Showing papers by "Louisiana State University published in 2019"
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TL;DR: In this paper, the authors improved initial estimates of the binary's properties, including component masses, spins, and tidal parameters, using the known source location, improved modeling, and recalibrated Virgo data.
Abstract: On August 17, 2017, the Advanced LIGO and Advanced Virgo gravitational-wave detectors observed a low-mass compact binary inspiral. The initial sky localization of the source of the gravitational-wave signal, GW170817, allowed electromagnetic observatories to identify NGC 4993 as the host galaxy. In this work, we improve initial estimates of the binary's properties, including component masses, spins, and tidal parameters, using the known source location, improved modeling, and recalibrated Virgo data. We extend the range of gravitational-wave frequencies considered down to 23 Hz, compared to 30 Hz in the initial analysis. We also compare results inferred using several signal models, which are more accurate and incorporate additional physical effects as compared to the initial analysis. We improve the localization of the gravitational-wave source to a 90% credible region of 16 deg2. We find tighter constraints on the masses, spins, and tidal parameters, and continue to find no evidence for nonzero component spins. The component masses are inferred to lie between 1.00 and 1.89 M when allowing for large component spins, and to lie between 1.16 and 1.60 M (with a total mass 2.73-0.01+0.04 M) when the spins are restricted to be within the range observed in Galactic binary neutron stars. Using a precessing model and allowing for large component spins, we constrain the dimensionless spins of the components to be less than 0.50 for the primary and 0.61 for the secondary. Under minimal assumptions about the nature of the compact objects, our constraints for the tidal deformability parameter Λ are (0,630) when we allow for large component spins, and 300-230+420 (using a 90% highest posterior density interval) when restricting the magnitude of the component spins, ruling out several equation-of-state models at the 90% credible level. Finally, with LIGO and GEO600 data, we use a Bayesian analysis to place upper limits on the amplitude and spectral energy density of a possible postmerger signal.
715 citations
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TL;DR: Credible sets of mammalian phylogenetic history are developed, enabling investigations of long-standing questions in comparative biology, and finding that node ages are broadly concordant among studies, and recent rates of speciation are estimated more accurately in this study than in previous "supertree" approaches.
Abstract: Big, time-scaled phylogenies are fundamental to connecting evolutionary processes to modern biodiversity patterns. Yet inferring reliable phylogenetic trees for thousands of species involves numerous trade-offs that have limited their utility to comparative biologists. To establish a robust evolutionary timescale for all approximately 6,000 living species of mammals, we developed credible sets of trees that capture root-to-tip uncertainty in topology and divergence times. Our “backbone-and-patch” approach to tree building applies a newly assembled 31-gene supermatrix to two levels of Bayesian inference: (1) backbone relationships and ages among major lineages, using fossil node or tip dating, and (2) species-level “patch” phylogenies with nonoverlapping in-groups that each correspond to one representative lineage in the backbone. Species unsampled for DNA are either excluded (“DNA-only” trees) or imputed within taxonomic constraints using branch lengths drawn from local birth–death models (“completed” trees). Joining time-scaled patches to backbones results in species-level trees of extant Mammalia with all branches estimated under the same modeling framework, thereby facilitating rate comparisons among lineages as disparate as marsupials and placentals. We compare our phylogenetic trees to previous estimates of mammal-wide phylogeny and divergence times, finding that (1) node ages are broadly concordant among studies, and (2) recent (tip-level) rates of speciation are estimated more accurately in our study than in previous “supertree” approaches, in which unresolved nodes led to branch-length artifacts. Credible sets of mammalian phylogenetic history are now available for download at http://vertlife.org/phylosubsets, enabling investigations of long-standing questions in comparative biology.
510 citations
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TL;DR: In this paper, the mass, spin, and redshift distributions of binary black hole (BBH) mergers with LIGO and Advanced Virgo observations were analyzed using phenomenological population models.
Abstract: We present results on the mass, spin, and redshift distributions with phenomenological population models using the 10 binary black hole (BBH) mergers detected in the first and second observing runs completed by Advanced LIGO and Advanced Virgo. We constrain properties of the BBH mass spectrum using models with a range of parameterizations of the BBH mass and spin distributions. We find that the mass distribution of the more massive BH in such binaries is well approximated by models with no more than 1% of BHs more massive than 45 M and a power-law index of (90% credibility). We also show that BBHs are unlikely to be composed of BHs with large spins aligned to the orbital angular momentum. Modeling the evolution of the BBH merger rate with redshift, we show that it is flat or increasing with redshift with 93% probability. Marginalizing over uncertainties in the BBH population, we find robust estimates of the BBH merger rate density of R= (90% credibility). As the BBH catalog grows in future observing runs, we expect that uncertainties in the population model parameters will shrink, potentially providing insights into the formation of BHs via supernovae, binary interactions of massive stars, stellar cluster dynamics, and the formation history of BHs across cosmic time.
