Mergers and acquisitions: malaria and the great chloroplast heist

The origin of the relict chloroplast recently identified in malarial parasites has been mysterious. Several new papers suggest that the parasites obtained their chloroplasts in an ancient endosymbiotic event that also created some major algal groups

Constraining holographic inflation with WMAP

In a class of recently proposed models, the early universe is strongly coupled and described holographically by a three-dimensional, weakly coupled, super-renormalizable quantum field theory. This scenario leads to a power spectrum of scalar perturbations that differs from the usual empirical LCDM form and the predictions of generic models of single field, slow roll inflation. This spectrum is characterized by two parameters: an amplitude, and a parameter g related to the coupling constant of the dual theory. We estimate these parameters, using WMAP and other astrophysical data. We compute Bayesian evidence for both the holographic model and standard LCDM and find that their difference is not significant, although LCDM provides a somewhat better fit to the data. However, it appears that Planck will permit a definitive test of this holographic scenario.Comment: 24 pages, 9 figs, published versio

Effective Actions for Heterotic M-Theory

We discuss the moduli space approximation for heterotic M-theory, both for the minimal case of two boundary branes only, and when a bulk brane is included. The resulting effective actions may be used to describe the cosmological dynamics in the regime where the branes are moving slowly, away from singularities. We make use of the recently derived colliding branes solution to determine the global structure of moduli space, finding a boundary at which the trajectories undergo a hard wall reflection. This has important consequences for the allowed moduli space trajectories, and for the behaviour of cosmological perturbations in the model.Comment: 21 pages, 4 figures. References added and some discussions clarifie

Holographic predictions for cosmological 3-point functions

We present the holographic predictions for cosmological 3-point correlators, involving both scalar and tensor modes, for a universe which started in a non-geometric holographic phase. Holographic formulae relate the cosmological 3-point functions to stress tensor correlation functions of a holographically dual three-dimensional non-gravitational QFT. We compute these correlators at 1-loop order for a theory containing massless scalars, fermions and gauge fields, and present an extensive analysis of the constraints due to Ward identities showing that they uniquely determine the correlators up to a few constants. We define shapes for all cosmological bispectra and compare the holographic shapes to the slow-roll ones, finding that some are distinguishable while others, perhaps surprisingly, are not.Comment: 51pp; 4 fig

Holographic Non-Gaussianity

We investigate the non-Gaussianity of primordial cosmological perturbations within our recently proposed holographic description of inflationary universes. We derive a holographic formula that determines the bispectrum of cosmological curvature perturbations in terms of correlation functions of a holographically dual three-dimensional non-gravitational quantum field theory (QFT). This allows us to compute the primordial bispectrum for a universe which started in a non-geometric holographic phase, using perturbative QFT calculations. Strikingly, for a class of models specified by a three-dimensional super-renormalisable QFT, the primordial bispectrum is of exactly the factorisable equilateral form with f_nl^eq=5/36, irrespective of the details of the dual QFT. A by-product of this investigation is a holographic formula for the three-point function of the trace of the stress-energy tensor along general holographic RG flows, which should have applications outside the remit of this work.Comment: 42 pages, 2 figs, published versio

The Holographic Universe

We present a holographic description of four-dimensional single-scalar inflationary universes in terms of a three-dimensional quantum field theory. The holographic description correctly reproduces standard inflationary predictions in their regime of applicability. In the opposite case, wherein gravity is strongly coupled at early times, we propose a holographic description in terms of perturbative QFT and present models capable of satisfying the current observational constraints while exhibiting a phenomenology distinct from standard inflation. This provides a qualitatively new method for generating a nearly scale-invariant spectrum of primordial cosmological perturbations.Comment: 20 pages, 5 figs; extended version of arXiv:0907.5542 including background material and detailed derivations. To appear in Proceedings of 1st Mediterranean Conference on Classical and Quantum Gravit

The Import of Proteins into the Mitochondrion of Toxoplasma gondii

Outside of well characterized model eukaryotes, relatively little is known about the translocons that transport proteins across the two membranes that surround the mitochondrion. Apicomplexans are a phylum of intracellular parasites that cause major diseases in humans and animals and are evolutionarily distant from model eukaryotes such as yeast. Apicomplexans harbor a mitochondrion that is essential for parasite survival and is a validated drug target. Here, we demonstrate that the apicomplexan Toxoplasma gondii harbors homologues of proteins from all the major mitochondrial protein translocons present in yeast, suggesting these arose early in eukaryotic evolution. We demonstrate that a T. gondii homologue of Tom22 (TgTom22), a central component of the translocon of the outer mitochondrial membrane (TOM) complex, is essential for parasite survival, mitochondrial protein import, and assembly of the TOM complex. We also identify and characterize a T. gondii homologue of Tom7 (TgTom7) that is important for parasite survival and mitochondrial protein import. Contrary to the role of Tom7 in yeast, TgTom7 is important for TOM complex stability, suggesting the role of this protein has diverged during eukaryotic evolution. Together, our study identifies conserved and modified features of mitochondrial protein import in apicomplexan parasites

Recurrent triploidy due to a failure to complete maternal meiosis II: whole-exome sequencing reveals candidate variants

Triploidy is a relatively common cause of miscarriage; however, recurrent triploidy has rarely been reported. A healthy 34-year-old woman was ascertained because of 18 consecutive miscarriages with triploidy found in all 5 karyotyped losses. Molecular results in a sixth loss were also consistent with triploidy. Genotyping of markers near the centromere on multiple chromosomes suggested that all six triploid conceptuses occurred as a result of failure to complete meiosis II (MII). The proband's mother had also experienced recurrent miscarriage, with a total of 18 miscarriages. Based on the hypothesis that an inherited autosomal-dominant maternal predisposition would explain the phenotype, whole-exome sequencing of the proband and her parents was undertaken to identify potential candidate variants. After filtering for quality and rarity, potentially damaging variants shared between the proband and her mother were identified in 47 genes. Variants in genes coding for proteins implicated in oocyte maturation, oocyte activation or polar body extrusion were then prioritized. Eight of the most promising candidate variants were confirmed by Sanger sequencing. These included a novel change in the PLCD4 gene, and a rare variant in the OSBPL5 gene, which have been implicated in oocyte activation upon fertilization and completion of MII. Several variants in genes coding proteins playing a role in oocyte maturation and early embryonic development were also identified. The genes identified may be candidates for the study in other women experiencing recurrent triploidy or recurrent IVF failur

Universality of Cluster Dynamics

We have studied the kinetics of cluster formation for dynamical systems of dimensions up to $n=8$ interacting through elastic collisions or coalescence. These systems could serve as possible models for gas kinetics, polymerization and self-assembly. In the case of elastic collisions, we found that the cluster size probability distribution undergoes a phase transition at a critical time which can be predicted from the average time between collisions. This enables forecasting of rare events based on limited statistical sampling of the collision dynamics over short time windows. The analysis was extended to L$^p$-normed spaces ($p=1,...,\infty$) to allow for some amount of interpenetration or volume exclusion. The results for the elastic collisions are consistent with previously published low-dimensional results in that a power law is observed for the empirical cluster size distribution at the critical time. We found that the same power law also exists for all dimensions $n=2,...,8$, 2D L$^p$ norms, and even for coalescing collisions in 2D. This broad universality in behavior may be indicative of a more fundamental process governing the growth of clusters