State Social Safety Net Programs and the Great Recession: The First Line of Defense and the Last Resort for the Economically Disadvantaged

Thesis (Ph.D.)--University of Washington, 2016-06

Sulfadoxine resistance in Plasmodium vivax is associated with a specific amino acid in dihydropteroate synthase at the putative sulfadoxine-binding site

Sulfadoxine is predominantly used in combination with pyrimethamine, commonly known as Fansidar, for the treatment of Plasmodium falciparum. This combination is usually less effective against Plasmodium vivax, probably due to the innate refractoriness of parasites to the sulfadoxine component. To investigate this mechanism of resistance by P. vivax to sulfadoxine, we cloned and sequenced the P. vivax dhps (pvdhps) gene. The protein sequence was determined, and three-dimensional homology models of dihydropteroate synthase (DHPS) from P. vivax as well as P. falciparum were created. The docking of sulfadoxine to the two DHPS models allowed us to compare contact residues in the putative sulfadoxine-binding site in both species. The predicted sulfadoxine-binding sites between the species differ by one residue, V585 in P. vivax, equivalent to A613 in P. falciparum. V585 in P. vivax is predicted by energy minimization to cause a reduction in binding of sulfadoxine to DHPS in P. vivax compared to P. falciparum. Sequencing dhps genes from a limited set of geographically different P. vivax isolates revealed that V585 was present in all of the samples, suggesting that V585 may be responsible for innate resistance of P. vivax to sulfadoxine. Additionally, amino acid mutations were observed in some P. vivax isolates in positions known to cause resistance in P. falciparum, suggesting that, as in P. falciparum, these mutations are responsible for acquired increases in resistance of P. vivax to sulfadoxine.

Neuroprotectant effects of iso-osmolar D-mannitol to prevent Pacific ciguatoxin-1 induced alterations in neuronal excitability: A comparison with other osmotic agents and free radical scavengers

The basis for the neuroprotectant effect of D-mannitol in reducing the sensory neurological disturbances seen in ciguatera poisoning, is unclear. Pacific ciguatoxin-1 (P-CTX-1), at a concentration 10 nM, caused a statistically significant swelling of rat sensory dorsal root ganglia (DRG) neurons that was reversed by hyperosmolar 50 MM D-mannitol. However, using electron paramagnetic resonance (EPR) spectroscopy, it was found that P-CTX-1 failed to generate hydroxyl free radicals at concentrations of toxin that caused profound effects on neuronal excitability. Whole-cell patch-clamp recordings from DRG neurons revealed that both hyper- and iso-osmolar 50 MM D-mannitol prevented the membrane depolarisation and repetitive firing of action potentials induced by P-CTX-1. In addition, both hyper- and iso-osmolar 50 MM D-mannitol prevented the hyperpolarising shift in steady-state inactivation and the rise in leakage current through tetrodotoxin (TTX)-sensitive Na-v channels, as well as the increased rate of recovery from inactivation of TTX-resistant Nav channels induced by P-CTX-1. D-Mannitol also reduced, but did not prevent, the inhibition of peak TTX-sensitive and TTX-resistant I-Na amplitude by P-CTX-1. Additional experiments using hyper- and isoosmolar D-sorbitol, hyperosmolar sucrose and the free radical scavenging agents Trolox (R) and L-ascorbic acid showed that these agents, unlike D-mannitol, failed to prevent the effects of P-CTX-1 on spike electrogenesis and Na-v channel gating. These selective actions of D-mannitol indicate that it does not act purely as an osmotic agent to reduce swelling of nerves, but involves a more complex action dependent on the Nav channel subtype, possibly to alter or reduce toxin association. (c) 2005 Elsevier Ltd. All rights reserved.

Competitive sorption reactions between phosphorus and organic matter in soil: a review

The incorporation of organic matter ( OM) in soils that are able to rapidly sorb applied phosphorus ( P) fertiliser reportedly increases P availability to plants. This effect has commonly been ascribed to competition between the decomposition products of OM and P for soil sorption sites resulting in increased soil solution P concentrations. The evidence for competitive inhibition of P sorption by dissolved organic carbon compounds, derived from the breakdown of OM, includes studies on the competition between P and (i) low molecular weight organic acids (LOAs), (ii) humic and fulvic acids, and (iii) OM leachates in soils with a high P sorption capacity. These studies, however, have often used LOAs at 1 - 100 mM, concentrations much higher than those in soils ( generally < 0.05 mM). The transience of LOAs in biologically active soils further suggests that neither their concentration nor their persistence would have a practical benefit in increasing P phytoavailability. Higher molecular weight compounds such as humic and fulvic acids also competitively inhibit P sorption; however, little consideration has been given to the potential of these compounds to increase the amount of P sorbed through metal - chelate linkages. We suggest that the magnitude of the inhibition of P sorption by the decomposition products of OM leachate is negligible at rates equivalent to those of OM applied in the field. Incubation of OM in soil has also commonly been reported as reducing P sorption in soil. However, we consider that the reported decreases in P sorption ( as measured by P in the soil solution) are not related to competition from the decomposition products of OM breakdown, but are the result of P release from the OM that was not accounted for when calculating the reduction in P sorption.