464 citations
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TL;DR: In this paper, the authors place constraints on the dipole radiation and possible deviations from GR in the post-Newtonian coefficients that govern the inspiral regime of a binary neutron star inspiral.
Abstract: The recent discovery by Advanced LIGO and Advanced Virgo of a gravitational wave signal from a binary neutron star inspiral has enabled tests of general relativity (GR) with this new type of source. This source, for the first time, permits tests of strong-field dynamics of compact binaries in the presence of matter. In this Letter, we place constraints on the dipole radiation and possible deviations from GR in the post-Newtonian coefficients that govern the inspiral regime. Bounds on modified dispersion of gravitational waves are obtained; in combination with information from the observed electromagnetic counterpart we can also constrain effects due to large extra dimensions. Finally, the polarization content of the gravitational wave signal is studied. The results of all tests performed here show good agreement with GR.
430 citations
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TL;DR: PICRUSt2 as mentioned in this paper extends the capabilities of the original PICrUSt method to predict approximate functional potential of a community based on marker gene sequencing profiles, including an expanded database of gene families and reference genomes, a new approach compatible with any OTU-picking or denoising algorithm, novel phenotype predictions, and novel fungal reference databases that enable predictions from 18S rRNA gene and internal transcribed spacer amplicon data.
Abstract: One major limitation of microbial community marker gene sequencing is that it does not provide direct information on the functional composition of sampled communities. Here, we present PICRUSt2, which expands the capabilities of the original PICRUSt method to predict approximate functional potential of a community based on marker gene sequencing profiles. This updated method and implementation includes several improvements over the previous algorithm: an expanded database of gene families and reference genomes, a new approach now compatible with any OTU-picking or denoising algorithm, novel phenotype predictions, and novel fungal reference databases that enable predictions from 18S rRNA gene and internal transcribed spacer amplicon data. Upon evaluation, PICRUSt2 was more accurate than PICRUSt1 and other current approaches and also more flexible to allow the addition of custom reference databases. Last, we demonstrate the utility of PICRUSt2 by identifying potential disease-associated microbial functional signatures based on 16S rRNA gene sequencing of ileal biopsies collected from a cohort of human subjects with inflammatory bowel disease. PICRUSt2 is freely available at: https://github.com/picrust/picrust2.
422 citations
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TL;DR: During the ongoing O3 observation run, squeezed states are improving the sensitivity of the LIGO interferometers to signals above 50 Hz by up to 3 dB, thereby increasing the expected detection rate by 40% and 50% respectively.
Abstract: The Laser Interferometer Gravitational Wave Observatory (LIGO) has been directly detecting gravitational waves from compact binary mergers since 2015. We report on the first use of squeezed vacuum states in the direct measurement of gravitational waves with the Advanced LIGO H1 and L1 detectors. This achievement is the culmination of decades of research to implement squeezed states in gravitational-wave detectors. During the ongoing O3 observation run, squeezed states are improving the sensitivity of the LIGO interferometers to signals above 50 Hz by up to 3 dB, thereby increasing the expected detection rate by 40% (H1) and 50% (L1).
422 citations
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419 citations
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Caroline M. Nievergelt1, Caroline M. Nievergelt2, Adam X. Maihofer1, Adam X. Maihofer2 +210 more•Institutions (54)
TL;DR: A GWAS from the Psychiatric Genomics Consortium is reported in which two risk loci in European ancestry and one locus in African ancestry individuals are identified and it is found that PTSD is genetically correlated with several other psychiatric traits.
Abstract: The risk of posttraumatic stress disorder (PTSD) following trauma is heritable, but robust common variants have yet to be identified. In a multi-ethnic cohort including over 30,000 PTSD cases and 170,000 controls we conduct a genome-wide association study of PTSD. We demonstrate SNP-based heritability estimates of 5-20%, varying by sex. Three genome-wide significant loci are identified, 2 in European and 1 in African-ancestry analyses. Analyses stratified by sex implicate 3 additional loci in men. Along with other novel genes and non-coding RNAs, a Parkinson's disease gene involved in dopamine regulation, PARK2, is associated with PTSD. Finally, we demonstrate that polygenic risk for PTSD is significantly predictive of re-experiencing symptoms in the Million Veteran Program dataset, although specific loci did not replicate. These results demonstrate the role of genetic variation in the biology of risk for PTSD and highlight the necessity of conducting sex-stratified analyses and expanding GWAS beyond European ancestry populations.
