235 research outputs found
Cauliflower mosaic virus protein P6 inhibits signaling responses to salicylic acid and regulates innate immunity
Cauliflower mosaic virus (CaMV) encodes a multifunctional protein P6 that is required for translation of the 35S RNA and also acts as a suppressor of RNA silencing. Here we demonstrate that P6 additionally acts as a pathogenicity effector of an unique and novel type, modifying NPR1 (a key regulator of salicylic acid (SA)- and jasmonic acid (JA)-dependent signaling) and inhibiting SA-dependent defence responses We find that that transgene-mediated expression of P6 in Arabidopsis and transient expression in Nicotiana benthamiana has profound effects on defence signaling, suppressing expression of representative SA-responsive genes and increasing expression of representative JA-responsive genes. Relative to wild-type Arabidopsis P6-expressing transgenics had greatly reduced expression of PR-1 following SA-treatment, infection by CaMV or inoculation with an avirulent bacterial pathogen Pseudomonas syringae pv tomato (Pst). Similarly transient expression in Nicotiana benthamiana of P6 (including a mutant form defective in translational transactivation activity) suppressed PR-1a transcript accumulation in response to Agrobacterium infiltration and following SA-treatment. As well as suppressing the expression of representative SA-regulated genes, P6-transgenic Arabidopsis showed greatly enhanced susceptibility to both virulent and avirulent Pst (titres elevated 10 to 30-fold compared to non-transgenic controls) but reduced susceptibility to the necrotrophic fungus Botrytis cinerea. Necrosis following SA-treatment or inoculation with avirulent Pst was reduced and delayed in P6-transgenics. NPR1 an important regulator of SA/JA crosstalk, was more highly expressed in the presence of P6 and introduction of the P6 transgene into a transgenic line expressing an NPR1:GFP fusion resulted in greatly increased fluorescence in nuclei even in the absence of SA. Thus in the presence of P6 an inactive form of NPR1 is mislocalized in the nucleus even in uninduced plants. These results demonstrate that P6 is a new type of pathogenicity effector protein that enhances susceptibility to biotrophic pathogens by suppressing SA- but enhancing JA-signaling responses
Observational diagnostics of gas in protoplanetary disks
Protoplanetary disks are composed primarily of gas (99% of the mass).
Nevertheless, relatively few observational constraints exist for the gas in
disks. In this review, I discuss several observational diagnostics in the UV,
optical, near-IR, mid-IR, and (sub)-mm wavelengths that have been employed to
study the gas in the disks of young stellar objects. I concentrate in
diagnostics that probe the inner 20 AU of the disk, the region where planets
are expected to form. I discuss the potential and limitations of each gas
tracer and present prospects for future research.Comment: Review written for the proceedings of the conference "Origin and
Evolution of Planets 2008", Ascona, Switzerland, June 29 - July 4, 2008. Date
manuscript: October 2008. 17 Pages, 6 graphics, 134 reference
Colonic fermentation – more than meets the nose
Fermentation of undigested foods in the colon by its resident bacteria affects not only colonic health (protection against inflammation and tumour formation) but also influences metabolic health. Studying fermentation directly is difficult for lack of access. We hypothesise that the anatomical structure of the colon is suited to act as a fermenting chamber with the gaseous molecules (VOCs) emitted having direct effects on the colonocytes as well as gut neural and metabolic effects. We refer to this complex system as the ‘fermentome’, and further hypothesise that alteration in the ‘fermentome’ through dietary modification will have a direct impact on colonic as well as metabolic health and disease. The VOCs emitted may play a role in bacterial chemical signalling within the colon but importantly could also function as a ‘gas’ biomarker. Measurement of such VOCs through non-invasive methods would have important application as a hypothesis-generating tool with subsequent clinical application
Bose-Einstein condensates in a one-dimensional double square well: Analytical solutions of the Nonlinear Schr\"odinger equation and tunneling splittings
We present a representative set of analytic stationary state solutions of the
Nonlinear Schr\"odinger equation for a symmetric double square well potential
for both attractive and repulsive nonlinearity. In addition to the usual
symmetry preserving even and odd states, nonlinearity introduces quite exotic
symmetry breaking solutions - among them are trains of solitons with different
number and sizes of density lumps in the two wells. We use the symmetry
breaking localized solutions to form macroscopic quantum superpositions states
and explore a simple model for the exponentially small tunneling splitting.Comment: 11 pages, 11 figures, revised version, typos and references correcte
Computational and Biological Analogies for Understanding Fine-Tuned Parameters in Physics
In this philosophical paper, we explore computational and biological
analogies to address the fine-tuning problem in cosmology. We first clarify
what it means for physical constants or initial conditions to be fine-tuned. We
review important distinctions such as the dimensionless and dimensional
physical constants, and the classification of constants proposed by
Levy-Leblond. Then we explore how two great analogies, computational and
biological, can give new insights into our problem. This paper includes a
preliminary study to examine the two analogies. Importantly, analogies are both
useful and fundamental cognitive tools, but can also be misused or
misinterpreted. The idea that our universe might be modelled as a computational
entity is analysed, and we discuss the distinction between physical laws and
initial conditions using algorithmic information theory. Smolin introduced the
theory of "Cosmological Natural Selection" with a biological analogy in mind.
