Decreased stability of methane hydrates in marine sediments owing to phase-boundary roughness.

Below water depths of about 300 metres, pressure and temperature conditions cause methane to form ice-like crystals of methane hydrate. Marine deposits of methane hydrate are estimated to be large, amassing about 10,000 gigatonnes of carbon, and are thought to be important to global change and seafloor stability, as well as representing a potentially exploitable energy resource. The extent of these deposits can usually be inferred from seismic imaging, in which the base of the methane hydrate stability zone is frequently identifiable as a smooth reflector that runs parallel to the sea floor. Here, using high-resolution seismic sections of seafloor sediments in the Cascadia margin off the coast of Vancouver Island, Canada, we observe lateral variations in the base of the hydrate stability zone, including gas-rich vertical intrusions into the hydrate stability zone. We suggest that these vertical intrusions are associated with upward flow of warmer fluids. Therefore, where seafloor fluid expulsion and methane hydrate deposits coincide, the base of the hydrate stability zone might exhibit significant roughness and increased surface area. Increased area implies that significantly more methane hydrate lies close to being unstable and hence closer to dissociation in the event of a lowering of pressure due to sea-level fall.

UV stimulation induces nuclear factor kappaB (NF-kappaB) DNA-binding activity but not transcriptional activation.

The cellular response to DNA-damaging agents is partly mediated by DNA-binding transcription factors such as p53 and nuclear factor kappaB (NF-kappaB). Typically NF-kappaB activation is associated with resistance to apoptosis. Following stimulation with UV light however, NF-kappaB activation has been shown to be required for programmed cell death. To study this effect further and to determine the relationship between NF-kappaB and p53 function, we have examined the effect of UV light on U2OS cells. UV stimulation resulted in the activation of NF-kappaB DNA-binding and the induction of p53. Surprisingly, and in contrast with tumour necrosis factor alpha stimulation, this UV- induced NF-kappaB was transcriptionally inert. These observations suggest a model in which the NF-kappaB switch from an anti-apoptotic to a pro-apoptotic role within the cell results from modulation of its ability to stimulate gene expression, possibly as a result of the ability of p53 to sequester transcriptional co-activator proteins such as p300/CREB (cAMP-response-element-binding protein)-binding protein.

Tomographic inversion of geoacoustic properties in a range-dependent shallow-water environment.

This paper presents a matched-field tomographic method to estimate the geoacoustic properties of the ocean bottom for a range-dependent medium in shallow water. The inversion method has been developed in order to interpret experimental data from the Haro Strait PRIMER sea trial. This experiment was carried out in June '96 and used low-frequency broadband signals that were received on three vertical line arrays. Inversion of the data is particularly difficult because of the complex bathymetry of the Haro Strait experimental site. For this inversion, a range-dependent ray code was developed to solve the forward problem, allowing an arbitrarily layered bottom environment. The inversion scheme is based on modeling the propagation time and the amplitude of the recorded data, and a simple new cost function is proposed. The signal ray paths are identified automatically using a simple process that compares calculated and measured travel times. Data from multiple source positions are used to invert the range dependence of the geoacoustic model. The environment is separated into segments, and within each segment the inversion is carried out layer by layer for a multilayer geoacoustic model. Starting with the topmost layer, the range-dependent thickness and sound speed are estimated via a Monte Carlo method. Inversion results are presented for synthetic and experimental data from the Haro Strait sea trial.

Inhibition of the RelA(p65) NF-kappaB subunit by Egr-1.

Induction of transcription from the human immunodeficiency virus 1 long terminal repeat by the RelA (p65) NF-kappaB subunit has been shown to be dependent upon an interaction with the zinc finger DNA-binding domain of Sp1. It was unknown, however, whether NF-kappaB could also interact with other zinc finger-containing transcription factors. In this study we demonstrate that the early growth response transcription factor Egr-1, whose DNA-binding domain shares a high degree of homology with that of Sp1, can also interact with RelA in vitro and regulate NF-kappaB transcriptional activity in vivo. Similar to the interaction with Sp1, the Rel homology domain of RelA interacts with the zinc finger domain of Egr-1. Surprisingly, and in contrast to Sp1, Egr-1 specifically represses RelA transcriptional activity through its zinc finger domain. Moreover, the interaction between RelA and the Egr-1 zinc fingers is mutually exclusive with DNA binding suggesting a model in which Egr-1 directly sequesters NF-kappaB from its target promoters. Because Egr-1 is induced by many of the same stimuli that activate NF-kappaB, this novel transcriptional regulatory mechanism has many implications for the involvement of both factors in cellular processes such as apoptosis and the response to stress and infection.

Sperm-zona interaction and recombinant DNA technology.

Recombinant DNA technology has revolutionized our understanding of many biological systems. However, such techniques and their application have not been fully exploited in the study of sperm zona interaction. Using examples from other biological systems, we ourline several experimental approaches that are likely to significantly enhance our understanding of the gamete recognition process.

Water in barnacle muscle. IV. Factors contributing to reduced self-diffusion.

The relative self-diffusion coefficients D/Do, of water in various solutions, in fresh barnacle muscle fibers, and in membrane-damaged fibers equilibrated with several media have been estimated from NMR relaxation rates in the presence of applied field gradients. A model has been developed to account for the contributions to the observed reduction in D/Do from small organic solutes, and from the hydration and obstruction effect of both soluble macromolecules and myofilament proteins. Intracellular ions do not affect D/Do, but all tested organic solutes do. Solute effects are additive. When artificially combined in the proportions found in barnacle muscle ultracentrifugate (measured D/Do = 0.77), organic acids, small nitrogenous solutes, and proteins give D/Do = 0.77. After correcting the D/Do measured in fibers for this value, we calculate the myofilament hydration, Hm, in fresh muscle to be 0.65 g H2O/g macromolecule. Only in membrane-damaged fibers, highly swollen by salt-rich media, was this significantly increased. Because our earlier NMR relaxation measurements indicate only 0.07 g H2O bound/g myofilament protein, we conclude that the "hydration" water measured by reduction of D/Do cannot be described by stationary layers of water molecules; instead, we propose that nonpolar groups on the proteins cause extensive, hydrophobically-induced interactions among a large fraction of solvent molecules, slowing their translational motion.

Water in barnacle muscle. III. NMR studies of fresh fibers and membrane-damaged fibers equilibrated with selected solutes.

Water in barnacle muscle has been studied using NMR techniques. Fresh fibers are compared with membrane-damaged fibers treated with solutes that greatly alter fixed charge and total water content. Both water (97%) and solute (3%) protons are visible in continuous wave spectra of oriented fresh fibers. No local field inhomogeneities were detected, nor are cell solutes significantly bound. In pulse experiments, all cell water is visible and exhibits a single exponential decay. In fresh fibers, T2 approximately or equal to 40 ms; faster decaying signals are assigned to immobile and mobile protons on macromolecules. T1 and T1p are frequency dependent. Using equations derived for a two-compartment model with fast exchange, we calculate the following: tau b, the correlation time for anisotropic rotational motion of bound water; Sb, its order parameter; tau ex, the correlation time for exchange between bound and free fractions; f, the fraction of water bound; and Hr, the grams of water bound per gram of macromolecule. Whereas f varies inversely with total water content, the other parameters are virtually constant, with values: tau b approximately or equal to 1.3 X 10(-8) S; tau ex approximately or equal to 8 X 10(-6) s; Sb approximately or equal to 0.06; and Hr approximately or equal to 0.1g H2O/g macromolecule. Thus, the NMR relaxation detectable properties of water bound to macromolecules are unaffected by solutes that greatly alter the macromolecular surface charge.