The construction and evaluation of a group auditory test of word analysis for grade one

Thesis (Ed.M.)--Boston Universit

A siltstone reaction front related to CO2- and sulfur-bearing fluids: Integrating quantitative elemental mapping with reactive transport modeling

For the purpose of geological carbon storage, it is necessary to understand the long-term effects of introducing CO2 and sulfur-species into saline aquifers. CO2 stripped from the flue gas during the carbon capture process may contain trace SO2 and H2S and it may be economically beneficial to inject S-bearing CO2 rather than costly purified CO2. Further, reactions between the S-bearing CO2, formation brines and formation minerals will increase pH and promote further dissolution and precipitation reactions. To investigate this we model reactions in a natural analogue where CO2 and SO4-H2S bearing fluids have reacted with clay-rich siltstones. In the Mid-Jurassic Carmel formation in a cap rock to a natural CO2-bearing reservoir at Green River, Utah, a 3.1 mm wide bleached alteration zone is observed at the uppermost contact between a primary gypsum bed and red siltstone. Gypsum at the contact is ∼1 mm thick and shows elongate fibers perpendicular to the siltstone surface, suggesting fluid flow along the contact. Mineralogical concentrations, analyzed by Quantitative Evaluation of Minerals by SCANning electron microscopy (QEMSCAN), show the altered siltstone region comprises two main zones, a 0.8 mm-wide hematite-poor, dolomite-poor and illite-rich region adjacent to the gypsum bed and a 2.3 mm-wide hematite-poor, dolomite-poor, illite-poor region adjacent to the hematite alteration front. A one-component analytical solution to reactive-diffusive transport for the bleached zone implies it took less than 20 years to form before the fluid self-sealed, and that literature hematite dissolution rates between 10-8 and 10-7 mol/m2/s are valid for likely diffusivities. Multi-component reactive-diffusive transport equilibrium modeling for the full phase assemblage, conducted with PHREEQC, suggests dissolution of hematite and dolomite and precipitation of illite over similar short timescales. Reaction progress with CO2-bearing, SO4-rich and minor H2S-bearing fluids is shown to be much faster than with CO2-poor, SO4-rich with minor H2S-earing fluids. The substantial buffering capacity of mineral reactions demonstrated by the S and CO2–related alteration of hematite-bearing siltstones at the Green River CO2 accumulation implies that corrosion of such a cap rock are, at worst, comparable to the 10,000-year timescales needed for carbon storage.Funding for Carbon Storage research at the University of Cambridge was provided by the Natural Environment Research Council (NERC) to the CRIUS consortium (NE/F004699/1), Shell Global Solutions International, and the U.K. Department of Energy and Climate Change (DECC) through a CCS Innovation grant. A.M. was supported by an EPSRC doctoral training grant

The essential genome of Streptococcus agalactiae.

BACKGROUND: Next-generation sequencing of transposon-genome junctions from a saturated bacterial mutant library (Tn-seq) is a powerful tool that permits genome-wide determination of the contribution of genes to fitness of the organism under a wide range of experimental conditions. We report development, testing, and results from a Tn-seq system for use in Streptococcus agalactiae (group B Streptococcus; GBS), an important cause of neonatal sepsis. METHODS: Our method uses a Himar1 mini-transposon that inserts at genomic TA dinucleotide sites, delivered to GBS on a temperature-sensitive plasmid that is subsequently cured from the bacterial population. In order to establish the GBS essential genome, we performed Tn-seq on DNA collected from three independent mutant libraries-with at least 135,000 mutants per library-at serial 24 h time points after outgrowth in rich media. RESULTS: After statistical analysis of transposon insertion density and distribution, we identified 13.5 % of genes as essential and 1.2 % as critical, with high levels of reproducibility. Essential and critical genes are enriched for fundamental cellular housekeeping functions, such as acyl-tRNA biosynthesis, nucleotide metabolism, and glycolysis. We further validated our system by comparing fitness assignments of homologous genes in GBS and a close bacterial relative, Streptococcus pyogenes, which demonstrated 93 % concordance. Finally, we used our fitness assignments to identify signal transduction pathway components predicted to be essential or critical in GBS. CONCLUSIONS: We believe that our baseline fitness assignments will be a valuable tool for GBS researchers and that our system has the potential to reveal key pathogenesis gene networks and potential therapeutic/preventative targets.This work was supported by NIH/NIAID R01 AI092743, R33 AI098654, and R21 AI11020 to A.J.R.; NIH/NICHD K23 HD065844 to T.M.R.; John M. Driscoll, Jr., M.D. Children’s Fund (Columbia University Department of Pediatrics) and the Pediatric Scientist Development Program (NIH/NICHD K12 HD000850) to T.A.H