Mimicking the action of GroEL in molecular dynamics simulations: Application to the refinement of protein structures

Bacterial chaperonin, GroEL, together with its co-chaperonin, GroES, facilitates the folding of a variety of polypeptides. Experiments suggest that GroEL stimulates protein folding by multiple cycles of binding and release. Misfolded proteins first bind to an exposed hydrophobic surface on GroEL. GroES then encapsulates the substrate and triggers its release into the central cavity of the GroEL/ES complex for folding. In this work, we investigate the possibility to facilitate protein folding in molecular dynamics simulations by mimicking the effects of GroEL/ES namely, repeated binding and release, together with spatial confinement. During the binding stage, the (metastable) partially folded proteins are allowed to attach spontaneously to a hydrophobic surface within the simulation box. This destabilizes the structures, which are then transferred into a spatially confined cavity for folding. The approach has been tested by attempting to refine protein structural models generated using the ROSETTA procedure for ab initio structure prediction. Dramatic improvements in regard to the deviation of protein models from the corresponding experimental structures were observed. The results suggest that the primary effects of the GroEL/ES system can be mimicked in a simple coarse-grained manner and be used to facilitate protein folding in molecular dynamics simulations. Furthermore, the results Sur port the assumption that the spatial confinement in GroEL/ES assists the folding of encapsulated proteins.

Fine root respiration in the mangrove Rhizophora mangle over variation in forest stature and nutrient availability

Root respiration uses a significant proportion of photosynthetically fixed carbon (C) and is a globally important source of C liberated from soils. Mangroves, which are an important and productive forest resource in many tropical and subtropical countries, sustain a high ratio of root to shoot biomass which may indicate that root respiration is a particularly important component in mangrove forest carbon budgets. Mangroves are often exposed to nutrient pollution from coastal waters. Here we assessed the magnitude of fine root respiration in mangrove forests in Belize and investigated how root respiration is influenced by nutrient additions. Respiration rates of excised fine roots of the mangrove, Rhizophora mangle L., were low (4.01 +/- 0.16 nmol CO2 g(-1) s(-1)) compared to those measured in temperate tree species at similar temperatures. In an experiment where trees where fertilized with nitrogen (N) or phosphorus (P) in low productivity dwarf forests (1-2 m height) and more productive, taller (47 m height) seaward fringing forests, respiration of fine roots did not vary consistently with fertilization treatments or with forest stature. Fine roots of taller fringe trees had higher concentrations of both N and P compared to dwarf trees. Fertilization with P enhanced fine root P concentrations in both dwarf and fringe trees, but reduced root N concentrations compared to controls. Fertilization with N had no effect on root N or P concentrations. Unlike photosynthetic C gain and growth, which is strongly limited by P availability in dwarf forests at this site, fine root respiration (expressed on a mass basis) was variable, but showed no significant enhancements with nutrient additions. Variation in fine root production and standing biomass are, therefore, likely to be more important factors determining C efflux from mangrove sediments than variations in fine root respiration per unit mass.

Palynostratigraphy of Ordovician strata, Canning Basin, Western Australia. Part One: acritarchs and prasinophytes

This paper is the initial part of a comprehensive bipartite monograph of palynomorphs (viz., acritarchs, prasinophyte phycomata, and chitinozoans) that are represented profusely in marine lower Palaeozoic strata of the Canning Basin, Western Australia. The prime aim is to establish a palynologically based zonal scheme for the Ordovician sequence as represented in five cored boreholes drilled through the Lower to Middle Ordovician strata of the central-northeastern Canning Basin. These strata embrace the Oepikodus communis through Phragmodus-Plectodina conodont zonal interval and comprise (in ascending order) the Willara, Goldwyer, and Nita formations, of inferred early Arenig to Llanvirn age. All three formations contain moderately diverse and variably preserved palynomorphs. The palynomorph taxa, detailed systematically in the current Part One of this monograph, comprise 66 species of acritarchs and six of prasinophytes. Of these, two species of prasinophytes and 11 of acritarchs are newly established: Cymatiosphaera meandrica and Pterospermella franciniae; Aremoricanium hyalinum, A. solaris, Baltisphaeridium tenuicomatum, Gorgonisphaeridium crebrum, Lophosphaeridium aequalium, L. aspersum, Micrhystridium infrequens, Pylantios hadrus, Sertulidium amplexum, Striatotheca indistincta, and Tribulidium globosum. Pylantios (typified by P. hadrus), Sertulidium (typified by S. amplexum), and Tribulidium (typified by T globosum); are defined as new acritarch genera. Three new combinations are instituted: Baltisphaeridium pugiatum (PLAYFORD & MARTIN 1984), Polygonium canningianum (COMRAZ & PENIGUEL 1972), and Sacculidium furtivum (PLAYFORD & MARTIN 1984); and Ammonidium macilentum PLAYFORD & MARTIN 1984 and Sacculidium furtivum (PLAYFORD & MARTIN 1984) are emended. An appreciable number of palynomorph species are not formally named owing to lack of sufficient or adequately preserved specimens; others are compared but not positively identified with previously instituted species. The ensuing Part Two of this study will complete the systematic-descriptive documentation, i.e., chitinozoans, and evaluate the Canning Basin palynoflora in terms of its chronological and stratigraphic-correlative significance.

