Thomas C. Weber

A Persistent Oxygen Anomaly Reveals the Fate of Spilled Methane in the Deep Gulf of Mexico

Methane released during the Deepwater Horizon blowout was degraded by methanotrophic bacteria. Methane was the most abundant hydrocarbon released during the 2010 Deepwater Horizon oil spill in the Gulf of Mexico. Beyond relevancy to this anthropogenic event, this methane release simulates a rapid and relatively short-term natural release from hydrates into deep water. Based on methane and oxygen distributions measured at 207 stations throughout the affected region, we find that within ~120 days from the onset of release ~3.0 × 1010 to 3.9 × 1010 moles of oxygen were respired, primarily by methanotrophs, and left behind a residual microbial community containing methanotrophic bacteria. We suggest that a vigorous deepwater bacterial bloom respired nearly all the released methane within this time, and that by analogy, large-scale releases of methane from hydrate in the deep ocean are likely to be met by a similarly rapid methanotrophic response.

Thyroid hormone is a critical determinant for the regulation of the cochlear motor protein prestin

The most impressive property of outer hair cells (OHCs) is their ability to change their length at high acoustic frequencies, thus providing the exquisite sensitivity and frequency-resolving capacity of the mammalian hearing organ. Prestin, a protein related to a sulfate/anion transport protein, recently has been identified and proposed as the OHC motor molecule. Homology searches of 1.5 kb of genomic DNA 5′ of the coding region of the prestin gene allowed the identification of a thyroid hormone (TH) response element (TRE) in the first intron upstream of the prestin ATG codon. PrestinTRE bound TH receptors as a monomer or presumptive heterodimer and mediated a triiodothyronine-dependent transactivation of a heterologous promotor in response to triiodothyronine receptors α and β. Retinoid X receptor-α had an additive effect. Expression of prestin mRNA and prestin protein was reduced strongly in the absence of TH. Although prestin protein typically was redistributed to the lateral membrane before the onset of hearing, an immature pattern of prestin protein distribution across the entire OHC membrane was noted in hypothyroid rats. The data suggest TH as a first transcriptional regulator of the motor protein prestin and as a direct or indirect modulator of subcellular prestin distribution.

Rapid cell-cycle reentry and cell death after acute inactivation of the retinoblastoma gene product in postnatal cochlear hair cells

Unlike lower vertebrates, mammals are unable to replace damaged mechanosensory hair cells (HCs) in the cochlea. Recently, ablation of the retinoblastoma protein (Rb) in undifferentiated mouse HC precursors was shown to cause cochlear HC proliferation and the generation of new HCs, raising the hope that inactivation of Rb in postmitotic HCs could trigger cell division and regenerate functional HCs postnatally. Here, we acutely inactivated Rb in nearly all cochlear HCs of newborn mice, using a newly developed HC-specific inducible Cre mouse line. Beginning 48 h after Rb deletion, ≈40% of HCs were in the S and M phases of the cell cycle, demonstrating an overriding role for Rb in maintaining the quiescent state of postnatal HCs. Unlike Rb-null HC precursors, such HCs failed to undergo cell division and died rapidly. HC clusters were restricted to the less differentiated cochlear regions, consistent with differentiation-dependent roles of Rb. Moreover, outer HCs expressed the maturation marker prestin, suggesting an embryonic time window for Rb-dependent HC specification. We conclude that Rb plays essential and age-dependent roles during HC proliferation and differentiation, and, in contrast to previous hypotheses, cell death after forced cell-cycle reentry presents a major challenge for mammalian HC regeneration from residual postnatal HCs.

Expression of prestin-homologous solute carrier (SLC26) in auditory organs of nonmammalian vertebrates and insects

Prestin, the fifth member of the anion transporter family SLC26, is the outer hair cell molecular motor thought to be responsible for active mechanical amplification in the mammalian cochlea. Active amplification is present in a variety of other auditory systems, yet the prevailing view is that prestin is a motor molecule unique to mammalian ears. Here we identify prestin-related SLC26 proteins that are expressed in the auditory organs of nonmammalian vertebrates and insects. Sequence comparisons revealed the presence of SLC26 proteins in fish (Danio, GenBank accession no. AY278118, and Anguilla, GenBank accession no. BAC16761), mosquitoes (Anopheles, GenBank accession nos. EAA07232 and EAA07052), and flies (Drosophila, GenBank accession no. AAF49285). The fly and zebrafish homologues were cloned and, by using in situ hybridization, shown to be expressed in the auditory organs. In mosquitoes, in turn, the expression of prestin homologues was demonstrated for the auditory organ by using highly specific riboprobes against rat prestin. We conclude that prestin-related SLC26 proteins are widespread, possibly ancestral, constituents of auditory organs and are likely to serve salient roles in mammals and across taxa.