305 citations
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TL;DR: The results demonstrate an electronic topological state of matter on structurally chiral crystals featuring helicoid-arc quantum states that could be used to detect a quantized photogalvanic optical response, the chiral magnetic effect and other optoelectronic phenomena predicted for this class of materials.
Abstract: The quantum behaviour of electrons in materials is the foundation of modern electronics and information technology1-11, and quantum materials with topological electronic and optical properties are essential for realizing quantized electronic responses that can be used for next generation technology. Here we report the first observation of topological quantum properties of chiral crystals6,7 in the RhSi family. We find that this material class hosts a quantum phase of matter that exhibits nearly ideal topological surface properties originating from the crystals' structural chirality. Electrons on the surface of these crystals show a highly unusual helicoid fermionic structure that spirals around two high-symmetry momenta, indicating electronic topological chirality. The existence of bulk multiply degenerate band fermions is guaranteed by the crystal symmetries; however, to determine the topological invariant or charge in these chiral crystals, it is essential to identify and study the helicoid topology of the arc states. The helicoid arcs that we observe on the surface characterize the topological charges of ±2, which arise from bulk higher-spin chiral fermions. These topological conductors exhibit giant Fermi arcs of maximum length (π), which are orders of magnitude larger than those found in known chiral Weyl fermion semimetals5,8-11. Our results demonstrate an electronic topological state of matter on structurally chiral crystals featuring helicoid-arc quantum states. Such exotic multifold chiral fermion semimetal states could be used to detect a quantized photogalvanic optical response, the chiral magnetic effect and other optoelectronic phenomena predicted for this class of materials6.
280 citations
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Wageningen University and Research Centre1, University of Puerto Rico2, National Autonomous University of Mexico3, Colby College4, National Institute of Amazonian Research5, University of São Paulo6, Federal University of Pernambuco7, University of Alberta8, Paul Sabatier University9, University of Colorado Boulder10, International Institute of Minnesota11, University of Connecticut12, Smithsonian Tropical Research Institute13, Tulane University14, University of Stirling15, Clemson University16, Comisión Nacional para el Conocimiento y Uso de la Biodiversidad17, Universidade Federal de Minas Gerais18, Centro Agronómico Tropical de Investigación y Enseñanza19, Alexander von Humboldt Biological Resources Research Institute20, The Catholic University of America21, Colorado Mesa University22, State University of New York at Purchase23, University of Haifa24, University of Wisconsin-Madison25, Universidade Federal do Rio Grande do Sul26, Universidade Federal de Viçosa27, Costa Rica Institute of Technology28, University of Minnesota29, Pedagogical and Technological University of Colombia30, University of California, Santa Barbara31, Museu Paraense Emílio Goeldi32, University of California, Berkeley33, Columbia University34, New York Botanical Garden35, National University of Singapore36, Yale-NUS College37, Puerto Rico Department of Agriculture38, University of Amsterdam39, Louisiana State University40, University of Puerto Rico, Río Piedras41
TL;DR: This work assesses how tree species richness and composition recover during secondary succession across gradients in environmental conditions and anthropogenic disturbance in an unprecedented multisite analysis for the Neotropics.
Abstract: Old-growth tropical forests harbor an immense diversity of tree species but are rapidly being cleared, while secondary forests that regrow on abandoned agricultural lands increase in extent. We assess how tree species richness and composition recover during secondary succession across gradients in environmental conditions and anthropogenic disturbance in an unprecedented multisite analysis for the Neotropics. Secondary forests recover remarkably fast in species richness but slowly in species composition. Secondary forests take a median time of five decades to recover the species richness of old-growth forest (80% recovery after 20 years) based on rarefaction analysis. Full recovery of species composition takes centuries (only 34% recovery after 20 years). A dual strategy that maintains both old-growth forests and species-rich secondary forests is therefore crucial for biodiversity conservation in human-modified tropical landscapes.
273 citations
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TL;DR: It is shown that lignin self-aggregates to form highly hydrophobic and dynamically unique nanodomains, with extensive surface contacts to xylan, providing the structural foundation for optimization of post-harvest processing for biofuels and biomaterials.
