Surface wave effects on the translation of wind stress across the air–sea interface in a fetch-limited, coastal embayment

Author Posting. © American Meteorological Society, 2017. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Physical Oceanography 47 (2017): 1921-1939, doi:10.1175/JPO-D-16-0146.1.The role of surface gravity waves in structuring the air–sea momentum flux is examined in the middle reaches of Chesapeake Bay. Observed wave spectra showed that wave direction in Chesapeake Bay is strongly correlated with basin geometry. Waves preferentially developed in the direction of maximum fetch, suggesting that dominant wave frequencies may be commonly and persistently misaligned with local wind forcing. Direct observations from an ultrasonic anemometer and vertical array of ADVs show that the magnitude and direction of stress changed across the air–sea interface, suggesting that a stress divergence occurred at or near the water surface. Using a numerical wave model in combination with direct flux measurements, the air–sea momentum flux was partitioned between the surface wave field and the mean flow. Results indicate that the surface wave field can store or release a significant fraction of the total momentum flux depending on the direction of the wind. When wind blew across dominant fetch axes, the generation of short gravity waves stored as much as 40% of the total wind stress. Accounting for the storage of momentum in the surface wave field closed the air–sea momentum budget. Agreement between the direction of Lagrangian shear and the direction of the stress vector in the mixed surface layer suggests that the observed directional difference was due to the combined effect of breaking waves producing downward sweeps of momentum in the direction of wave propagation and the straining of that vorticity field in a manner similar to Langmuir turbulence.This work was supported by National Science Foundation Grants OCE-1061609 and OCE-1339032.2018-01-1

Estrogen receptor-1 is a key regulator of HIV-1 latency that imparts gender-specific restrictions on the latent reservoir.

Unbiased shRNA library screens revealed that the estrogen receptor-1 (ESR-1) is a key factor regulating HIV-1 latency. In both Jurkat T cells and a Th17 primary cell model for HIV-1 latency, selective estrogen receptor modulators (SERMs, i.e., fulvestrant, raloxifene, and tamoxifen) are weak proviral activators and sensitize cells to latency-reversing agents (LRAs) including low doses of TNF-α (an NF-κB inducer), the histone deacetylase inhibitor vorinostat (soruberoylanilide hydroxamic acid, SAHA), and IL-15. To probe the physiologic relevance of these observations, leukapheresis samples from a cohort of 12 well-matched reproductive-age women and men on fully suppressive antiretroviral therapy were evaluated by an assay measuring the production of spliced envelope (env) mRNA (the EDITS assay) by next-generation sequencing. The cells were activated by T cell receptor (TCR) stimulation, IL-15, or SAHA in the presence of either β-estradiol or an SERM. β-Estradiol potently inhibited TCR activation of HIV-1 transcription, while SERMs enhanced the activity of most LRAs. Although both sexes responded to SERMs and β-estradiol, females showed much higher levels of inhibition in response to the hormone and higher reactivity in response to ESR-1 modulators than males. Importantly, the total inducible RNA reservoir, as measured by the EDITS assay, was significantly smaller in the women than in the men. We conclude that concurrent exposure to estrogen is likely to limit the efficacy of viral emergence from latency and that ESR-1 is a pharmacologically attractive target that can be exploited in the design of therapeutic strategies for latency reversal

Characterization and modulation of Langmuir circulation in Chesapeake Bay

Author Posting. © American Meteorological Society, 2015. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Physical Oceanography 45 (2015): 2621–2639, doi:10.1175/JPO-D-14-0239.1.Measurements made as part of a large-scale experiment to examine wind-driven circulation and mixing in Chesapeake Bay demonstrate that circulations consistent with Langmuir circulation play an important role in surface boundary layer dynamics. Under conditions when the turbulent Langmuir number Lat is low (<0.5), the surface mixed layer is characterized by 1) elevated vertical turbulent kinetic energy; 2) decreased anisotropy; 3) negative vertical velocity skewness indicative of strong/narrow downwelling and weak/broad upwelling; and 4) strong negative correlations between low-frequency vertical velocity and the velocity in the direction of wave propagation. These characteristics appear to be primarily the result of the vortex force associated with the surface wave field, but convection driven by a destabilizing heat flux is observed and appears to contribute significantly to the observed negative vertical velocity skewness. Conditions that favor convection usually also have strong Langmuir forcing, and these two processes probably both contribute to the surface mixed layer turbulence. Conditions in which traditional stress-driven turbulence is important are limited in this dataset. Unlike other shallow coastal systems where full water column Langmuir circulation has been observed, the salinity stratification in Chesapeake Bay is nearly always strong enough to prevent full-depth circulation from developing.The funding for this research was provided by the National Science Foundation Grants OCE-1339032 and OCE-1338518.2016-04-0

