Systematic study of the 87^{87}Sr clock transition in an optical lattice

With ultracold $^{87}$Sr confined in a magic wavelength optical lattice, we present the most precise study (2.8 Hz statistical uncertainty) to-date of the $^1S_0$ - $^3P_0$ optical clock transition with a detailed analysis of systematic shifts (20 Hz uncertainty) in the absolute frequency measurement of 429 228 004 229 867 Hz. The high resolution permits an investigation of the optical lattice motional sideband structure. The local oscillator for this optical atomic clock is a stable diode laser with its Hz-level linewidth characterized across the optical spectrum using a femtosecond frequency comb.Comment: 4 pages, 4 figures, 1 tabl

Optical atomic coherence at the one-second time scale

Highest resolution laser spectroscopy has generally been limited to single trapped ion systems due to rapid decoherence which plagues neutral atom ensembles. Here, precision spectroscopy of ultracold neutral atoms confined in a trapping potential shows superior optical coherence without any deleterious effects from motional degrees of freedom, revealing optical resonance linewidths at the hertz level with an excellent signal to noise ratio. The resonance quality factor of 2.4 x 10^{14} is the highest ever recovered in any form of coherent spectroscopy. The spectral resolution permits direct observation of the breaking of nuclear spin degeneracy for the 1S0 and 3P0 optical clock states of 87Sr under a small magnetic bias field. This optical NMR-like approach allows an accurate measurement of the differential Lande g-factor between the two states. The optical atomic coherence demonstrated for collective excitation of a large number of atoms will have a strong impact on quantum measurement and precision frequency metrology.Comment: in press (2006

Common Genetic Polymorphisms Influence Blood Biomarker Measurements in COPD

Implementing precision medicine for complex diseases such as chronic obstructive lung disease (COPD) will require extensive use of biomarkers and an in-depth understanding of how genetic, epigenetic, and environmental variations contribute to phenotypic diversity and disease progression. A meta-analysis from two large cohorts of current and former smokers with and without COPD [SPIROMICS (N = 750); COPDGene (N = 590)] was used to identify single nucleotide polymorphisms (SNPs) associated with measurement of 88 blood proteins (protein quantitative trait loci; pQTLs). PQTLs consistently replicated between the two cohorts. Features of pQTLs were compared to previously reported expression QTLs (eQTLs). Inference of causal relations of pQTL genotypes, biomarker measurements, and four clinical COPD phenotypes (airflow obstruction, emphysema, exacerbation history, and chronic bronchitis) were explored using conditional independence tests. We identified 527 highly significant (p 10% of measured variation in 13 protein biomarkers, with a single SNP (rs7041; p = 10−392) explaining 71%-75% of the measured variation in vitamin D binding protein (gene = GC). Some of these pQTLs [e.g., pQTLs for VDBP, sRAGE (gene = AGER), surfactant protein D (gene = SFTPD), and TNFRSF10C] have been previously associated with COPD phenotypes. Most pQTLs were local (cis), but distant (trans) pQTL SNPs in the ABO blood group locus were the top pQTL SNPs for five proteins. The inclusion of pQTL SNPs improved the clinical predictive value for the established association of sRAGE and emphysema, and the explanation of variance (R2) for emphysema improved from 0.3 to 0.4 when the pQTL SNP was included in the model along with clinical covariates. Causal modeling provided insight into specific pQTL-disease relationships for airflow obstruction and emphysema. In conclusion, given the frequency of highly significant local pQTLs, the large amount of variance potentially explained by pQTL, and the differences observed between pQTLs and eQTLs SNPs, we recommend that protein biomarker-disease association studies take into account the potential effect of common local SNPs and that pQTLs be integrated along with eQTLs to uncover disease mechanisms. Large-scale blood biomarker studies would also benefit from close attention to the ABO blood group

Nutrient fluxes in the greater Agulhas Current region: signals of local and remote Indian Ocean nitrogen cycling

The Agulhas Current in the southwest Indian Ocean is the strongest western boundary current on Earth. The major role of the Agulhas Current in driving significant heat and salt fluxes is well known, yet its biogeochemical fluxes remain largely uncharacterised. Here, we use nitrate isotopes (δ15N, δ18O, and Δ(15-18) = δ15N-δ18O) to evaluate nutrient supply mechanisms that ultimately support new production in the southwest Indian Ocean. Across the greater Agulhas region, thermocline nitrate-δ15N is lower (4.9-5.8‰) than the underlying Subantarctic Mode Water source (δ15N of 6.9‰) and the upstream source regions (where nitrate-δ15N ranges from 6.4-7.0‰), which we attribute to local N2 fixation. Using a one-box model to simulate the newly-fixed nitrate flux, we estimate a local N2 fixation rate of 7-25 Tg N.a-1, amounting to ~30-95% of the whole Indian Ocean nitrogen gain estimated by models. Thermocline and mixed-layer nitrate Δ(15-18) is also low, due to both N2 fixation and coupled partial nitrate assimilation and nitrification. This local nitrogen cycling imprints an isotopic signal on Indian Ocean nitrate that persists in Agulhas rings that “leak” into the South Atlantic and are subsequently transported northwards. If this signal is retained in calcifying organisms (e.g., foraminifera) deposited on the seafloor, it could be used to trace past Agulhas leakage, yielding quantitative insights into the strength of the Atlantic Meridional Overturning Circulation over time. In addition to local N2 fixation, the nitrate isotopes reveal three physical mechanisms of subsurface nitrate supply: i) inshore upwelling driven by the current and winds, ii) entrainment at the edges of a mesoscale eddy, and iii) density-driven overturning at the current edge induced by strong horizontal velocity and density shears. All these nitrate supply mechanisms are evident as incidences of relatively high-Δ(15-18) nitrate in the thermocline and surface yet the intensity and subsurface expression of some of them is not apparent in the physical data, highlighting the utility of the nitrate isotopes for exploring physical ocean processes. The high mesoscale variability that likely drives subsurface nitrate supply to Agulhas Current surface waters is common to all western boundary currents, implying that vertical nitrate entrainment is quantitatively significant in all such systems. We posit that along with N2 fixation, physical mechanisms of upward nitrate supply enhance ocean fertility and possibly carbon export in the South Indian Ocean. Higher rates of warming, and thus thermal stratification, are expected to decrease Indian Ocean productivity more rapidly in the future than that of other ocean basins. However, a coincident increase in eddy kinetic energy across boundary currents may enhance the upward nutrient supply, partially offsetting the stratification-driven decline in productivity

Nutrient fluxes in the greater Agulhas Current region: signals of local and remote Indian Ocean nitrogen cycling

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The Agulhas Current Transports Signals of Local and Remote Indian Ocean Nitrogen Cycling

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