Acoustic estimates of methane gas flux from the seabed in a 6000 km2 region in the Northern Gulf of Mexico

Seeps of free methane gas escaping the seabed can be found throughout the ocean basins. To understand the role of methane gas seeps in the global carbon cycle—including both gas added to the atmosphere and that which is dissolved and potentially oxidized in the ocean volume—it is important to quantify the amount of methane escaping the seabed. Few large-scale mapping projects of natural methane seeps have been undertaken, however, and even among these, quantitative estimates of flux are rare. Here we use acoustic mapping techniques to survey 357 natural methane seeps in a large region (6000 km2) of the northern Gulf of Mexico and outline a general approach for methane seep mapping using a combination of multibeam and split-beam echo sounders. Using additional measurements collected with a remotely operated vehicle (ROV) together with the acoustic mapping results, we estimate the total gas flux within the 6000 km2 region to be between 0.0013 and 0.16 Tg/yr, or between 0.003 and 0.3% of the current estimates for global seabed methane seepage rates.

Automated optimal processing of phase differencing side-scan sonar data using the Most-Probable Angle Algorithm

Phase-differencing side-scan sonar systems produce co-located bathymetry in addition to each side-scan amplitude measurement. Bathymetric soundings are calculated from the range to each measurement (derived from the two-way travel time) and the receive angle of the incoming signal. Because phase-differencing systems produce a seafloor sounding with each individual measurement, they are often characterized as noisy when compared to multi-beam sonar systems, whose seafloor estimates, whether by amplitude-weighted mean or sub-aperture phase difference detection, are the product of averaging several measurements. In addition, every effort is made to increase the resolution of side-scan data by increasing the bandwidth and sampling rate of the transmitted signal, often producing more than 10,000 data points per ping. This volume of outlier-prone, relatively noisy data is difficult for operators to interpret and software to process. A series of methods has been developed for the automated processing of phase-differencing side-scan sonar data producing seafloor estimates and related uncertainties optimized for the survey application. The “Most-Probable Angle Algorithm” (MPAA) has been developed for the filtering of outliers in range-angle measurements. With outliers removed, the uncertainty of the filtered measurements are estimated. Angle estimates are then calculated as an uncertainty-weighted mean where the number of measurements contributing to each estimate is determined from that required to achieve a desired depth uncertainty. The resulting swath of depth measurements contains irregularly spaced soundings, typically obtaining full spatial resolution of the side-scan data from 20-50 degrees from nadir, and combining several measurements to reduce the uncertainty elsewhere. In this way, given a survey requirement, an optimal amount of information can be extracted from the sonar data in varying conditions.

Acoustic scattering from mud volcanoes and carbonate mounds

Submarine mud volcanoes occur in many parts of the worlds oceans and form an aperture for gas and fluidized mud emission from within the earths crust. Their characteristics are of considerable interest to the geology, geophysics, geochemistry, and underwater acoustics communities. For the latter, mud volcanoes are of interest in part because they pose a potential source of clutter for active sonar. Close-range (single-interaction) scattering measurements from a mud volcano in the Straits of Sicily show scattering 10-15 dB above the background. Three hypotheses were examined concerning the scattering mechanism: (1) gas entrained in sediment at/near mud volcano, (2) gas bubbles and/or particulates (emitted) in the water column, (3) the carbonate bio-construction covering the mud volcano edifice. The experimental evidence, including visual, acoustic, and nonacoustic sensors, rules out the second hypothesis (at least during the observation time) and suggests that, for this particular mud volcano the dominant mechanism is associated with carbonate chimneys on the mud volcano. In terms of scattering levels, target strengths of 4-14 dB were observed from 800 to 3600 Hz for a monostatic geometry with grazing angles of 3-5 degrees. Similar target strengths were measured for vertically bistatic paths with incident and scattered grazing angles of 3-5 degrees and 33-50 degrees, respectively.

