Isolation of Psoroptes scab mite microsatellite markers (Acari: Psoroptidae)

Nine microsatellite markers have been isolated from the scab mite,Psoroptes ovis. These markers have been tested for polymorphism in individual Psoroptes mites originating from two hosts, the European rabbit, Oryctolagus cuniculus, and sheep, Ovis aries. No definitive picture of Psoroptes species’ status or interrelationships exists. This study provides the basis for a new molecular system to elucidate the systematics of groupings within the genus Psoroptes, allowing us to clarify the population dynamics and epidemiology of the mites causing sheep scab world wide

Isolation of 39 polymorphic microsatellite loci and the development of a fluorescently labelled marker set for the Eurasian badger

We have isolated 78 microsatellite loci from the Eurasian badger (Meles meles). Of the 52 loci characterized, 39 were found to be polymorphic. A fluorescently labelled primer set was developed to enable individual-specific 17-locus genotypes to be obtained efficiently

A comparison of SNPs and microsatellites as linkage mapping markers: lessons from the zebra finch (Taeniopygia guttata)

Background: Genetic linkage maps are essential tools when searching for quantitative trait loci (QTL). To maximize genome coverage and provide an evenly spaced marker distribution a combination of different types of genetic marker are sometimes used. In this study we created linkage maps of four zebra finch (Taeniopygia guttata) chromosomes (1, 1A, 2 and 9) using two types of marker, Single Nucleotide Polymorphisms (SNPs) and microsatellites. To assess the effectiveness and accuracy of each kind of marker we compared maps built with each marker type separately and with both types of marker combined. Linkage map marker order was validated by making comparisons to the assembled zebra finch genome sequence. Results: We showed that marker order was less reliable and linkage map lengths were inflated for microsatellite maps relative to SNP maps, apparently due to differing error rates between the two types of marker. Guidelines on how to minimise the effects of error are provided. In particular, we show that when combining both types of marker the conventional process of building linkage maps, whereby the most informative markers are added to the map first, has to be modified in order to improve map accuracy. Conclusions: When using multiple types and large numbers of markers to create dense linkage maps, the least error prone loci (SNPs) rather than the most informative should be used to create framework maps before the addition of other potentially more error prone markers (microsatellites). This raises questions about the accuracy of marker order and predicted recombination rates in previous microsatellite linkage maps which were created using the conventional building process, however, provided suitable error detection strategies are followed microsatellite-based maps can continue to be regarded as reasonably reliable

A critique of avian CHD-based molecular sexing protocols illustrated by a Z-chromosome polymorphism detected in auklets

The sexes of non-ratite birds can be determined routinely by PCR amplification of the CHD-Z and CHD-W genes. CHD -based molecular sexing of four species of auklets revealed the presence of a polymorphism in the Z chromosome. No deviation from a 1:1 sex ratio was observed among the chicks, though the analyses were of limited power. Polymorphism in the CHD-Z gene has not been reported previously in any bird, but if undetected it could lead to the incorrect assignment of sex. We discuss the potential difficulties caused by a polymorphism such as that identified in auklets and the merits of alternative CHD -based sexing protocols and primers

A demand-driven approach for a multi-agent system in Supply Chain Management

This paper presents the architecture of a multi-agent decision support system for Supply Chain Management (SCM) which has been designed to compete in the TAC SCM game. The behaviour of the system is demand-driven and the agents plan, predict, and react dynamically to changes in the market. The main strength of the system lies in the ability of the Demand agent to predict customer winning bid prices - the highest prices the agent can offer customers and still obtain their orders. This paper investigates the effect of the ability to predict customer order prices on the overall performance of the system. Four strategies are proposed and compared for predicting such prices. The experimental results reveal which strategies are better and show that there is a correlation between the accuracy of the models' predictions and the overall system performance: the more accurate the prediction of customer order prices, the higher the profit. © 2010 Springer-Verlag Berlin Heidelberg

The genetic structure of Nautilus pompilius populations surrounding Australia and the Philippines.

