610 research outputs found

    Comparative genomics of actinomycetes with a focus on natural product biosynthetic genes

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    Narrow-line magneto-optical cooling and trapping of strongly magnetic atoms

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    Laser cooling on weak transitions is a useful technique for reaching ultracold temperatures in atoms with multiple valence electrons. However, for strongly magnetic atoms a conventional narrow-line magneto-optical trap (MOT) is destabilized by competition between optical and magnetic forces. We overcome this difficulty in Er by developing an unusual narrow-line MOT that balances optical and magnetic forces using laser light tuned to the blue side of a narrow (8 kHz) transition. The trap population is spin-polarized with temperatures reaching below 2 microkelvin. Our results constitute an alternative method for laser cooling on weak transitions, applicable to rare-earth-metal and metastable alkaline earth elements.Comment: To appear in Phys. Rev. Lett. 4 pages, 5 figure

    Late Cretaceous to Paleocene Metamorphism and Magmatism in the Funeral Mountains Metamorphic Core Complex, Death Valley, California

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    Amphibolite-facies Proterozoic metasedimentary rocks below the low-angle Cenozoic Boundary Canyon Detachment record deep crustal processes related to Mesozoic crustal thickening and subsequent extension. A 91.5 ± 1.4 Ma Th-Pb SHRIMP-RG (sensitive high-resolution ion microprobe–reverse geometry) monazite age from garnet-kyanite-staurolite schist constrains the age of prograde metamorphism in the lower plate. Between the Boundary Canyon Detachment and the structurally deeper, subparallel Monarch Spring fault, prograde metamorphic fabrics are overprinted by a pervasive greenschist-facies retrogression, high-strain subhorizontal mylonitic foliation, and a prominent WNW-ESE stretching lineation parallel to corrugations on the Boundary Canyon Detachment. Granitic pegmatite dikes are deformed, rotated into parallelism, and boudinaged within the mylonitic foliation. High-U zircons from one muscovite granite dike yield an 85.8 ± 1.4 Ma age. Below the Monarch Spring fault, retrogression is minor, and amphibolite-facies mineral elongation lineations plunge gently north to northeast. Multiple generations of variably deformed dikes, sills, and leucosomal segregations indicate a more complex history of partial melting and intrusion compared to that above the Monarch Spring fault, but thermobarometry on garnet amphibolites above and below the Monarch Spring fault record similar peak conditions of 620–680 °C and 7–9 kbar, indicating minor (\u3c3–5 km) structural omission across the Monarch Spring fault. Discordant SHRIMP-RG U-Pb zircon ages and 75–88 Ma Th-Pb monazite ages from leucosomal segregations in paragneisses suggest that partial melting of Proterozoic sedimentary protoliths was a source for the structurally higher 86 Ma pegmatites. Two weakly deformed two-mica leucogranite dikes that cut the high-grade metamorphic fabrics below the Monarch Spring fault yield 62.3 ± 2.6 and 61.7 ± 4.7 Ma U-Pb zircon ages, and contain 1.5–1.7 Ga cores. The similarity of metamorphic, leucosome, and pegmatite ages to the period of Sevier belt thrusting and the period of most voluminous Sierran arc magmatism suggests that both burial by thrusting and regional magmatic heating contributed to metamorphism and subsequent partial melting

    The AGeS2 (Awards for Geochronology Student research 2) Program: Supporting Community Geochronology Needs and Interdisciplinary Science

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    Geochronology is essential in the geosciences. It is used to resolve the durations and rates of earth processes, as well as test causative relationships among events. Such data are increasingly required to conduct cutting-edge, transformative, earth-science research. The growing need for geochronology is accompanied by strong demand to enhance the ability of labs to meet this pressure and to increase community awareness of how these data are produced and interpreted. For example, a 2015 National Science Foundation (NSF) report on opportunities and challenges for U.S. geochronology research noted: While there has never been a time when users have had greater access to geo-chronologic data, they remain, by and large, dissatisfied with the available style/ quantity/cost/efficiency (Harrison et al., 2015, p. 1). And the 2012 National Research Council NROES (New Research Opportunities in the Earth Sciences) report (Lay et al., 2012, p. 82) recommended: [NSF] EAR should explore new mechanisms for geochronology laboratories that will service the geochronology requirements of the broad suite of research opportunities while sustaining technical advances in methodologies. The AGeS (Awards for Geochronology Student research) program is one way that these calls are being answered

