Analysis of Network Topologies Underlying Ethylene Growth Response Kinetics

Most models for ethylene signaling involve a linear pathway. However, measurements of seedling growth kinetics when ethylene is applied and removed have resulted in more complex network models that include coherent feedforward, negative feedback, and positive feedback motifs. However, the dynamical responses of the proposed networks have not been explored in a quantitative manner. Here, we explore (i) whether any of the proposed models are capable of producing growth-response behaviors consistent with experimental observations and (ii) what mechanistic roles various parts of the network topologies play in ethylene signaling. To address this, we used computational methods to explore two general network topologies: The first contains a coherent feedforward loop that inhibits growth and a negative feedback from growth onto itself (CFF/NFB). In the second, ethylene promotes the cleavage of EIN2, with the product of the cleavage inhibiting growth and promoting the production of EIN2 through a positive feedback loop (PFB). Since few network parameters for ethylene signaling are known in detail, we used an evolutionary algorithm to explore sets of parameters that produce behaviors similar to experimental growth response kinetics of both wildtype and mutant seedlings. We generated a library of parameter sets by independently running the evolutionary algorithm many times. Both network topologies produce behavior consistent with experimental observations and analysis of the parameter sets allows us to identify important network interactions and parameter constraints. We additionally screened these parameter sets for growth recovery in the presence of sub-saturating ethylene doses, which is an experimentally-observed property that emerges in some of the evolved parameter sets. Finally, we probed simplified networks maintaining key features of the CFF/NFB and PFB topologies. From this, we verified observations drawn from the larger networks about mechanisms underlying ethylene signaling. Analysis of each network topology results in predictions about changes that occur in network components that can be experimentally tested to give insights into which, if either, network underlies ethylene responses

Overview of Dynamics Integration Research (DIR) program at Langley Research Center

Research goals and objectives for an ongoing activity at Langley Research Center (LaRC) are described. The activity is aimed principally at dynamics optimization for aircraft. The effort involves active participation by the Flight Systems, Structures, and Electronics directorates at LaRC. The Functional Integration Technology (FIT) team has been pursuing related goals since 1985. A prime goal has been the integration and optimization of vehicle dynamics through collaboration at the basic principles or equation level. Some significant technical progress has been accomplished since then and is reflected here. An augmentation for this activity, Dynamics Integration Research (DIR), has been proposed to NASA Headquarters and is being considered for funding in FY 1990 or FY 1991

Naturally small Dirac neutrino masses in supergravity

We show that Dirac neutrino masses of the right size can arise from the Kahler potential of supergravity. They are proportional to the supersymmetry and the electroweak breaking scales. We find that they have the experimentally observed value provided that the ultraviolet cut-off of the Minimal Supersymmetric Standard Model (MSSM) is between the Grand Unification (GUT) scale and the heterotic string scale. If lepton number is not conserved, then relatively suppressed Majorana masses can also be present, resulting in pseudo-Dirac neutrino masses.Comment: 6 pages, Revtex 4, published versio

Protein Clusters on the T Cell Surface May Suppress Spurious Early Signaling Events

T cells play an important role in the adaptive immune system, quickly activating effector functions in response to small numbers of antigenic peptides but rarely activating in response to constant interaction with most endogenous peptides. Emerging experimental evidence suggests that key membrane-bound signaling proteins such as the T cell receptor and the adaptor protein Lat are spatially organized into small clusters on the T cell membrane. We use spatially resolved, stochastic computer simulations to study how the inhomogeneous distribution of molecules affects the portion of the T cell signaling network in which the kinase ZAP-70, originating in T cell receptor clusters, phosphorylates Lat. To gain insight into the effects of protein clustering, we compare the signaling response from membranes with clustered proteins to the signaling response from membranes with homogeneously distributed proteins. Given a fixed amount of ZAP-70 (a proxy for degree of TCR stimulation) that must diffuse into contact with Lat molecules, the spatially homogeneous system responds faster and results in higher levels of phosphorylated Lat. Analysis of the spatial distribution of proteins demonstrates that, in the homogeneous system, nearest ZAP-70 and Lat proteins are closer on average and fewer Lat molecules share the same closest ZAP-70 molecule, leading to the faster response time. The results presented here suggest that spatial clustering of proteins on the T cell membrane may suppress the propagation of signal from ZAP-70 to Lat, thus providing a regulatory mechanism by which T cells suppress transient, spurious signals induced by stimulation of T cell receptors by endogenous peptides. Because this suppression of spurious signals may occur at a cost to sensitivity, we discuss recent experimental results suggesting other potential mechanisms by which ZAP-70 and Lat may interact to initiate T cell activation.United States. National Institutes of Health (Grant 1P01AI091580-01