Abstract: Lignin is a complex aromatic biopolymer that strengthens and waterproofs plant secondary cell walls, enabling mechanical stability in trees and long-distance water transport in xylem. Lignin removal is a key step in paper production and biomass conversion to biofuels, motivating efforts to re-engineer lignin biosynthesis. However, the physical nature of lignin’s interactions with wall polysaccharides is not well understood. Here we show that lignin self-aggregates to form highly hydrophobic and dynamically unique nanodomains, with extensive surface contacts to xylan. Solid-state NMR spectroscopy of intact maize stems, supported by dynamic nuclear polarization, reveals that lignin has abundant electrostatic interactions with the polar motifs of xylan. Lignin preferentially binds xylans with 3-fold or distorted 2-fold helical screw conformations, indicative of xylans not closely associated with cellulose. These findings advance our knowledge of the molecular-level organization of lignocellulosic biomass, providing the structural foundation for optimization of post-harvest processing for biofuels and biomaterials. The interactions of lignin with polysaccharides in plant secondary cell walls are not well understood. Here the authors employ solid-state NMR measurements to analyse intact stems of maize, Arabidopsis, switchgrass and rice and observe that lignin self-aggregates and forms highly hydrophobic microdomains that make extensive surface contacts to xylan.
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13 May 2019
TL;DR: This work proposes a variational hybrid quantum-classical algorithm called quantum-assisted quantum compiling (QAQC), and presents both gradient-free and gradient-based approaches to minimizing the cost of this algorithm's cost.
Abstract: Compiling quantum algorithms for near-term quantum computers (accounting for connectivity and native gate alphabets) is a major challenge that has received significant attention both by industry and academia. Avoiding the exponential overhead of classical simulation of quantum dynamics will allow compilation of larger algorithms, and a strategy for this is to evaluate an algorithm's cost on a quantum computer. To this end, we propose a variational hybrid quantum-classical algorithm called quantum-assisted quantum compiling (QAQC). In QAQC, we use the overlap between a target unitary $U$ and a trainable unitary $V$ as the cost function to be evaluated on the quantum computer. More precisely, to ensure that QAQC scales well with problem size, our cost involves not only the global overlap ${\rm Tr} (V^\dagger U)$ but also the local overlaps with respect to individual qubits. We introduce novel short-depth quantum circuits to quantify the terms in our cost function, and we prove that our cost cannot be efficiently approximated with a classical algorithm under reasonable complexity assumptions. We present both gradient-free and gradient-based approaches to minimizing this cost. As a demonstration of QAQC, we compile various one-qubit gates on IBM's and Rigetti's quantum computers into their respective native gate alphabets. Furthermore, we successfully simulate QAQC up to a problem size of 9 qubits, and these simulations highlight both the scalability of our cost function as well as the noise resilience of QAQC. Future applications of QAQC include algorithm depth compression, black-box compiling, noise mitigation, and benchmarking.
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TL;DR: In this paper, a global analysis of mangrove canopy height gradients and aboveground carbon stocks based on remotely sensed measurements and field data is presented, highlighting that precipitation, temperature and cyclone frequency explain 74% of the global trends in maximum canopy height, with other geophysical factors influencing the observed variability at local and regional scales.
Abstract: Mangrove wetlands are among the most productive and carbon-dense ecosystems in the world. Their structural attributes vary considerably across spatial scales, yielding large uncertainties in regional and global estimates of carbon stocks. Here, we present a global analysis of mangrove canopy height gradients and aboveground carbon stocks based on remotely sensed measurements and field data. Our study highlights that precipitation, temperature and cyclone frequency explain 74% of the global trends in maximum canopy height, with other geophysical factors influencing the observed variability at local and regional scales. We find the tallest mangrove forests in Gabon, equatorial Africa, where stands attain 62.8 m. The total global mangrove carbon stock (above- and belowground biomass, and soil) is estimated at 5.03 Pg, with a quarter of this value stored in Indonesia. Our analysis implies sensitivity of mangrove structure to climate change, and offers a baseline to monitor national and regional trends in mangrove carbon stocks. Mangrove canopy height varies strongly around the globe in response to climatic factors, according to a global analysis of remote sensing and field data.
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TL;DR: In this article, a flexible and self-healable electro-conductive hydrogels (ECHs) based on a polyvinyl alcohol-borax (PVAB) hydrogel and carbon nanotube-cellulose nanofiber (CNT-CNF) nanohybrids are reported.
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TL;DR: In this paper, the changes in cotton fibers after ball milling for 15, 45 and 120 min were analyzed with the Rietveld method; DNP (dynamic nuclear polarization) natural abundance 2D NMR studies in the next paper assisted with the interpretation of the 1D analyses in the present work.
