Characterization of cucumber mosaic virus isolated from yam (Dioscorea spp.) in West Africa

Millions of people in the West African sub-region depend on yam for food and income. In 2008, cucumber mosaic virus (CMV), one of the most economically important plant viruses was detected in yam fields in Ghana, Benin and Togo, three of the five topmost yam producing countries in the world. Some strains of CMV are reportedly more virulent than others thus the need to characterise the strain isolated from yam. Sap inoculation of the yam strain induced systemic mosaic on Cucumis sativus and systemic chlorosis, necrotic lesions and leaf distortion on Nicotiana glutinosa. Sequence analysis of the 3' end of the coat protein gene and C-terminal noncoding region revealed 98 to 99, 93 to 98 and 78 to 79% nucleotide homology with members of the subgroups IA, IB and II, respectively. This analysis further revealed the absence of the EcoR1 restriction site characteristic of subgroup II strains and the presence of 15 nucleotide deletions dispersed along the C-terminal noncoding region of subgroup IA strains. At the amino acid level, the virus had 99 to 100% homology with subgroup I strains and 89% homology with subgroup II strains. Phylogenetic analysis of the amino acid confirms that the yam strain of CMV belongs to subgroup I while nucleotide sequence phylogeny confirms its placement in subgroup IA.Keywords: Yam viruses, cucumber mosaic virus, sequence analysisAfrican Journal of Biotechnology Vol. 12(22), pp. 3472-348

Static Charges in the Low-Energy Theory of the S-Duality Twist

We continue the study of the low-energy limit of N=4 super Yang-Mills theory compactified on a circle with S-duality and R-symmetry twists that preserve N=6 supersymmetry in 2+1D. We introduce external static supersymmetric quark and anti-quark sources into the theory and calculate the Witten Index of the resulting Hilbert space of ground states on a torus. Using these results we compute the action of simple Wilson loops on the Hilbert space of ground states without sources. In some cases we find disagreement between our results for the Wilson loop eigenvalues and previous conjectures about a connection with Chern-Simons theory.Comment: 73 pages, two paragraphs added, one to the introduction and one to the discussio

Chiral Generations on Intersecting 5-branes in Heterotic String Theory

We show that there exist two 27 and one 27 bar of E6, net one D=4, N=1 chiral matter supermultiplet as zero modes localized on the intersection of two 5-branes in the E8 x E8 heterotic string theory. The smeared intersecting 5-brane solution is used via the standard embedding to construct a heterotic background, which provides, after a compactification of some of the transverse dimensions, a five-dimensional Randall-Sundrum II like brane-world set-up in heterotic string theory. As a by-product, we present a new proof of anomaly cancellation between those from the chiral matter and the anomaly inflow onto the brane without small instanton.Comment: 26 pages, 5 figures; references added, typo correcte

Entanglement entropy of Wilson surfaces from bubbling geometries in M-theory

We consider solutions of eleven-dimensional supergravity constructed in [1,2] that are half-BPS, locally asymptotic to $AdS_7\times S^4$ and are the holographic dual of heavy Wilson surfaces in the six-dimensional $(2,0)$ theory. Using these bubbling solutions we calculate the holographic entanglement entropy for a spherical entangling surface in the presence of a planar Wilson surface. In addition, we calculate the holographic stress tensor and, by evaluating the on-shell supergravity action, the expectation value of the Wilson surface operator.Comment: 42 pages, 4 figures, v2: minor modification

Degenerate Rotating Black Holes, Chiral CFTs and Fermi Surfaces I - Analytic Results for Quasinormal Modes

In this work we discuss charged rotating black holes in $AdS_5 \times S^5$ that degenerate to extremal black holes with zero entropy. These black holes have scaling properties between charge and angular momentum similar to those of Fermi surface operators in a subsector of $\mathcal{N}=4$ SYM. We add a massless uncharged scalar to the five dimensional supergravity theory, such that it still forms a consistent truncation of the type IIB ten dimensional supergravity and analyze its quasinormal modes. Separating the equation of motion to a radial and angular part, we proceed to solve the radial equation using the asymptotic matching expansion method applied to a Heun equation with two nearby singularities. We use the continued fraction method for the angular Heun equation and obtain numerical results for the quasinormal modes. In the case of the supersymmetric black hole we present some analytic results for the decay rates of the scalar perturbations. The spectrum of quasinormal modes obtained is similar to that of a chiral 1+1 CFT, which is consistent with the conjectured field-theoretic dual. In addition, some of the modes can be found analytically.Comment: 41 pages, 1 figure, LaTeX; v2: typos corrected, references adde

Holographic Interface-Particle Potential

We consider two N=4 supersymmetric gauge theories connected by an interface and the gravity dual of this system. This interface is expressed by a fuzzy funnel solution of Nahm's equation in the gauge theory side. The gravity dual is a probe D5-brane in AdS_5 x S^5. The potential energy between this interface and a test particle is calculated in both the gauge theory side and the gravity side by the expectation value of a Wilson loop. In the gauge theory it is evaluated by just substituting the classical solution to the Wilson loop. On the other hand it is done by the on-shell action of the fundamental string stretched between the AdS boundary and the D5-brane in the gravity. We show the gauge theory result and the gravity one agree with each other.Comment: 18 pages, 3 figures. v2: added discussion on perturbative corrections in the gauge theory sid

The Pioneer Anomaly

Radio-metric Doppler tracking data received from the Pioneer 10 and 11 spacecraft from heliocentric distances of 20-70 AU has consistently indicated the presence of a small, anomalous, blue-shifted frequency drift uniformly changing with a rate of ~6 x 10^{-9} Hz/s. Ultimately, the drift was interpreted as a constant sunward deceleration of each particular spacecraft at the level of a_P = (8.74 +/- 1.33) x 10^{-10} m/s^2. This apparent violation of the Newton's gravitational inverse-square law has become known as the Pioneer anomaly; the nature of this anomaly remains unexplained. In this review, we summarize the current knowledge of the physical properties of the anomaly and the conditions that led to its detection and characterization. We review various mechanisms proposed to explain the anomaly and discuss the current state of efforts to determine its nature. A comprehensive new investigation of the anomalous behavior of the two Pioneers has begun recently. The new efforts rely on the much-extended set of radio-metric Doppler data for both spacecraft in conjunction with the newly available complete record of their telemetry files and a large archive of original project documentation. As the new study is yet to report its findings, this review provides the necessary background for the new results to appear in the near future. In particular, we provide a significant amount of information on the design, operations and behavior of the two Pioneers during their entire missions, including descriptions of various data formats and techniques used for their navigation and radio-science data analysis. As most of this information was recovered relatively recently, it was not used in the previous studies of the Pioneer anomaly, but it is critical for the new investigation.Comment: 165 pages, 40 figures, 16 tables; accepted for publication in Living Reviews in Relativit

Non-Supersymmetric String Theory

A class of non-supersymmetric string backgrounds can be constructed using twists that involve space-time fermion parity. We propose a non-perturbative definition of string theory in these backgrounds via gauge theories with supersymmetry softly broken by twisted boundary conditions. The perturbative string spectrum is reproduced, and qualitative effects of the interactions are discussed. Along the way, we find an interesting mechanism for inflation. The end state of closed string tachyon condensation is a highly excited state in the gauge theory which, in all likelihood, does not have a geometric interpretation.Comment: 35 pages, 2 figures; revision adds a computation of the relevant orbifold state