Intersecting Brane Worlds at One Loop

We develop techniques for one-loop diagrams on intersecting branes. The one-loop propagator of chiral intersection states on D6 branes is calculated exactly and its finiteness is shown to be guaranteed by RR tadpole cancellation. The result is used to demonstrate the expected softening of power law running of Yukawa couplings at the string scale. We also develop methods to calculate arbitrary N-point functions at one-loop, including those without gauge bosons in the loop. These techniques are also applicable to heterotic orbifold models.Comment: 35 pages, 3 figures; added reference, corrected typos, JHEP styl

Electric/Magnetic Duality with Gauge Singlets

We demonstrate how gauge singlets can be used to find new examples of Kutasov duality (i.e. where the matching of the dual theories relies on a non-zero superpotential) in N}=1 SU(N) SQCD with F_Q flavours of quark and multiple generations of adjoints, or antisymmetrics, or symmetrics. The role of the singlets is to simplify greatly the truncation of the chiral ring whilst maintaining an R-symmetry, and at the same time allowing an unambiguous identification of the elementary mesons of the magnetic theory. The dual theories satisfy all the usual tests, including the highly non-trivial 't Hooft anomaly matching conditions.Comment: 31 pages, 2 figure

Direct Mediation and Metastable Supersymmetry Breaking for SO(10)

We examine a metastable $\mathcal{N}=1$ Macroscopic SO(N) SQCD model of Intriligator, Seiberg and Shih (ISS). We introduce various baryon and meson deformations, including multitrace operators and explore embedding an SO(10) parent of the standard model into two weakly gauged flavour sectors. Direct fundamental messengers and the symmetric pseudo-modulus messenger mediate SUSY breaking to the MSSM. Gaugino and sfermion masses are computed and compared for each deformation type. We also explore reducing the rank of the magnetic quark matrix of the ISS model and find an additional fundamental messenger.Comment: 43 pages, Latex. Version to appear in JHEP

Neutron-Electron EDM Correlations in Supersymmetry and Prospects for EDM Searches

Motivated by recent progress in experimental techniques of electric dipole moment (EDM) measurements, we study correlations between the neutron and electron EDMs in common supersymmetric models. These include minimal supergravity (mSUGRA) with small CP phases, mSUGRA with a heavy SUSY spectrum, the decoupling scenario and split SUSY. In most cases, the electron and neutron EDMs are found to be observable in the next round of EDM experiments. They exhibit certain correlation patterns. For example, if d_n ~ 10^{-27} e cm is found, d_e is predicted to lie in the range 10^{-28}-10^{-29} e cm.Comment: 16 pages,12 figures. To appear in JHEP. A note on stability of the correlations added in Conclusions; refs. and footnotes adde

Development of a bovine X chromosome linkage group and painting probes to assess cattle, sheep, and goat X chromosome segment homologies

The X chromosome linkage group is conserved in placental mammals. However, X chromosome morphological differences, due to internal chromosome rearrangements, exist among mammalian species. We have developed bovine chromosome painting probes for Xp and Xq to assess segment homologies between the submetacentric bovine X chromosome and the acrocentric sheep and goat X chromosomes. These painting probes and their corresponding DNA libraries were developed by chromosome micromanipulation, DNA micropurification, microcloning, and PCR amplification. The bovine Xp painting probe identified an interstitially located homologous segment in the sheep and goat Xq region, most probably resulting from chromosome inversion. Ten type II (microsatellite) markers obtained from the bovine Xq library and five other X chromosome assigned, but unlinked, markers were used to generate a linkage map for Xq spanning 89.4 centimorgans. The chromosome painting probes and molecular markers generated in this study would be useful for comparative mapping and tracing of internal X chromosome rearrangements in all ruminant species and would contribute to the understanding of mammalian sex chromosome evolution

Towards a nonsupersymmetric string phenomenology

Over the past three decades, considerable effort has been devoted to studying the rich and diverse phenomenologies of heterotic strings exhibiting spacetime supersymmetry. Unfortunately, during this same period, there has been relatively little work studying the phenomenologies associated with their nonsupersymmetric counterparts. The primary reason for this relative lack of attention is the fact that strings without spacetime supersymmetry are generally unstable, exhibiting large one-loop dilaton tadpoles. In this paper, we demonstrate that this hurdle can be overcome in a class of tachyon-free four-dimensional string models realized through coordinate-dependent compactifications. Moreover, as we shall see, it is possible to construct models in this class whose low-lying states resemble the Standard Model (or even potential unified extensions thereof)—all without any light superpartners, and indeed without supersymmetry at any energy scale. The existence of such models thus opens the door to general studies of nonsupersymmetric string phenomenology, and in this paper we proceed to discuss a variety of theoretical and phenomenological issues associated with such nonsupersymmetric strings. On the theoretical side, we discuss the finiteness properties of such strings, the general characteristics of their mass spectra, the magnitude and behavior of their one-loop cosmological constants, and their interpolation properties. By contrast, on the phenomenological side, the properties we discuss are more model-specific and include their construction techniques, their natural energy scales, their particle and charge assignments, and the magnitudes of their associated Yukawa couplings and scalar masses