Reconstruction of scalar and vectorial components in X-ray dark-field tomography

Significance X-ray Talbot−Lau grating interferometry provides a differential phase contrast and a dark-field image containing scattering information. The dark-field image is sensitive to granular and fibrous microstructures with sizes in the range of the grating periods (circa 5 μm), much below the typical resolution of medical imaging techniques like angiography or fluoroscopy (circa 150 μm). Dark-field contrast is influenced by the orientation of the microstructure in the object. We present an approach to recover the local microstructure orientation in a tomographic 3D reconstruction. Per voxel, we quantitatively reconstruct the vector of the dominant local orientation and the amount of (an)isotropic scattering for relatively large samples using a standard medical X-ray setup. This is experimentally shown for various specimens exhibiting varying degrees of structural orderings. Grating-based X-ray dark-field imaging is a novel technique for obtaining image contrast for object structures at size scales below setup resolution. Such an approach appears particularly beneficial for medical imaging and nondestructive testing. It has already been shown that the dark-field signal depends on the direction of observation. However, up to now, algorithms for fully recovering the orientation dependence in a tomographic volume are still unexplored. In this publication, we propose a reconstruction method for grating-based X-ray dark-field tomography, which models the orientation-dependent signal as an additional observable from a standard tomographic scan. In detail, we extend the tomographic volume to a tensorial set of voxel data, containing the local orientation and contributions to dark-field scattering. In our experiments, we present the first results of several test specimens exhibiting a heterogeneous composition in microstructure, which demonstrates the diagnostic potential of the method.

Scientific basis for safely shutting in the Macondo Well after the April 20, 2010 Deepwater Horizon blowout

As part of the government response to the Deepwater Horizon blowout, a Well Integrity Team evaluated the geologic hazards of shutting in the Macondo Well at the seafloor and determined the conditions under which it could safely be undertaken. Of particular concern was the possibility that, under the anticipated high shut-in pressures, oil could leak out of the well casing below the seafloor. Such a leak could lead to new geologic pathways for hydrocarbon release to the Gulf of Mexico. Evaluating this hazard required analyses of 2D and 3D seismic surveys, seafloor bathymetry, sediment properties, geophysical well logs, and drilling data to assess the geological, hydrological, and geomechanical conditions around the Macondo Well. After the well was successfully capped and shut in on July 15, 2010, a variety of monitoring activities were used to assess subsurface well integrity. These activities included acquisition of wellhead pressure data, marine multichannel seismic profiles, seafloor and water-column sonar surveys, and wellhead visual/acoustic monitoring. These data showed that the Macondo Well was not leaking after shut in, and therefore, it could remain safely shut until reservoir pressures were suppressed (killed) with heavy drilling mud and the well was sealed with cement.

Estimating oil concentration and flow rate with calibrated vessel-mounted acoustic echo sounders

As part of a larger program aimed at evaluating acoustic techniques for mapping the distribution of subsurface oil and gas associated with the Deepwater Horizon-Macondo oil spill, observations were made on June 24 and 25, 2010 using vessel-mounted calibrated single-beam echo sounders on the National Oceanic and Atmospheric Administration ship Thomas Jefferson. Coincident with visual observations of oil at the sea surface, the 200-kHz echo sounder showed anomalously high-volume scattering strength in the upper 200 m on the western side of the wellhead, more than 100 times higher than the surrounding waters at 1,800-m distance from the wellhead, and weakening with increasing distance out to 5,000 m. Similar high-volume scattering anomalies were not observed at 12 or 38 kHz, although observations of anomalously low-volume scattering strength were made in the deep scattering layer at these frequencies at approximately the same locations. Together with observations of ocean currents, the acoustic observations are consistent with a rising plume of small (< 1-mm radius) oil droplets. Using simplistic but reasonable assumptions about the properties of the oil droplets, an estimate of the flow rate was made that is remarkably consistent with those made at the wellhead by other means. The uncertainty in this acoustically derived estimate is high due to lack of knowledge of the size distribution and rise speed of the oil droplets. If properly constrained, these types of acoustic measurements can be used to rapidly estimate the flow rate of oil reaching the surface over large temporal and spatial scales.