) integration of data clustering and visualization into one framework; (ii) application of data clustering to 3D gene expression data; (iii) evaluation of the number of clusters k in the context of 3D gene expression clustering; and (iv) improvement of overall analysis quality via dedicated post-processing of clustering results based on visualization. We discuss the use of this framework to objectively define spatial pattern boundaries and temporal profiles of genes and to analyze how mRNA patterns are controlled by their regulatory transcription factors

Fifteen microsatellite loci for the decollate snail, Rumina decollate

We characterized 15 microsatellite loci from the decollate snail, Rumina decollata. Loci were screened in 21 individuals and several individuals of the congener Rumina saharica. There was ample allelic diversity (6-12 alleles per locus) but observed heterozygosity values were extremely low (0-0.421). This was expected given the high self-fertilization rate in this species. Ten of the 15 loci were successfully amplified in R. saharica. These loci provide tools for examining the population genetics and taxomomic boundaries in R. decollata and its allies. © Springer Science+Business Media B.V. 2010.SCOPUS: ar.jinfo:eu-repo/semantics/publishe

Fifteen polymorphic microsatellite loci from Jamaican streamertail hummingbirds (Trochilus)

We isolated and characterized 15 microsatellite loci from the endemic Jamaican streamertail hummingbird Trochilus polytmus. Loci were screened in 12 individuals of both T. polytmus and its sister species T. scitulus, also a Jamaican endemic. The number of alleles per locus ranged from 2 to 10, observed heterozygosity ranged from 0 to 1, and the probability of identity values ranged from 0.038 to 0.663. These new loci provide tools for characterizing the narrow hybrid zone between the two species. © 2008 Springer Science+Business Media B.V

Segmenting Gene Expression Patterns of Early-stage Drosophila Embryos

Summary. To make possible a more rigorous understanding of animal gene regulator

Fifteen microsatellite loci for the jungle perch, Kuhlia rupestris

We developed and optimized 15 polymorphic microsatellite loci in the jungle perch, Kuhlia rupestris. Loci were screened in a single population (n = 24) from Fraser Island, Queensland, Australia. Number of alleles per locus ranged from 3 to 19 and observed heterozygosity from 0.25 to 1. No significant linkage disequilibrium was detected between any pair of loci. Genotype proportions for these loci in the population sampled were in Hardy-Weinberg equilibrium

Fourteen Novel Microsatellite Markers for the Gopher Frog, Lithobates capito (Amphibia: Ranidae)

We isolated and characterized a total of 14 microsatellite loci from gopher frogs, Lithobates capito. This species is of conservation concern because most populations have gone locally extinct across the geographic distribution. Loci were screened for 21 individuals from a single population in Florida. The number of alleles per locus ranged from 7 to 17, observed heterozygosity ranged from 0.667 to 0.947, and the probability of identity values ranged from 0.011 to 0.077. These new loci provide tools for examining the genetic diversity and population structure of L. capito populations and addressing factors associated with their declin