EST analysis of gene expression in early cleavage-stage sea urchin embryos

A set of 956 expressed sequence tags derived from 7-hour (mid-cleavage) sea urchin embryos was analyzed to assess biosynthetic functions and to illuminate the structure of the message population at this stage. About a quarter of the expressed sequence tags represented repetitive sequence transcripts typical of early embryos, or ribosomal and mitochondrial RNAs, while a majority of the remainder contained significant open reading frames. A total of 232 sequences, including 153 different proteins, produced significant matches when compared against GenBank. The majority of these identified sequences represented ‘housekeeping’ proteins, i.e., cytoskeletal proteins, metabolic enzymes, transporters and proteins involved in cell division. The most interesting finds were components of signaling systems and transcription factors not previously reported in early sea urchin embryos, including components of Notch and TGF signal transduction pathways. As expected from earlier kinetic analyses of the embryo mRNA populations, no very prevalent protein-coding species were encountered; the most highly represented such sequences were cDNAs encoding cyclins A and B. The frequency of occurrence of all sequences within the database was used to construct a sequence prevalence distribution. The result, confirming earlier mRNA population analyses, indicated that the poly(A) RNA of the early embryo consists mainly of a very complex set of low-copy-number transcripts

Retroactive quantum jumps in a strongly-coupled atom-field system

We investigate a novel type of conditional dynamic that occurs in the strongly-driven Jaynes-Cummings model with dissipation. Extending the work of Alsing and Carmichael [Quantum Opt. {\bf 3}, 13 (1991)], we present a combined numerical and analytic study of the Stochastic Master Equation that describes the system's conditional evolution when the cavity output is continuously observed via homodyne detection, but atomic spontaneous emission is not monitored at all. We find that quantum jumps of the atomic state are induced by its dynamical coupling to the optical field, in order retroactively to justify atypical fluctuations in ocurring in the homodyne photocurrent.Comment: 4 pages, uses RevTex, 5 EPS figure

Shock-Wave Heating Model for Chondrule Formation: Prevention of Isotopic Fractionation

Chondrules are considered to have much information on dust particles and processes in the solar nebula. It is naturally expected that protoplanetary disks observed in present star forming regions have similar dust particles and processes, so study of chondrule formation may provide us great information on the formation of the planetary systems. Evaporation during chondrule melting may have resulted in depletion of volatile elements in chondrules. However, no evidence for a large degree of heavy-isotope enrichment has been reported in chondrules. In order to meet this observed constraint, the rapid heating rate at temperatures below the silicate solidus is required to suppress the isotopic fractionation. We have developed a new shock-wave heating model taking into account the radiative transfer of the dust thermal continuum emission and the line emission of gas molecules and calculated the thermal history of chondrules. We have found that optically-thin shock waves for the thermal continuum emission from dust particles can meet the rapid heating constraint, because the dust thermal emission does not keep the dust particles high temperature for a long time in the pre-shock region and dust particles are abruptly heated by the gas drag heating in the post-shock region. We have also derived the upper limit of optical depth of the pre-shock region using the radiative diffusion approximation, above which the rapid heating constraint is not satisfied. It is about 1 - 10.Comment: 58 pages, including 5 tables and 15 figures, accepted for publication in The Astrophysical Journa

Optimal Sizes of Dielectric Microspheres for Cavity QED with Strong Coupling

The whispering gallery modes (WGMs) of quartz microspheres are investigated for the purpose of strong coupling between single photons and atoms in cavity quantum electrodynamics (cavity QED). Within our current understanding of the loss mechanisms of the WGMs, the saturation photon number, n, and critical atom number, N, cannot be minimized simultaneously, so that an "optimal" sphere size is taken to be the radius for which the geometric mean, (n x N)^(1/2), is minimized. While a general treatment is given for the dimensionless parameters used to characterize the atom-cavity system, detailed consideration is given to the D2 transition in atomic Cesium (852nm) using fused-silica microspheres, for which the maximum coupling coefficient g/(2*pi)=750MHz occurs for a sphere radius a=3.63microns corresponding to the minimum for n=6.06x10^(-6). By contrast, the minimum for N=9.00x10^(-6) occurs for a sphere radius of a=8.12microns, while the optimal sphere size for which (n x N)^(1/2) is minimized occurs at a=7.83microns. On an experimental front, we have fabricated fused-silica microspheres with radii a=10microns and consistently observed quality factors Q=0.8x10^(7). These results for the WGMs are compared with corresponding parameters achieved in Fabry-Perot cavities to demonstrate the significant potential of microspheres as a tool for cavity QED with strong coupling.Comment: 12 pages, 14 figure

