Putative ligand binding sites of two functionally characterized bark beetle odorant receptors

Background: Bark beetles are major pests of conifer forests, and their behavior is primarily mediated via olfaction. Targeting the odorant receptors (ORs) may thus provide avenues towards improved pest control. Such an approach requires information on the function of ORs and their interactions with ligands, which is also essential for understanding the functional evolution of these receptors. Hence, we aimed to identify a high-quality complement of ORs from the destructive spruce bark beetle Ips typographus (Coleoptera, Curculionidae, Scolytinae) and analyze their antennal expression and phylogenetic relationships with ORs from other beetles. Using 68 biologically relevant test compounds, we next aimed to functionally characterize ecologically important ORs, using two systems for heterologous expression. Our final aim was to gain insight into the ligand-OR interaction of the functionally characterized ORs, using a combination of computational and experimental methods. Results: We annotated 73 ORs from an antennal transcriptome of I. typographus and report the functional characterization of two ORs (ItypOR46 and ItypOR49), which are responsive to single enantiomers of the common bark beetle pheromone compounds ipsenol and ipsdienol, respectively. Their responses and antennal expression correlate with the specificities, localizations, and/or abundances of olfactory sensory neurons detecting these enantiomers. We use homology modeling and molecular docking to predict their binding sites. Our models reveal a likely binding cleft lined with residues that previously have been shown to affect the responses of insect ORs. Within this cleft, the active ligands are predicted to specifically interact with residues Tyr84 and Thr205 in ItypOR46. The suggested importance of these residues in the activation by ipsenol is experimentally supported through site-directed mutagenesis and functional testing, and hydrogen bonding appears key in pheromone binding. Conclusions: The emerging insight into ligand binding in the two characterized ItypORs has a general importance for our understanding of the molecular and functional evolution of the insect OR gene family. Due to the ecological importance of the characterized receptors and widespread use of ipsenol and ipsdienol in bark beetle chemical communication, these ORs should be evaluated for their potential use in pest control and biosensors to detect bark beetle infestations

Optimisation of Mobile Communication Networks - OMCO NET

The mini conference “Optimisation of Mobile Communication Networks” focuses on advanced methods for search and optimisation applied to wireless communication networks. It is sponsored by Research & Enterprise Fund Southampton Solent University. The conference strives to widen knowledge on advanced search methods capable of optimisation of wireless communications networks. The aim is to provide a forum for exchange of recent knowledge, new ideas and trends in this progressive and challenging area. The conference will popularise new successful approaches on resolving hard tasks such as minimisation of transmit power, cooperative and optimal routing

Ant-inspired Interaction Networks For Decentralized Vehicular Traffic Congestion Control

Mimicking the autonomous behaviors of animals and their adaptability to changing or foreign environments lead to the development of swarm intelligence techniques such as ant colony optimization (ACO) and particle swarm optimization (PSO) now widely used to tackle a variety of optimization problems. The aim of this dissertation is to develop an alternative swarm intelligence model geared toward decentralized congestion avoidance and to determine qualities of the model suitable for use in a transportation network. A microscopic multi-agent interaction network inspired by insect foraging behaviors, especially ants, was developed and consequently adapted to prioritize the avoidance of congestion, evaluated as perceived density of other agents in the immediate environment extrapolated from the occurrence of direct interactions between agents, while foraging for food outside the base/nest. The agents eschew pheromone trails or other forms of stigmergic communication in favor of these direct interactions whose rate is the primary motivator for the agents\u27 decision making process. The decision making process at the core of the multi-agent interaction network is consequently transferred to transportation networks utilizing vehicular ad-hoc networks (VANETs) for communication between vehicles. Direct interactions are replaced by dedicated short range communications for wireless access in vehicular environments (DSRC/WAVE) messages used for a variety of applications like left turn assist, intersection collision avoidance, or cooperative adaptive cruise control. Each vehicle correlates the traffic on the wireless network with congestion in the transportation network and consequently decides whether to reroute and, if so, what alternate route to take in a decentralized, non-deterministic manner. The algorithm has been shown to increase throughput and decrease mean travel times significantly while not requiring access to centralized infrastructure or up-to-date traffic information

Modelling fungal colonies and communities:challenges and opportunities

This contribution, based on a Special Interest Group session held during IMC9, focuses on physiological based models of filamentous fungal colony growth and interactions. Fungi are known to be an important component of ecosystems, in terms of colony dynamics and interactions within and between trophic levels. We outline some of the essential components necessary to develop a fungal ecology: a mechanistic model of fungal colony growth and interactions, where observed behaviour can be linked to underlying function; a model of how fungi can cooperate at larger scales; and novel techniques for both exploring quantitatively the scales at which fungi operate; and addressing the computational challenges arising from this highly detailed quantification. We also propose a novel application area for fungi which may provide alternate routes for supporting scientific study of colony behaviour. This synthesis offers new potential to explore fungal community dynamics and the impact on ecosystem functioning