Abstract: Cellulose is often described as a mixture of crystalline and amorphous material. A large part of the general understanding of the chemical, biochemical and physical properties of cellulosic materials is thought to depend on the consequences of the ratio of these components. For example, amorphous materials are said to be more reactive and have less tensile strength but comprehensive understanding and definitive analysis remain elusive. Ball milling has been used for decades to increase the ratio of amorphous material. The present work used 13 techniques to follow the changes in cotton fibers (nearly pure cellulose) after ball milling for 15, 45 and 120 min. X-ray diffraction results were analyzed with the Rietveld method; DNP (dynamic nuclear polarization) natural abundance 2D NMR studies in the next paper in this issue assisted with the interpretation of the 1D analyses in the present work. A conventional NMR model’s paracrystalline and inaccessible crystallite surfaces were not needed in the model used for the DNP studies. Sum frequency generation (SFG) spectroscopy also showed profound changes as the cellulose was decrystallized. Optical microscopy and field emission-scanning electron microscopy results showed the changes in particle size; molecular weight and carbonyl group analyses by gel permeation chromatography confirmed chemical changes. Specific surface areas and pore sizes increased. Fourier transform infrared (FTIR) and Raman spectroscopy also indicated progressive changes; some proposed indicators of crystallinity for FTIR were not in good agreement with our results. Thermogravimetric analysis results indicated progressive increase in initial moisture content and some loss in stability. Although understanding of structural changes as cellulose is amorphized by ball milling is increased by this work, continued effort is needed to improve agreement between the synchrotron and laboratory X-ray methods used herein and to provide physical interpretation of the SFG results.
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TL;DR: This work analyzed both centralized and decentralized systems for unknown distribution function of the random variables through a distribution-free approach and also for known distribution function and examines the effect of delivery lead time and customers’ channel preference on the optimal operation.
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TL;DR: Large-scale aptamer-based scanning of plasma proteins coupled with machine learning demonstrates proof-of-concept and feasibility of an individualized health check using a single blood sample and is anticipate that, with further validation and the addition of more protein-phenotype models, this approach could enable a single-source, individualized so-called liquid health check.
Abstract: Proteins are effector molecules that mediate the functions of genes1,2 and modulate comorbidities3–10, behaviors and drug treatments11. They represent an enormous potential resource for personalized, systemic and data-driven diagnosis, prevention, monitoring and treatment. However, the concept of using plasma proteins for individualized health assessment across many health conditions simultaneously has not been tested. Here, we show that plasma protein expression patterns strongly encode for multiple different health states, future disease risks and lifestyle behaviors. We developed and validated protein-phenotype models for 11 different health indicators: liver fat, kidney filtration, percentage body fat, visceral fat mass, lean body mass, cardiopulmonary fitness, physical activity, alcohol consumption, cigarette smoking, diabetes risk and primary cardiovascular event risk. The analyses were prospectively planned, documented and executed at scale on archived samples and clinical data, with a total of ~85 million protein measurements in 16,894 participants. Our proof-of-concept study demonstrates that protein expression patterns reliably encode for many different health issues, and that large-scale protein scanning12–16 coupled with machine learning is viable for the development and future simultaneous delivery of multiple measures of health. We anticipate that, with further validation and the addition of more protein-phenotype models, this approach could enable a single-source, individualized so-called liquid health check. Large-scale aptamer-based scanning of plasma proteins coupled with machine learning demonstrates proof-of-concept and feasibility of an individualized health check using a single blood sample.
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TL;DR: In this paper, low-crystalline bimetallic transition metal-organic frameworks (MOFs) are constructed via inducing exotic metal ions, and the formation process is revealed by experimental and theoretical methods.
Abstract: Developing efficient, stable, and low-cost catalysts for oxygen evolution reaction (OER) is highly desired in water splitting and metal–air batteries. Transition metal–organic frameworks (MOFs) have emerged as promising catalysts and have been intensively investigated especially due to their tunable crystalline structure. Unlike traditional strategies of tuning the morphology of well-crystalline MOFs, low-crystalline bimetallic MOFs are constructed via inducing exotic metal ions, and the formation process is revealed by experimental and theoretical methods. The low-crystalline bimetallic MOFs exhibit rich active sites due to local crystallinity and long-range disorder and deliver a small overpotential of 260 mV at 10 mA cm–2, a low Tafel slope of 35 mV dec–1, and a high Faradaic efficiency of 99.5% as oxygen evolution elecctrocatalysts. The work opens up a new avenue for the development of highly efficient earth-abundant catalysts in frontier potential applications.