Field experiments on competition between three foliose lichens using the de Wit experimental design

Competition between three foliose, saxicolous lichens common on slate rock in South Gwynedd, Wales, U.K. was studied experimentally using the de Wit design. Fragments of the three species were cut from the edges of large thalli, glued to 5 x 5 cm plots marked out on pieces of slate which were then placed on boards in the field. For each combination of pairs of species, the two species were grown either in monoculture at a density of 24 fragments per plot or together in three mixtures in differing proportions, i.e. species A:B with 16:8, 12:12 and 8:16 fragments per plot; the density remaining constant throughout. Area of the species in the plots after 3 years was used as an estimate of growth. Physcia orbicularis and Parmelia glabratula ssp. fuliginosa grew similarly in monoculture. In mixtures of the two, growth of each species was linearly related to its proportion in a mixture, suggesting little competition had occurred during three years. By contrast, the growth of Parmelia conspersa in monoculture was significantly greater than that of P. orbicularis or P. glabratula. In addition, the growth of both species was substantially reduced in mixtures with P. conspersa; P. glabratula being eliminated in the mixture in which it was the minority species. These results suggest that P. conspersa should predominate in communities with either of the other two species and, in the absence of P. conspersa, communities dominated by P.orbicularis and P. glabratula should be more stable.

Competitive interactions between four foliose lichens on north and south facing rock surfaces

Competition between four foliose lichen species which have distinct aspect distributions on slate rock in South Gwynedd, Wales, U.K. was studied in the field using a factorial experimental design. The lichens were grown as fragments glued to pieces of slate in monoculture and in two-, three- and four-species mixtures. The pieces of slate were placed to face a northerly or southerly direction. Growth in area (mm2) was used as a measure of performance in the experiment. The growth in area of Parmelia conspersa in south facing plots was not reduced in the presence of any of its competitors but its growth was reduced in the presence of Parmelia saxatilis in north facing plots. The growth of Parmelia glabratula ssp. fuliginosa was reduced in the presence of P. conspersa and P. saxatilis in south and north facing plots. Physcia orbicularis was reduced by P. conspersa in south facing plots and by both P. glabratula ssp. fuliginosa and P. saxatilis in north facing plots. The growth of P. saxatilis was increased by P. glabratula ssp. fuliginosa in south facing plots but was not reduced by any of its competitors in north facing plots. Significant two and three factor interactions suggested that the results from the three- and four-species mixtures were not always predictable from the results of the two-species mixtures. The results of the experiment may help to explain the existing aspect distribution of the four species on slate rock in South Gwynedd.

The postantibiotic effect of the carbapenem antibiotics on gram-negative bacteria

Postantibiotic effect (PAE) describes the suppression of microbial growth occurring after a short exposure to an antimicrobial agent. PAE appears to be a property of the majority of antimicrobial agents and is demonstrated by a wide variety of microorganisms. At present, carbapenems and penems are the only members of the -lactam group of antimicrobial agents that exhibit a significant PAE on Gram-negative bacilli. A standardised method was developed to evaluate the in vitro PAE of three carbapenems; imipenem, meropenem and biapenem on Gram-negative bacteria under reproducible laboratory conditions that partially mimicked those occurring in vivo. The effects on carbapenem PAE of the method of antimicrobial removal, concentration, exposure duration, inoculum size, inoculum growth phase, multiple exposures and pooled human serum were determined. Additionally, the reproducibility, susceptibility prior to and after PAE determination and inter-strain variation of carbapenem PAE were evaluated. The method developed determined PAE by utilising viable counts and demonstrated carbapenem PAE to be reproducible, constant over successive exposures, dependent on genera, concentration, duration of exposure, inoculum size and growth phase. In addition, carbapenem PAE was not significantly effected either by agitation, the antimicrobial removal method or the viable count diluent. At present, the mechanism underlying PAE is undetermined. It is thought to be due to either the prolonged persistence of the antimicrobial at the cellular site of action or the true recovery period from non-lethal damage. Increasing the L-lysine concentration and salinity at recovery decreased and increased the carbapenem and imipenem PAE of Pseudomonas aeruginosa, respectively. In addition, no apparent change was observed in the production of virulence factors by P.aeruginosa in PAE phase. However, alterations in cell morphology were observed throughout PAE phase, and the reappearance of normal cell morphology corresponded to the duration of PAE determined by viable count. Thus, the recovery of the penicillin binding protein target enzymes appears to be the mechanism behind carbapenem PAE in P. aeruginosa.