The Generation of Successive Unmarked Mutations and Chromosomal Insertion of Heterologous Genes in Actinobacillus pleuropneumoniae Using Natural Transformation

We have developed a simple method of generating scarless, unmarked mutations in Actinobacillus pleuropneumoniae by exploiting the ability of this bacterium to undergo natural transformation, and with no need to introduce plasmids encoding recombinases or resolvases. This method involves two successive rounds of natural transformation using linear DNA: the first introduces a cassette carrying cat (which allows selection by chloramphenicol) and sacB (which allows counter-selection using sucrose) flanked by sequences to either side of the target gene; the second transformation utilises the flanking sequences ligated directly to each other in order to remove the cat-sacB cassette. In order to ensure efficient uptake of the target DNA during transformation, A. pleuropneumoniae uptake sequences are added into the constructs used in both rounds of transformation. This method can be used to generate multiple successive deletions and can also be used to introduce targeted point mutations or insertions of heterologous genes into the A. pleuropneumoniae chromosome for development of live attenuated vaccine strains. So far, we have applied this method to highly transformable isolates of serovars 8 (MIDG2331), which is the most prevalent in the UK, and 15 (HS143). By screening clinical isolates of other serovars, it should be possible to identify other amenable strains

Rapid evolution of virulence and drug resistance in the emerging zoonotic pathogen Streptococcus suis

Background: Streptococcus suis is a zoonotic pathogen that infects pigs and can occasionally cause serious infections in humans. S. suis infections occur sporadically in human Europe and North America, but a recent major outbreak has been described in China with high levels of mortality. The mechanisms of S. suis pathogenesis in humans and pigs are poorly understood. Methodology/Principal Findings: The sequencing of whole genomes of S. suis isolates provides opportunities to investigate the genetic basis of infection. Here we describe whole genome sequences of three S. suis strains from the same lineage: one from European pigs, and two from human cases from China and Vietnam. Comparative genomic analysis was used to investigate the variability of these strains. S. suis is phylogenetically distinct from other Streptococcus species for which genome sequences are currently available. Accordingly, ,40% of the ,2 Mb genome is unique in comparison to other Streptococcus species. Finer genomic comparisons within the species showed a high level of sequence conservation; virtually all of the genome is common to the S. suis strains. The only exceptions are three ,90 kb regions, present in the two isolates from humans, composed of integrative conjugative elements and transposons. Carried in these regions are coding sequences associated with drug resistance. In addition, small-scale sequence variation has generated pseudogenes in putative virulence and colonization factors. Conclusions/Significance: The genomic inventories of genetically related S. suis strains, isolated from distinct hosts and diseases, exhibit high levels of conservation. However, the genomes provide evidence that horizontal gene transfer has contributed to the evolution of drug resistance

Radium contamination in the area around Dalgety Bay

In this report, the Committee on Medical Aspects of Radiation in the Environment (COMARE) presents a comprehensive review of the radium contamination in the area around Dalgety Bay. This report covers the history of the site, the type and extent of the contamination, the recent investigations and the cancer epidemiology for the area. The report also considers the implications for other similarly contaminated sites