Performance and enteric methane emissions from housed beef cattle fed silage produced on pastures with different forage profiles

Methane (CH4) produced by ruminants is a significant source of greenhouse gases (GHG) from agriculture in the United Kingdom (UK), accounting for approximately 50% of the emissions in this sector. Ration modification is linked to changes in rumen fermentation and can be an effective means of CH4 abatement. In temperate climate countries, forage silage represents a major feed component for cattle during the housing period. The objective of this study was, therefore, to compare enteric CH4 emission from cattle offered silage produced from different types of grassland. Beef cattle, steers (n = 89) and heifers (n = 88) with average liveweight (LW) of 328 ± 57.1 kg, were evaluated during two housing seasons (2016-2017 and 2017-2018) from November to April, at the Rothamsted Research North Wyke Farm Platform (NWFP, UK). The treatments corresponded to three diet types, comprising silage harvested from three different pastures: MRG, monoculture of perennial ryegrass (PRG, Lolium perenne L.cv. AberMagic), bred to express the high sugar phenotype; RG-WC, a mixed sward comprised of the same perennial ryegrass cultivar with white clover (Trifolium repens L.) with a target clover proportion of 30% as land cover; and PP, permanent pasture dominated by PRG and a small number of non-introduced species. MRG and PP received 160-200 kg N/ha/year. Cattle were weighed every 30 days and the enteric CH4 emission was determined using GreenFeed automated systems. No significant differences in enteric CH4 emission per head or per kg LW were observed between treatments. However, emission expressed per average daily gain (ADG) in LW was greater (p<0.001) for MRG compared with RG-WC and PP, at 270, 248 and 235 g CH4/kg ADG, respectively. This related to a lower ADG (p=0.041) for the animals fed MRG silage compared with RG-WC and PP which were similar, with respective values of 0.67, 0.71 and 0.74 kg/day. The forages compared in this study showed little or no potential to reduce enteric CH4 emission when fed as silage to growing beef cattle during the winter housing period

Resonator-Enhanced Optical Dipole Trap for Fermionic Lithium Atoms

We demonstrate a novel optical dipole trap which is based on the enhancement of the optical power density of a Nd:YAG laser beam in a resonator. The trap is particularly suited for experiments with ultracold gases, as it combines a potential depth of order 1 mK with storage times of several tens of seconds. We study the interactions in a gas of fermionic lithium atoms in our trap and observe the influence of spin-changing collisions and off-resonant photon scattering. A key element in reaching long storage times is an ultra-low noise laser. The dependence of the storage time on laser noise is investigated.Comment: 4 pages 3 figures Revised 17.07.2001; Corrected calibration of noise measm

Optical decay from a Fabry-Perot cavity faster than the decay time

The dynamical response of an optical Fabry-Perot cavity is investigated experimentally. We observe oscillations in the transmitted and reflected light intensity if the frequency of the incoupled light field is rapidly changed. In addition, the decay of a cavity-stored light field is accelerated if the phase and intensity of the incoupled light are switched in an appropriate way. The theoretical model by M. J. Lawrence em et al, JOSA B 16, 523 (1999) agrees with our observations.Comment: submitted to Josa

Petrogenesis of diachronous mixed siliciclastic-carbonate megafacies in the cool-water Oligocene Tikorangi Formation, Taranaki Basin, New Zealand