Understanding the distribution of genetic diversity in exploited species is fundamental to successful conservation. Genetic structure and the degree of gene flow among populations must be assessed to design appropriate strategies to prevent the loss of distinct populations. The cephalopod Nautilus pompilius is fished unsustainably in the Philippines for the ornamental shell trade and has limited legislative protection, despite the species' recent dramatic decline in the region. Here, we use 14 microsatellite markers to evaluate the population structure of N. pompilius around Australia and the Philippines. Despite their relative geographical proximity, Great Barrier Reef individuals are genetically isolated from Osprey Reef and Shark Reef in the Coral Sea (FST =0.312, 0.229, respectively). Conversely, despite the larger geographical distances between the Philippines and west Australian reefs, samples display a small degree of genetic structure (FST =0.015). Demographic scenarios modelled using approximate Bayesian computation analysis indicate that this limited divergence is not due to contemporary gene flow between the Philippines and west Australia. Instead, present-day genetic similarity can be explained by very limited genetic drift that has occurred due to large average effective population sizes that persisted at both locations following their separation. The lack of connectivity among populations suggests that immigrants from west Australia would not facilitate natural recolonization if Philippine populations were fished to extinction. These data help to rectify the paucity of information on the species' biology currently inhibiting their conservation classification. Understanding population structure can allow us to facilitate sustainable harvesting, thereby preserving the diversity of genetically distinct stocks. This article is protected by copyright. All rights reserved

Parnassius apollo nevadensis: identification of recent population structure and source–sink dynamics

Population persistence depends in many cases on gene flow between local populations. Parnassius apollo nevadensis is an endemic subspecies of Apollo butterfly in the Sierra Nevada (southern Spain), whose populations are distributed in discrete patches at altitudes between 1850 and 2700 m. In this paper, we use 13 microsatellite loci to examine the genetic structure of this P. apollo subspecies. We revealed both a strong pattern of isolation by distance (which was stronger when calculated with realistic travel distances that accounted for topography) and source–sink dynamics. The observed population genetic structure is consistent with strongly asymmetrical gene flow, leading to constant directional migration and differential connectivity among the populations. The apparently contradictory results from the clustering algorithms (Structure and Geneland) are also consistent with a recent (<100 ya) reduction in the distribution range. The results point to global warming as a possible cause of this reduction, as in other populations of this species. We identify some natural and anthropogenic barriers to gene flow that may be the cause of the recent population structure and source–sink dynamics

Levels of extra-pair paternity are associated with parental care in penduline tits (Remizidae)

In most passerine birds, individuals attempt to maximise their fitness by providing parental care while also mating outside their pair bond. A sex-specific trade-off between these two behaviours is predicted to occur since the fitness benefits of extra-pair mating differs between the sexes. We use nest observations and parentage analysis to reveal a negative association between male care and the incidence of extra-pair paternity across three species of penduline tit (Remizidae)

Geometrothermodynamics of black holes

The thermodynamics of black holes is reformulated within the context of the recently developed formalism of geometrothermodynamics. This reformulation is shown to be invariant with respect to Legendre transformations, and to allow several equivalent representations. Legendre invariance allows us to explain a series of contradictory results known in the literature from the use of Weinhold's and Ruppeiner's thermodynamic metrics for black holes. For the Reissner-Nordstr\"om black hole the geometry of the space of equilibrium states is curved, showing a non trivial thermodynamic interaction, and the curvature contains information about critical points and phase transitions. On the contrary, for the Kerr black hole the geometry is flat and does not explain its phase transition structure.Comment: Revised version, to be published in Gen.Rel.Grav.(Mashhoon's Festschrift

Quantum random walks in optical lattices

We propose an experimental realization of discrete quantum random walks using neutral atoms trapped in optical lattices. The random walk is taking place in position space and experimental implementation with present day technology --even using existing set-ups-- seems feasible. We analyze the influence of possible imperfections in the experiment and investigate the transition from a quantum random walk to the classical random walk for increasing errors and decoherence.Comment: 8 pages, 4 figure