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TL;DR: This investigation presents a comprehensive review of low back pain and discusses associated pathophysiology, diagnosis, and treatment.
Abstract: Low back pain encompasses three distinct sources: axial lumbosacral, radicular, and referred pain. Annually, the prevalence of low back pain in the general US adult population is 10–30%, and the lifetime prevalence of US adults is as high as 65–80%. Patient history, physical exam, and diagnostic testing are important components to accurate diagnosis and identification of patient pathophysiology. Etiologies of low back pain include myofascial pain, facet joint pain, sacroiliac joint pain, discogenic pain, spinal stenosis, and failed back surgery. In chronic back pain patients, a multidisciplinary, logical approach to treatment is most effective and can include multimodal medical, psychological, physical, and interventional approaches. Low back pain is a difficult condition to effectively treat and continues to affect millions of Americans every year. In the current investigation, we present a comprehensive review of low back pain and discuss associated pathophysiology, diagnosis, and treatment.
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TL;DR: This report presents the updated TOS 2018 position statement on obesity as a noncommunicable chronic disease, and the underlying mechanisms leading to excess adiposity and the associated structural, cardiometabolic, and functional disturbances.
Abstract: The emerging obesity epidemic and accompanying health consequences led The Obesity Society (TOS) in 2008 to publish a position paper defining obesity as a disease. Since then, new information has emerged on the underlying mechanisms leading to excess adiposity and the associated structural, cardiometabolic, and functional disturbances. This report presents the updated TOS 2018 position statement on obesity as a noncommunicable chronic disease.
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University of Georgia1, Cornell University2, University of California, San Diego3, Auburn University4, University of Tennessee5, Columbia University6, Spanish National Research Council7, Ensenada Center for Scientific Research and Higher Education8, University of Wisconsin-Madison9, Marshfield Clinic10, University of Alaska Fairbanks11, Louisiana State University12
TL;DR: The approach reduces start-up and per-sample costs by requiring only one universal adapter that works with indexed PCR primers to uniquely identify samples, and reduces buy-in costs because relatively few oligonucleotides are needed to produce a large number of indexed libraries.
Abstract: Massively parallel DNA sequencing offers many benefits, but major inhibitory cost factors include: (1) start-up (i.e., purchasing initial reagents and equipment); (2) buy-in (i.e., getting the smallest possible amount of data from a run); and (3) sample preparation. Reducing sample preparation costs is commonly addressed, but start-up and buy-in costs are rarely addressed. We present dual-indexing systems to address all three of these issues. By breaking the library construction process into universal, re-usable, combinatorial components, we reduce all costs, while increasing the number of samples and the variety of library types that can be combined within runs. We accomplish this by extending the Illumina TruSeq dual-indexing approach to 768 (384 + 384) indexed primers that produce 384 unique dual-indexes or 147,456 (384 × 384) unique combinations. We maintain eight nucleotide indexes, with many that are compatible with Illumina index sequences. We synthesized these indexing primers, purifying them with only standard desalting and placing small aliquots in replicate plates. In qPCR validation tests, 206 of 208 primers tested passed (99% success). We then created hundreds of libraries in various scenarios. Our approach reduces start-up and per-sample costs by requiring only one universal adapter that works with indexed PCR primers to uniquely identify samples. Our approach reduces buy-in costs because: (1) relatively few oligonucleotides are needed to produce a large number of indexed libraries; and (2) the large number of possible primers allows researchers to use unique primer sets for different projects, which facilitates pooling of samples during sequencing. Our libraries make use of standard Illumina sequencing primers and index sequence length and are demultiplexed with standard Illumina software, thereby minimizing customization headaches. In subsequent Adapterama papers, we use these same primers with different adapter stubs to construct amplicon and restriction-site associated DNA libraries, but their use can be expanded to any type of library sequenced on Illumina platforms.
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Louisiana State University1, University of Cambridge2, University of Bath3, University of Minnesota4, Museu Paraense Emílio Goeldi5, University of New Mexico6, Swedish University of Agricultural Sciences7, Uppsala University8, Chinese Academy of Sciences9, American Museum of Natural History10, University of Michigan11, University of Florida12, Smithsonian Institution13, University of Maryland, College Park14, University of São Paulo15, Harvard University16, National Museum of Natural History17, University of Toronto18, Royal Ontario Museum19, National University of Colombia20, University of Tennessee21, University of Georgia22, University of Copenhagen23, Commonwealth Scientific and Industrial Research Organisation24, Pennsylvania State University25, Museum of New Zealand Te Papa Tongarewa26, University of Kansas27
TL;DR: Recon reconstructing passerine evolutionary history and producing the most comprehensive time-calibrated phylogenetic hypothesis of the group, which suggests more complex mechanisms than temperature change or ecological opportunity have controlled macroscale patterns of passerine speciation.
