Computational models in plant-pathogen interactions: the case of Phytophthora infestans

<p>Abstract</p> <p>Background</p> <p><it>Phytophthora infestans </it>is a devastating oomycete pathogen of potato production worldwide. This review explores the use of computational models for studying the molecular interactions between <it>P. infestans </it>and one of its hosts, <it>Solanum tuberosum</it>.</p> <p>Modeling and conclusion</p> <p>Deterministic logistics models have been widely used to study pathogenicity mechanisms since the early 1950s, and have focused on processes at higher biological resolution levels. In recent years, owing to the availability of high throughput biological data and computational resources, interest in stochastic modeling of plant-pathogen interactions has grown. Stochastic models better reflect the behavior of biological systems. Most modern approaches to plant pathology modeling require molecular kinetics information. Unfortunately, this information is not available for many plant pathogens, including <it>P. infestans</it>. Boolean formalism has compensated for the lack of kinetics; this is especially the case where comparative genomics, protein-protein interactions and differential gene expression are the most common data resources.</p

On the cooperative nature of the β-process in neat and binary glasses: A dielectric and nuclear magnetic resonance spectroscopy study

By means of dielectric as well as 2H and 31P nuclear magnetic resonance spectroscopy (NMR) the component dynamics of the binary glass tripropyl phosphate (TPP)/polystyrene (PS/PS-d3) is selectively investigated for concentrations distributed over the full range. We study the secondary (β-) relaxation below Tg, which is found in all investigated samples containing TPP, but not in neat polystyrene. The dielectric spectrum of the β-process is described by an asymmetric distribution of activation energies, essentially not changing in the entire concentration regime; its most probable value is E/k ≅ 24 Tg. Persistence of the β-process is confirmed by 31P NMR Hahn-echo and spinlattice relaxation experiments on TPP, which identify the nature of the β-process as being highly spatially hindered as found for other (neat) glasses studied previously, or re-investigated within this work. The corresponding 2H NMR experiments on PS-d3 confirm the absence of a β-process in neat PS-d3, but reveal a clear signature of a β-process in the mixture, i.e., polystyrene monomers perform essentially the same type of secondary relaxation as the TPP molecules. Yet, there are indications that some fractions of PS-d3 as well as TPP molecules become immobilized in the mixture in contrast to the case of neat glasses. We conclude that in a binary glass the β-process introduced by one component induces a highly similar motion in the second component, and this may be taken as an indication of its cooperative nature. © 2013 AIP Publishing LLC

Shifting sands? Coastal protection by sand banks, beaches and dunes

In a closely integrated system, (sub-) littoral sandy sediments, sandy beaches, and sand dunes offer natural coastal protection for a host of environmentally and economically important areas and activities inland. Flooding and coastal erosion pose a serious threat to these environments, a situation likely to be exacerbated by factors associatedwith climate change. Despite their importance, these sandy ‘soft’ defences have been lost from many European coasts through the proliferation of coastal development and associated hard-engineering and face further losses due to sea-level rise, subsidence, storm surge events, and coastal squeeze. As part of the EU-funded THESEUS project we investigated the critical drivers that determine the persistence and maintenance of sandy coastal habitats around Europe's coastline, taking particular interest in their close link with the biological communities that inhabit them. The successful management of sandy beaches to restore and sustain sand budgets (e.g. via nourishment), depends on the kind of mitigation undertaken, local beach characteristics, and on the source of ‘borrowed’ sediment. We found that inter-tidal invertebrates were good indicators of changes linked to different mitigation options. For sand dunes, field observations and manipulative experiments investigated different approaches to create new dune systems, in addition to measures employed to improve dune stabilisation. THESEUS provides a ‘toolbox’ of management strategies to aid the management, restoration, and creation of sandy habitats along our coastlines, butwe note that futuremanagementmust consider the connectivity of sub-littoral and supra-littoral sandy habitats in order to use this natural shoreline defence more effectivel

C.: Shifting sands? Coastal protection by sand banks, beaches and dunes

In a closely integrated system, (sub-) littoral sandy sediments, sandy beaches, and sand dunes offer natural coastal protection for a host of environmentally and economically important areas and activities inland. Flooding and coastal erosion pose a serious threat to these environments, a situation likely to be exacerbated by factors associated with climate change. Despite their importance, these sandy &apos;soft&apos; defences have been lost from many European coasts through the proliferation of coastal development and associated hard-engineering and face further losses due to sea-level rise, subsidence, storm surge events, and coastal squeeze. As part of the EU-funded THESEUS project we investigated the critical drivers that determine the persistence and maintenance of sandy coastal habitats around Europe&apos;s coastline, taking particular interest in their close link with the biological communities that inhabit them. The successful management of sandy beaches to restore and sustain sand budgets (e.g. via nourishment), depends on the kind of mitigation undertaken, local beach characteristics, and on the source of &apos;borrowed&apos; sediment. We found that inter-tidal invertebrates were good indicators of changes linked to different mitigation options. For sand dunes, field observations and manipulative experiments investigated different approaches to create new dune systems, in addition to measures employed to improve dune stabilisation. THESEUS provides a &apos;toolbox&apos; of management strategies to aid the management, restoration, and creation of sandy habitats along our coastlines, but we note that future management must consider the connectivity of sub-littoral and supra-littoral sandy habitats in order to use this natural shoreline defence more effectively