    Diversity and abundance of phosphonate biosynthetic genes in nature

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    Phosphonates, molecules containing direct carbon–phosphorus bonds, compose a structurally diverse class of natural products with interesting and useful biological properties. Although their synthesis in protozoa was discovered more than 50 y ago, the extent and diversity of phosphonate production in nature remains poorly characterized. The rearrangement of phosphoenolpyruvate (PEP) to phosphonopyruvate, catalyzed by the enzyme PEP mutase (PepM), is shared by the vast majority of known phosphonate biosynthetic pathways. Thus, the pepM gene can be used as a molecular marker to examine the occurrence and abundance of phosphonate-producing organisms. Based on the presence of this gene, phosphonate biosynthesis is common in microbes, with ∼5% of sequenced bacterial genomes and 7% of genome equivalents in metagenomic datasets carrying pepM homologs. Similarly, we detected the pepM gene in ∼5% of random actinomycete isolates. The pepM-containing gene neighborhoods from 25 of these isolates were cloned, sequenced, and compared with those found in sequenced genomes. PEP mutase sequence conservation is strongly correlated with conservation of other nearby genes, suggesting that the diversity of phosphonate biosynthetic pathways can be predicted by examining PEP mutase diversity. We used this approach to estimate the range of phosphonate biosynthetic pathways in nature, revealing dozens of discrete groups in pepM amplicons from local soils, whereas hundreds were observed in metagenomic datasets. Collectively, our analyses show that phosphonate biosynthesis is both diverse and relatively common in nature, suggesting that the role of phosphonate molecules in the biosphere may be more important than is often recognized

    No Rise in Incidence but Geographical Heterogeneity in the Occurrence of Primary Biliary Cirrhosis in North East England

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    In this study, we examined temporal changes in the incidence of primary biliary cirrhosis (PBC) and investigated associations between PBC incidence and sociodemographic factors and spatial clustering. We included 982 patients aged ≥40 years from North East England with incident PBC diagnosed during 1987–2003. Age-standardized incidence rates with 95% confidence intervals were calculated. Negative binomial regression was used to analyze incidence and socioeconomic deprivation. Clustering analysis was performed using point process methods, testing the null hypothesis that disease risk does not vary spatially and that PBC cases occur independently. The age-standardized incidence rate was 53.50 per million persons per year (95% confidence interval: 48.65, 58.35) in 1987–1994 and 45.09 per million persons per year (95% confidence interval: 41.10, 49.07) in 1995–2003. Risk of PBC increased in areas with higher levels of socioeconomic deprivation (P = 0.035). More specifically, risk increased in areas with higher levels of overcrowded homes (P = 0.040), higher levels of households without cars (P < 0.001), and higher levels of non-owner-occupied homes (P < 0.001). Overall, there was evidence of spatial clustering (P = 0.001). The findings confirm that overall incidence of PBC did not rise over time, but sociodemographic variations suggest that certain aspects of deprivation are involved in its etiology

    Granulovirus PK-1 kinase activity relies on a side-to-side dimerization mode centered on the regulatory αC helix

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    The life cycle of Baculoviridae family insect viruses depends on the viral protein kinase, PK-1, to phosphorylate the regulatory protein, p6.9, to induce baculoviral genome release. Here, we report the crystal structure of Cydia pomenella granulovirus PK-1, which, owing to its likely ancestral origin among host cell AGC kinases, exhibits a eukaryotic protein kinase fold. PK-1 occurs as a rigid dimer, where an antiparallel arrangement of the αC helices at the dimer core stabilizes PK-1 in a closed, active conformation. Dimerization is facilitated by C-lobe:C-lobe and N-lobe:N-lobe interactions between protomers, including the domain-swapping of an N-terminal helix that crowns a contiguous β-sheet formed by the two N-lobes. PK-1 retains a dimeric conformation in solution, which is crucial for catalytic activity. Our studies raise the prospect that parallel, side-to-side dimeric arrangements that lock kinase domains in a catalytically-active conformation could function more broadly as a regulatory mechanism among eukaryotic protein kinases

    Quantum teleportation on a photonic chip

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    Quantum teleportation is a fundamental concept in quantum physics which now finds important applications at the heart of quantum technology including quantum relays, quantum repeaters and linear optics quantum computing (LOQC). Photonic implementations have largely focussed on achieving long distance teleportation due to its suitability for decoherence-free communication. Teleportation also plays a vital role in the scalability of photonic quantum computing, for which large linear optical networks will likely require an integrated architecture. Here we report the first demonstration of quantum teleportation in which all key parts - entanglement preparation, Bell-state analysis and quantum state tomography - are performed on a reconfigurable integrated photonic chip. We also show that a novel element-wise characterisation method is critical to mitigate component errors, a key technique which will become increasingly important as integrated circuits reach higher complexities necessary for quantum enhanced operation.Comment: Originally submitted version - refer to online journal for accepted manuscript; Nature Photonics (2014
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