The surface of Pseudomonas aeruginosa in cystic fibrosis lung infection

Chronic experimental lung infection in rats was induced by intratracheal inoculation of agar beads containing Pseudomonas aeruginosa. Bacteria were recovered directly without subculture from the lungs of rats at 14 days post-infection and the outer membrane (OM) antigens were studied. The results indicated that bacteria grew under iron-restricted conditions as revealed by the expression of several iron-regulated membrane proteins (IRMPs) which could also be observed when the isolate was grown under iron-depleted conditions in laboratory media. The antibody response to P. aeruginosa OM protein antigens was investigated by immunoblotting with serum and lung fluid from infected rats. These fluids contained antibodies to all the major OM proteins, including the IRMPs, and protein H1. Results obtained using immunoblotting and enzyme-linked immunosorbent assay indicated that lipopolysaccharide (LPS) was the major antigen recognised by antibodies in sera from infected rats. The animal model was used to follow the development of the immune response to P. aeruginosa protein and LPS antigens. Immunoblotting was used to investigate the antigens recognised by antibodies in sequential serum samples. An antibody response to the IRMPs and OM proteins D, E, G and H1 and alao to rough LPS was detected as early as 4 days post-infection. Results obtained using immunoblotting and crossed immunoelectrophoresis techniques indicated that there was a progressive increase in the number of P. aeruginosa antigens recognised by antibodies in these sera. Both iron and magnesium depletion influenced protein H1 production. Antibodies in sera from patients with infections due to P. aeruginosa reacted with this antigen. Results obtained using quantitative gas-liquid chromatographic analysis indicated that growth phase and magnesium and iron depletion also affected the amount of LPS fatty acids, produced by P. aeruginosa. The silver stained SDS-polyacrylamide gels of proteinase K digested whole cell lysates of P. aeruginosa indicated that the O-antigen and core LPS were both affected by growth phase and specific nutrient depletion.

The Perturbed Generalized Tikhonov's Algorithm

We work on the research of a zero of a maximal monotone operator on a real Hilbert space. Following the recent progress made in the context of the proximal point algorithm devoted to this problem, we introduce simultaneously a variable metric and a kind of relaxation in the perturbed Tikhonov’s algorithm studied by P. Tossings. So, we are led to work in the context of the variational convergence theory.

Polynomial Expansions for Solutions of Higher-Order Bessel Heat Equation in Quantum Calculus

Mathematics Subject Class.: 33C10,33D60,26D15,33D05,33D15,33D90

Large Distinct Part Sizes in a Random Integer Partition

A partition of a positive integer n is a way of writing it as the sum of positive integers without regard to order; the summands are called parts. The number of partitions of n, usually denoted by p(n), is determined asymptotically by the famous partition formula of Hardy and Ramanujan [5]. We shall introduce the uniform probability measure P on the set of all partitions of n assuming that the probability 1/p(n) is assigned to each n-partition. The symbols E and V ar will be further used to denote the expectation and variance with respect to the measure P . Thus, each conceivable numerical characteristic of the parts in a partition can be regarded as a random variable.

The effect of climate change on the potential distribution of the European Phlebotomus species

Our study intended to explore the potential distributionshif of Phlebotomusariasi, P. neglectus, P. perfiliewi, P. perniciosus, and P. tobbi, and some other sandfly species: P. papatasi, P. sergenti, and P. similis. We used climate envelope modeling (CEM) method to determine the ecological requirements of the species and to model the potential distribution for three periods (1961-1990, 2011-2040, and 2041- 2070). We found that by the end of the 2060’s the Southern UK, Germany, entire France and also the western part of Poland can be colonized by sandfly species, mostly by P. ariasi and P. pernicosus. P. ariasishowe the greatest potential northward expansion, from 49°N to 59°N. For all of the studied sand fly species the entire Mediterranean Basin, the Balkan Peninsula, the Carpathian Basin, and northern coastline of the Black Sea are potentially suitable. The length of the predicted active period of the vectors will increase with one or two months.