On computational efficiency of the hybrid Monte Carlo method applied to the multicanonical ensemble

Abstract

In the present paper, computational efficiency of the hybrid Monte Carlo (HMC) method applied to the multicanonical ensemble is studied; the HMC is an equation of motion guided Monte Carlo method. As in the standard HMC for the canonical ensemble, the multicanonical HMC calculations with high acceptance ratio show better efficiency; about 60% acceptance yields the best performance for the system examined.     

A hybrid anaerobic solid-liquid bioreactor for food waste digestion

A hybrid anaerobic solid-liquid (HASL) bioreactor is an enhanced two-phase anaerobic system, that consists of a solid waste reactor as the acidification reactor and a wastewater reactor, i.e. an upflow anaerobic sludge blanket (UASB) reactor as the methanogenic reactor. Food waste digestion in HASL bioreactors with pre-acidification and HASL operation stages was investigated in two separate runs. After 8 days of pre-acidification in Run A and 4 days in Run B, total volatile fatty acid (TVFA) and chemical oxygen demand (COD) concentrations in the leachates of both acidification reactors were similar. During HASL operation stage, TVFA and COD removal in the methanogenic phase were 77–100% and 75–95%, respectively. Some 99% of the total methane generated was from the methanogenic phase with a content of 68–70% methane. At the end of operation, about 59–60% of the added volatile solids (VS) were removed with a methane yield of 0.25 l g^–1 VS.     

Use of Radiation Hybrid panels to map genetic loci

The mapping of genetic loci within organisms has been accelerated by the advent of Radiation Hybrid (RH) panels. These panels are available for humans and non-humans including mice, baboon, rat, and canine. This article contains a general protocol for the use of the Genebridge 4 whole genome RH panel to map a human locus. This protocol may also be adjusted to suit the other RH panels currently available.     

On the diploidization mechanism of the genus Aegilops: meiotic behaviour of interspecific hybrids

Chromosomal pairing of the three diploid hybrids Aegilops uniaristata × Ae. tauschii (ND), Ae. umbellulata × Ae. tauschii (UD) and Ae. comosa × Ae. uniaristata (MN), and a triploid hybrid Ae. cylindrica × Ae. caudata (DCC), was analyzed by electron microscopy in surface-spread-prophase-I nuclei and compared with light-microscopic observations of metaphase-I cells after C-banding and fluorescence in situhybridization. All hybrids showed extensive synapsis and complex multivalents in which up to 14 chromosomes were involved. In the diploid hybrids most metaphase-I chromosomal associations were between homoeologs, their frequencies being dependent on the relationship between the donor genomes. Despite the different overall bound-arm frequencies displayed by ND and MN hybrids at metaphase-I, chromosomes bearing rDNA sequences showed similar mean cell chromosomal association frequencies. In the triploid hybrid preferential associations involving C genomes were predominant. These observations are discussed in relation to the mechanism of diploidization showed by allotetraploid Aegilops species. Received: 13 January 1999 / Accepted: 12 March 1999     

Characterization by [3H]Dihydroergocryptine Binding of Alpha-Adrenergic Receptors in Neuroblastoma × Glioma Hybrid Cells

[3H]Dihydroergocryptine ([3H]DHE) was shown to bind to sites in membranes from neuroblastoma X glioma hybrid cells (NG 108-15) that had the characteristics expected of alpha-adrenergic receptors. The binding was saturable with 0.3 pmol [3H]DHE bound per mg of protein and of high affinity, with an apparent dissociation constant (KD) of 1.8 nM. The specificity of the binding site for various ligands was more similar to that of alpha 2 receptors than to that of alpha 1. No specific binding of [3H]WB-4101 was found in the membranes derived from NG 108 cells. This finding also indicated that the [3H]DHE binding site in the cell is the alpha 2 receptor. GTP lowered the affinity of agonists for the [3H]DHE binding site, although the nucleotide hardly affected the affinity of antagonists including [3H]DHE.     

Production of a hybrid between the bedbugs Cimex hemipterus and Cimex lectularius

Of 479 eggs laid by female Cimex lectularius Linnaeus and C.hemipterus (Fabricius) mated by males of the other species, one was fertile and gave rise to a first stage nymph. The egg showed sculpturing typical of C.hemipterus, the female parent, and the nymph conformed to the narrow pronotum and abdomen of this species, being significantly different from C.lectularius in the width of the abdomen. Because the orientation and lengths of the bristles on the sides of the abdomen were distinctly different from C.hemipterus and closely resembled C.lectularius, the single nymph obtained from the cross C.hemipterus x lectularius was interpreted as being a hybrid rather than a product of parthenogenesis.     

Life on the edge: a hybrid zone in AZbinaria hippolyti (Gastropoda: Clausiliidae) from Crete

The hybrid zone between the Greek land snails Albinaria hippolyti aphrodite and Albinaria hippolyti harmonia runs exactly along the edge of a gorge. At two localities, we analysed patterns of variation in three enzyme loci, six conchological characters, and two anatomical characters across the zone. Clines in the various characters are largely coincident and concordant. They are narrow (approximately 30 m wide) where the ecological transition is abrupt, and wider (approximately 120 m wide) where a valley cuts into the gorge, making the environmental change more gradual. In spite of the obvious correlation with an ecological transition, we do not believe the zone is maintained by a selection gradient. Instead, direct and indirect evidence for hybrid disadvantage and evidence for directional dispersal at the edge of the gorge suggest that it is a tension zone, held at the ecotone by differential dispersal of at least one of the parental types. We speculate on the possibility that reinforcement may act in the hybrid zone. Our data on dispersal and reproductive isolating mechanisms lead us to believe that reinforcement may only be possible at localities where the hybrid zone is very narrow.     

The economics of monocropping and intercropping by smallholders: The case of coconuts in Indonesia

This article contains a comparison of the profits of cultivating modern and traditional varieties of coconuts as a monocrop and as an intercrop, in ideal and in average growing conditions, with good and with average management. We carry out the analysis from a private (financial) and from a national (economic) perspective. The results show that intercropping generates more income than monocropping. In the conclusion we discuss why development organizations and Third World countries encourage monocropping.     

Synthesis of distal and proximal fleximer base analogues and evaluation in the nucleocapsid protein of HIV-1

Anti-HIV-1 drug design has been notably challenging due to the virus’ ability to mutate and develop immunity against commercially available drugs. The aims of this project were to develop a series of fleximer base analogues that not only possess inherent flexibility that can remain active when faced with binding site mutations, but also target a non-canonical, highly conserved target: the nucleocapsid protein of HIV (NC). The compounds were predicted by computational studies not to function via zinc ejection, which would endow them with significant advantages over non-specific and thus toxic zinc-ejectors. The target fleximer bases were synthesized using palladium-catalyzed cross-coupling techniques and subsequently tested against NC and HIV-1. The results of those studies are described herein.