Abstract: Avian diversification has been influenced by global climate change, plate tectonic movements, and mass extinction events. However, the impact of these factors on the diversification of the hyperdiverse perching birds (passerines) is unclear because family level relationships are unresolved and the timing of splitting events among lineages is uncertain. We analyzed DNA data from 4,060 nuclear loci and 137 passerine families using concatenation and coalescent approaches to infer a comprehensive phylogenetic hypothesis that clarifies relationships among all passerine families. Then, we calibrated this phylogeny using 13 fossils to examine the effects of different events in Earth history on the timing and rate of passerine diversification. Our analyses reconcile passerine diversification with the fossil and geological records; suggest that passerines originated on the Australian landmass ∼47 Ma; and show that subsequent dispersal and diversification of passerines was affected by a number of climatological and geological events, such as Oligocene glaciation and inundation of the New Zealand landmass. Although passerine diversification rates fluctuated throughout the Cenozoic, we find no link between the rate of passerine diversification and Cenozoic global temperature, and our analyses show that the increases in passerine diversification rate we observe are disconnected from the colonization of new continents. Taken together, these results suggest more complex mechanisms than temperature change or ecological opportunity have controlled macroscale patterns of passerine speciation.
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TL;DR: A timely review on recent progresses and challenges in various cathode materials and electrolytes (aqueous, organic, and solid-state electrolytes) in ZIBs shows high potential for portable electronic applications and large-scale energy storage systems.
Abstract: The increasing demands for environmentally friendly grid-scale electric energy storage devices with high energy density and low cost have stimulated the rapid development of various energy storage systems, due to the environmental pollution and energy crisis caused by traditional energy storage technologies. As one of the new and most promising alternative energy storage technologies, zinc-ion rechargeable batteries have recently received much attention owing to their high abundance of zinc in natural resources, intrinsic safety, and cost effectiveness, when compared with the popular, but unsafe and expensive lithium-ion batteries. In particular, the use of mild aqueous electrolytes in zinc-ion batteries (ZIBs) demonstrates high potential for portable electronic applications and large-scale energy storage systems. Moreover, the development of superior electrolyte operating at either high temperature or subzero condition is crucial for practical applications of ZIBs in harsh environments, such as aerospace, airplanes, or submarines. However, there are still many existing challenges that need to be resolved. This paper presents a timely review on recent progresses and challenges in various cathode materials and electrolytes (aqueous, organic, and solid-state electrolytes) in ZIBs. Design and synthesis of zinc-based anode materials and separators are also briefly discussed.
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TL;DR: Several proxies that can be used to understand evolving plasticity in the context of climate change are explored, including space for time substitutions, experimental evolution and tests for genomic divergence at environmentally responsive loci.
Abstract: Theory suggests that evolutionary changes in phenotypic plasticity could either hinder or facilitate evolutionary rescue in a changing climate. Nevertheless, the actual role of evolving plasticity ...
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TL;DR: Wang et al. show spin-polarized carriers injection into methylammonium lead bromide films with long lifetime and realize spin LEDs and spin valves, initiating the field of hybrid perovskites spin-related optoelectronic applications.
Abstract: Recently the hybrid organic-inorganic trihalide perovskites have shown remarkable performance as active layers in photovoltaic and other optoelectronic devices. However, their spin characteristic properties have not been fully studied, although due to the relatively large spin-orbit coupling these materials may show great promise for spintronic applications. Here we demonstrate spin-polarized carrier injection into methylammonium lead bromide films from metallic ferromagnetic electrodes in two spintronic-based devices: a 'spin light emitting diode' that results in circularly polarized electroluminescence emission; and a 'vertical spin valve' that shows giant magnetoresistance. In addition, we also apply a magnetic field perpendicular to the injected spins orientation for measuring the 'Hanle effect', from which we obtain a relatively long spin lifetime for the electrically injected carriers. Our measurements initiate the field of hybrid perovskites spin-related optoelectronic applications.
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TL;DR: M mice ate quickly, imposing periods of extended daily fasting on themselves that produced significant improvements in morbidity and mortality compared with AL mice, which has major implications for human health and clinical applicability.