We examine an extension of this analogy involving intelligent life. We discuss
if and how this extension could be legitimated.
Keywords: origin of the universe, fine-tuning, physical constants, initial
conditions, computational universe, biological universe, role of intelligent
life, cosmological natural selection, cosmological artificial selection,
artificial cosmogenesis.Comment: 25 pages, Foundations of Science, in pres
Relating the microscopic rules in coalescence-fragmentation models to the macroscopic cluster size distributions which emerge
Coalescence-fragmentation problems are of great interest across the physical,
biological, and recently social sciences. They are typically studied from the
perspective of the rate equations, at the heart of such models are the rules
used for coalescence and fragmentation. Here we discuss how changes in these
microscopic rules affect the macroscopic cluster-size distribution which
emerges from the solution to the rate equation. More generally, our work
elucidates the crucial role that the fragmentation rule can play in such
dynamical grouping models. We focus on two well-known models whose
fragmentation rules lie at opposite extremes setting the models within the
broader context of binary coalescence-fragmentation models. Further, we provide
a range of generalizations and new analytic results for a well-known model of
social group formation [V. M. Eguiluz and M. G. Zimmermann, Phys. Rev. Lett.
85, 5659 (2000)]. We develop analytic perturbation treatment of the original
model, and extend the mathematical to the treatment of growing and declining
populations
The composition of the protosolar disk and the formation conditions for comets
Conditions in the protosolar nebula have left their mark in the composition
of cometary volatiles, thought to be some of the most pristine material in the
solar system. Cometary compositions represent the end point of processing that
began in the parent molecular cloud core and continued through the collapse of
that core to form the protosun and the solar nebula, and finally during the
evolution of the solar nebula itself as the cometary bodies were accreting.
Disentangling the effects of the various epochs on the final composition of a
comet is complicated. But comets are not the only source of information about
the solar nebula. Protostellar disks around young stars similar to the protosun
provide a way of investigating the evolution of disks similar to the solar
nebula while they are in the process of evolving to form their own solar
systems. In this way we can learn about the physical and chemical conditions
under which comets formed, and about the types of dynamical processing that
shaped the solar system we see today.
This paper summarizes some recent contributions to our understanding of both
cometary volatiles and the composition, structure and evolution of protostellar
disks.Comment: To appear in Space Science Reviews. The final publication is
available at Springer via http://dx.doi.org/10.1007/s11214-015-0167-
Milagro limits and HAWC sensitivity for the rate-density of evaporating Primordial Black Holes
postprin
Identification of new susceptibility loci for osteoarthritis (arcOGEN):a genome-wide association study
To access publisher's full text version of this article. Please click on the hyperlink in Additional Links field.Osteoarthritis is the most common form of arthritis worldwide and is a major cause of pain and disability in elderly people. The health economic burden of osteoarthritis is increasing commensurate with obesity prevalence and longevity. Osteoarthritis has a strong genetic component but the success of previous genetic studies has been restricted due to insufficient sample sizes and phenotype heterogeneity. We undertook a large genome-wide association study (GWAS) in 7410 unrelated and retrospectively and prospectively selected patients with severe osteoarthritis in the arcOGEN study, 80% of whom had undergone total joint replacement, and 11,009 unrelated controls from the UK. We replicated the most promising signals in an independent set of up to 7473 cases and 42,938 controls, from studies in Iceland, Estonia, the Netherlands, and the UK. All patients and controls were of European descent. We identified five genome-wide significant loci (binomial test p≤5·0×10(-8)) for association with osteoarthritis and three loci just below this threshold. The strongest association was on chromosome 3 with rs6976 (odds ratio 1·12 [95% CI 1·08-1·16]; p=7·24×10(-11)), which is in perfect linkage disequilibrium with rs11177. This SNP encodes a missense polymorphism within the nucleostemin-encoding gene GNL3. Levels of nucleostemin were raised in chondrocytes from patients with osteoarthritis in functional studies. Other significant loci were on chromosome 9 close to ASTN2, chromosome 6 between FILIP1 and SENP6, chromosome 12 close to KLHDC5 and PTHLH, and in another region of chromosome 12 close to CHST11. One of the signals close to genome-wide significance was within the FTO gene, which is involved in regulation of bodyweight-a strong risk factor for osteoarthritis. All risk variants were common in frequency and exerted small effects. Our findings provide insight into the genetics of arthritis and identify new pathways that might be amenable to future therapeutic intervention.Arthritis Research UK
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