The Effect of Linkage on Sample Size Determination for Multiple Trait Selection

32 pages, 1 article*The Effect of Linkage on Sample Size Determination for Multiple Trait Selection* (Schwager, Steven J.; Mutschler, Martha A.; Federer, Walter T.; Scully, Brian T.) 32 page

Hydrogeologic Investigations of Pavement Subsidence in the Cumberland Gap Tunnel

Cumberland Gap Tunnel was constructed under Cumberland Gap National Historical Park in 1996 to improve transportation on a segment of U.S. 25E, connecting Kentucky and Tennessee and restoring Cumberland Gap to its historical appearance. The concrete pavement in the tunnel started to subside in 2001. Ground penetrating radar surveys revealed voids in many areas of the limestone roadbed aggregate beneath the pavement. To investigate possible hydrogeologic processes that may have caused favorable conditions for voids to form in the aggregate, we studied geology, groundwater flow, and groundwater chemistry in the tunnel using a variety of methods, including bore drilling, packer test, dye tracing, groundwater- and surface-flow monitoring, water-chemistry modeling, and an aggregate dissolution experiment. The study revealed that the aggregate receives a large volume of groundwater from much of the bedrock invert, but the flow velocity is too slow to transport small particles out of the aggregate. Calcite saturation indices calculated from water-chemistry data suggest that the groundwater was capable of continuously dissolving calcite, the primary mineral in the limestone aggregate. Water samples taken during different flow conditions indicate that groundwater under low-flow conditions. The dissolution experiment showed that all the limestone aggregate placed beneath the roadbed and in contact with groundwater lost mass; the highest mass loss was 3.4 percent during a 178-day period. The experiment also suggested that water with higher calcite-dissolving potential removed limestone mass quicker than water with low calcite-dissolving potential. We recommend that the limestone aggregate be replaced with noncarbonate aggregate, such as granite, to prevent dissolution and future road subsidence

A clinical genetic method to identify mechanisms by which pain causes depression and anxiety

BACKGROUND: Pain patients are often depressed and anxious, and benefit less from psychotropic drugs than pain-free patients. We hypothesize that this partial resistance is due to the unique neurochemical contribution to mood by afferent pain projections through the spino-parabrachial-hypothalamic-amygdalar systems and their projections to other mood-mediating systems. New psychotropic drugs for pain patients might target molecules in such brain systems. We propose a method to prioritize molecular targets by studying polymorphic genes in cohorts of patients undergoing surgical procedures associated with a variable pain relief response. We seek molecules that show a significant statistical interaction between (1) the amount of surgical pain relief, and (2) the alleles of the gene, on depression and anxiety during the first postoperative year. RESULTS: We collected DNA from 280 patients with sciatica due to a lumbar disc herniation, 162 treated surgically and 118 non-surgically, who had been followed for 10 years in the Maine Lumbar Spine Study, a large, prospective, observational study. In patients whose pain was reduced >25% by surgery, symptoms of depression and anxiety, assessed with the SF-36 Mental Health Scale, improved briskly at the first postoperative measurement. In patients with little or no surgical pain reduction, mood scores stayed about the same on average. There was large inter-individual variability at each level of residual pain. Polymorphisms in three pre-specified pain-mood candidate genes, catechol-O-methyl transferase (COMT), serotonin transporter, and brain-derived neurotrophic factor (BDNF) were not associated with late postoperative mood or with a pain-gene interaction on mood. Although the sample size did not provide enough power to persuasively search through a larger number of genes, an exploratory survey of 25 other genes provides illustrations of pain-gene interactions on postoperative mood – the mu opioid receptor for short-term effects of acute sciatica on mood, and the galanin-2 receptor for effects of unrelieved post-discectomy pain on mood one year after surgery. CONCLUSION: Genomic analysis of longitudinal studies of pain, depression, and anxiety in patients undergoing pain-relieving surgery may help to identify molecules through which pain alters mood. Detection of alleles with modest-sized effects will require larger cohorts