The Oligocene (Whaingaroan-Waitakian) Tikorangi Formation is a totally subsurface, lithostratigraphically complex, mixed siliciclastic-limestone-rich sequence forming an important fracture reservoir within Taranaki Basin, New Zealand. Petrographically the formation comprises a spectrum of interbedded rock types ranging from calcareous mudstone to wackestone to packstone to clean sparry grainstone. Skeletal and textural varieties within these rock types have aided in the identification of three environmentally distinctive megafacies for the Tikorangi Formation rocks-shelfal, foredeep, and basinal. Data from these megafacies have been used to detail previous conclusions on the petrogenesis and to further refine depositional paleoenvironmental models for the Tikorangi Formation in the central eastern Taranaki Basin margin.Shelfal Megafacies 1 rocks (reference well Hu Road-1A) are latest Oligocene (early Waitakian) in age and formed on or proximal to the Patea-Tongaporutu-Herangi basement high. They are characterised by coarse, skeletal-rich, pure sparry grainstone comprising shallow water, high energy taxa (bryozoans, barnacles, red algae) and admixtures of coarse well-rounded lithic sand derived from Mesozoic basement greywacke. This facies type has previously gone unrecorded in the Tikorangi Formation. Megafacies 2 is a latest Oligocene (early Waitakian) foredeep megafacies (formerly named shelfal facies) formed immediately basinward and west of the shelfal basement platform. It accumulated relatively rapidly (>20 cm/ka) from redeposition of shelfal megafacies biota that became intermixed with bathyal taxa to produce a spectrum of typically mudstone through to sparry grainstone. The resulting skeletal mix (bivalve, echinoderm, planktic and benthic foraminiferal, red algal, bryozoan, nannofossil) is unlike that in any of the age-equivalent limestone units in neighbouring onland King Country Basin. Megafacies 3 is an Oligocene (Whaingaroan-Waitakian) offshore basinal megafacies (formerly termed bathyal facies) of planktic foraminiferal-nannofossil-siliciclastic wackestone and mudstone formed away from redepositional influences. The siliciclastic input in this distal basinal setting (sedimentation rates <7 mm/ka) was probably sourced mainly from oceanic currents carrying suspended sediment from South Island provenances exposed at this time.Tikorangi Formation rocks record the Taranaki Basin’s only period of carbonate-dominated sedimentation across a full range of shelfal, foredeep, and basinal settings. Depositional controls on the three contrasting megafacies were fundamentally the interplay of an evolving and complex plate tectonic setting, including development of a carbonate foredeep, changes in relative sea level within an overall transgressive regime, and changing availability, sources, and modes of deposition of both bioclastic and siliciclastic sediments. The mixed siliciclastic-carbonate nature of the formation, and its skeletal assemblages, low-Mg calcite mineralogy, and delayed deep burial diagenetic history, are features consistent with formation in temperate-latitude cool waters

The Flare-energy Distributions Generated by Kink-unstable Ensembles of Zero-net-current Coronal Loops

It has been proposed that the million degree temperature of the corona is due to the combined effect of barely-detectable energy releases, so called nanoflares, that occur throughout the solar atmosphere. Alas, the nanoflare density and brightness implied by this hypothesis means that conclusive verification is beyond present observational abilities. Nevertheless, we investigate the plausibility of the nanoflare hypothesis by constructing a magnetohydrodynamic (MHD) model that can derive the energy of a nanoflare from the nature of an ideal kink instability. The set of energy-releasing instabilities is captured by an instability threshold for linear kink modes. Each point on the threshold is associated with a unique energy release and so we can predict a distribution of nanoflare energies. When the linear instability threshold is crossed, the instability enters a nonlinear phase as it is driven by current sheet reconnection. As the ensuing flare erupts and declines, the field transitions to a lower energy state, which is modelled by relaxation theory, i.e., helicity is conserved and the ratio of current to field becomes invariant within the loop. We apply the model so that all the loops within an ensemble achieve instability followed by energy-releasing relaxation. The result is a nanoflare energy distribution. Furthermore, we produce different distributions by varying the loop aspect ratio, the nature of the path to instability taken by each loop and also the level of radial expansion that may accompany loop relaxation. The heating rate obtained is just sufficient for coronal heating. In addition, we also show that kink instability cannot be associated with a critical magnetic twist value for every point along the instability threshold

On the suppression of the diffusion and the quantum nature of a cavity mode. Optical bistability; forces and friction in driven cavities

A new analytical method is presented here, offering a physical view of driven cavities where the external field cannot be neglected. We introduce a new dimensionless complex parameter, intrinsically linked to the cooperativity parameter of optical bistability, and analogous to the scaled Rabbi frequency for driven systems where the field is classical. Classes of steady states are iteratively constructed and expressions for the diffusion and friction coefficients at lowest order also derived. They have in most cases the same mathematical form as their free-space analog. The method offers a semiclassical explanation for two recent experiments of one atom trapping in a high Q cavity where the excited state is significantly saturated. Our results refute both claims of atom trapping by a quantized cavity mode, single or not. Finally, it is argued that the parameter newly constructed, as well as the groundwork of this method, are at least companions of the cooperativity parameter and its mother theory. In particular, we lay the stress on the apparently more fundamental role of our structure parameter.Comment: 24 pages, 7 figures. Submitted to J. Phys. B: At. Mol. Opt. Phy