Description and composition of bio-inspired design patterns: a complete overview

In the last decade, bio-inspired self-organising mechanisms have been applied to different domains, achieving results beyond traditional approaches. However, researchers usually use these mechanisms in an ad-hoc manner. In this way, their interpretation, definition, boundary (i.e. when one mechanism stops, and when another starts), and implementation typically vary in the existing literature, thus preventing these mechanisms from being applied clearly and systematically to solve recurrent problems. To ease engineering of artificial bio-inspired systems, this paper describes a catalogue of bio-inspired mechanisms in terms of modular and reusable design patterns organised into different layers. This catalogue uniformly frames and classifies a variety of different patterns. Additionally, this paper places the design patterns inside existing self-organising methodologies and hints for selecting and using a design patter

Computational intelligence approaches to robotics, automation, and control [Volume guest editors]

No abstract available

On the role of stigmergy in cognition

Cognition in animals is produced by the self- organized activity of mutually entrained body and brain. Given that stigmergy plays a major role in self-organization of societies, we identify stigmergic behavior in cognitive systems, as a common mechanism ranging from brain activity to social systems. We analyze natural societies and artificial systems exploiting stigmergy to produce cognition. Several authors have identified the importance of stigmergy in the behavior and cognition of social systems. However, the perspective of stigmergy playing a central role in brain activity is novel, to the best of our knowledge. We present several evidences of such processes in the brain and discuss their importance in the formation of cognition. With this we try to motivate further research on stigmergy as a relevant component for intelligent systems.info:eu-repo/semantics/acceptedVersio

Genetic stigmergy: Framework and applications

Stigmergy has long been studied and recognized as an effective system for self-organization among social insects. Through the use of chemical agents known as pheromones, insect colonies are capable of complex collective behavior often beyond the scope of an individual agent. In an effort to develop human-made systems with the same robustness, scientists have created artificial analogues of pheromone-based stigmergy, but these systems often suffer from scalability and complexity issues due to the problems associated with mimicking the physics of pheromone diffusion. In this thesis, an alternative stigmergic framework called \u27Genetic Stigmergy\u27 is introduced. Using this framework, agents can indirectly share entire behavioral algorithms instead of pheromone traces that are limited in information content. The genetic constructs used in this framework allow for new avenues of research, including real-time evolution and adaptation of agents to complex environments. As a nascent test of its potential, experiments are performed using genetic stigmergy as an indirect communication framework for a simulated swarm of robots tasked with mapping an unknown environment. The robots are able to share their behavioral genes through environmentally distributed Radio-Frequency Identification cards. It was found that robots using a schema encouraging them to adopt lesser used behavioral genes (corresponding with novelty in exploration strategies) can generally cover more of an environment than agents who randomly switch their genes, but only if the environmental complexity is not too high. While the performance improvement is not statistically significant enough to clearly establish genetic stigmergy as a superior alternative to pheromonal-based artificial stigmergy, it is enough to warrant further research to develop its potential

Gamete differentiation : a genetic, biochemical and evolutionary study using Ectocarpus siliculosus

Despite its prevalence among eukaryotes, there are still many questions awaiting answers and plenty of discoveries to be made with regard to the mechanisms and maintenance of sexual reproduction. Brown algae (Phaeophyceae) represent a very interesting group to study the evolution of sexual reproduction, owing to the rich variation of life cycles, fertilization modes and sex determination systems displayed by this lineage. Particularly unique are various degrees of sexual dimorphism between gametes of closely related species, ranging from isogamy through anisogamy to oogamy. Therefore, the opportunity to compare these systems on the molecular level in Phaeophyceae promises advancement in our understanding of the evolution of sexual reproduction not only in algae, but in all living organisms. In this thesis we investigated the molecular basis of sexual reproduction and its link to reproductive isolation using a brown algal model organism Ectocarpus siliculosus. We constructed whole transcriptome libraries of male and female gametes to explore their functional differentiation at the gene expression level. We sequenced sex biased genes in a representative number of strains from distant geographical locations and varying stages of reproductive isolation, to search for signatures of positive selection. This thesis has offered the first insight into protist gametes transcriptomes, revealing complex, functional organization and differentiation according to the adopted sexual roles, as well as evolutionary variation of sex biased genes. Our study supports the relevance of algal systems in the research of sexual reproduction and provides a starting point for more exciting discoveries in that field