Time-Resolved Surface-Enhanced Coherent Sensing of Nanoscale Molecular Complexes

Nanoscale real-time molecular sensing requires large signal enhancement, small background, short detection time and high spectral resolution. We demonstrate a new vibrational spectroscopic technique which satisfies all of these conditions. This time-resolved surface-enhanced coherent anti-Stokes Raman scattering (tr-SECARS) spectroscopy is used to detect hydrogen-bonded molecular complexes of pyridine with water in the near field of gold nanoparticles with large signal enhancement and a fraction of a second collection time. Optimal spectral width and time delays of ultrashort laser pulses suppress the surface-enhanced non-resonant background. Time-resolved signals increase the spectral resolution which is limited by the width of the probe pulse and allow measuring nanoscale vibrational dephasing dynamics. This technique combined with quantum chemistry simulations may be used for the investigation of complex mixtures at the nanoscale and surface environment of artificial nanostructures and biological systems

Exploring biophysical linkages between coastal forestry management practices and aquatic bivalve contaminant exposure

Terrestrial land use activities present cross-ecosystem threats to riverine and marine species and processes. Specifically, pesticide runoff can disrupt hormonal, reproductive, and developmental processes in aquatic organisms, yet non-point source pollution is difficult to trace and quantify. In Oregon, U.S.A., state and federal forestry pesticide regulations, designed to meet regulatory water quality requirements, differ in buffer size and pesticide applications. We deployed passive water samplers and collected riverine and estuarine bivalves Margaritifera falcata, Mya arenaria, and Crassostrea gigas from Oregon Coast watersheds to examine forestry-specific pesticide contamination. We used non-metric multidimensional scaling and regression to relate concentrations and types of pesticide contamination across watersheds to ownership and management metrics. In bivalve samples collected from eight coastal watersheds, we measured twelve unique pesticides (two herbicides; three fungicides; and seven insecticides). Pesticides were detected in 38% of bivalve samples; and frequency and maximum concentrations varied by season, species, and watershed with indaziflam (herbicide) the only current-use forestry pesticide detected. Using passive water samplers, we measured four current-use herbicides corresponding with planned herbicide applications; hexazinone and atrazine were most frequently detected. Details about types and levels of exposure provide insight into effectiveness of current forest management practices in controlling transport of forest-use pesticides

Safety and tolerability of a low glycemic load dietary intervention in adults with cystic fibrosis: a pilot study

IntroductionTo achieve and maintain adequate weight, people with cystic fibrosis (CF) May often consume energy-dense, nutrient-poor foods high in added sugars and refined carbohydrates; however, little is known about the glycemic and metabolic effects of dietary composition in this patient population. The objective of this pilot study was to investigate the safety and tolerability of a low glycemic load (LGL) diet in adults with CF and abnormal glucose tolerance (AGT).MethodsTen adults with CF and AGT completed this prospective, open-label pilot study. Mean age was 27.0 ± 2.1 years, 64% were female, and all had pancreatic insufficiency. Each participant followed his/her typical diet for 2 weeks, then transitioned to a LGL diet via meal delivery service for 8 weeks. The primary outcome was change in weight from baseline to study completion, with safety established if no significant decline was noted. Other key safety outcomes included change in hypoglycemia measured by patient report and continuous glucose monitoring (CGM). Exploratory outcomes included changes in other CGM measures, body composition by dual energy X-ray absorptiometry (DXA), and patient reported outcomes.ResultsThere were no significant changes in weight or in subjectively-reported or objectively-measured hypoglycemia. Favorable non-significant changes were noted in CGM measures of hyperglycemia and glycemic variability, DXA measures of fat mass, and gastrointestinal symptom surveys.DiscussionA LGL dietary intervention was safe and well tolerated in adults with CF and AGT. These results lay the groundwork for future trials investigating the impact of low-glycemic dietary interventions on metabolic outcomes in the CF population