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TL;DR: In this article, defect-engineered MoS2-x nanosheets were used as a cathode material for Zn ion cells, which showed a preferential insertion of Zn ions into sulfur vacancies, allowing a much greater capacity to be obtained compared to pure MoS 2.
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TL;DR: It is shown that, apart from a dry period in the middle Cretaceous, a monsoon system has existed in East Asia since at least the Early Cret Jurassic, with little influence from atmospheric CO2.
Abstract: The East Asian monsoon plays an integral role in human society, yet its geological history and controlling processes are poorly understood. Using a general circulation model and geological data, we explore the drivers controlling the evolution of the monsoon system over the past 150 million years. In contrast to previous work, we find that the monsoon is controlled primarily by changes in paleogeography, with little influence from atmospheric CO2. We associate increased precipitation since the Late Cretaceous with the gradual uplift of the Himalayan-Tibetan region, transitioning from an ITCZ-dominated monsoon to a sea breeze–dominated monsoon. The rising region acted as a mechanical barrier to cold and dry continental air advecting into the region, leading to increasing influence of moist air from the Indian Ocean/South China Sea. We show that, apart from a dry period in the middle Cretaceous, a monsoon system has existed in East Asia since at least the Early Cretaceous.
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TL;DR: Even though the primary symptoms of attention-deficit hyperactivity disorder (ADHD) do not reflect problems in interpersonal functioning, many affected children experience seriously disturbed peer as discussed by the authors, and they seek help from professionals.
Abstract: Even though the primary symptoms of attention-deficit hyperactivity disorder (ADHD) do not reflect problems in interpersonal functioning, many affected children experience seriously disturbed peer ...
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University of California, San Diego1, National Oceanography Centre2, University of Texas at Austin3, Alfred Wegener Institute for Polar and Marine Research4, University Corporation for Atmospheric Research5, Monterey Bay Aquarium Research Institute6, Memorial University of Newfoundland7, University of Glasgow8, Office of Ocean Exploration and Research9, Louisiana State University10, University of Technology, Sydney11, University of the Azores12, National Oceanic and Atmospheric Administration13, New South Wales Department of Primary Industries14, Monterey Institute of International Studies15, Japan Agency for Marine-Earth Science and Technology16, University of Washington17, Centre national de la recherche scientifique18, Deakin University19, Australian Institute of Marine Science20, University of Geneva21, Chinese Academy of Sciences22, National Institute of Ocean Technology23, Woods Hole Oceanographic Institution24
TL;DR: In this article, the authors discuss the scientific need for globally integrated deep-ocean observing, its status, and the key scientific questions and societal mandates driving observing requirements over the next decade.
Abstract: The deep ocean below 200 m water depth is the least observed, but largest habitat on our planet by volume and area. Over 150 years of exploration has revealed that this dynamic system provides critical climate regulation, houses a wealth of energy, mineral, and biological resources, and represents a vast repository of biological diversity. A long history of deep-ocean exploration and observation led to the initial concept for the Deep-Ocean Observing Strategy (DOOS), under the auspices of the Global Ocean Observing System (GOOS). Here we discuss the scientific need for globally integrated deep-ocean observing, its status, and the key scientific questions and societal mandates driving observing requirements over the next decade. We consider the Essential Ocean Variables (EOVs) needed to address deep-ocean challenges within the physical, biogeochemical, and biological/ecosystem sciences according to the Framework for Ocean Observing (FOO), and map these onto scientific questions. Opportunities for new and expanded synergies among deep-ocean stakeholders are discussed, including academic-industry partnerships with the oil and gas, mining, cable and fishing industries, the ocean exploration and mapping community, and biodiversity conservation initiatives. Future deep-ocean observing will benefit from the greater integration across traditional disciplines and sectors, achieved through demonstration projects and facilitated reuse and repurposing of existing deep-sea data efforts. We highlight examples of existing and emerging deep-sea methods and technologies, noting key challenges associated with data volume, preservation, standardization, and accessibility. Emerging technologies relevant to deep-ocean sustainability and the blue economy include novel genomics approaches, imaging technologies, and ultra-deep hydrographic measurements. Capacity building will be necessary to integrate capabilities into programs and projects at a global scale. Progress can be facilitated by Open Science and Findable, Accessible, Interoperable, Reusable (FAIR) data principles and converge on agreed to data standards, practices, vocabularies, and registries. We envision expansion of the deep-ocean observing community to embrace the participation of academia, industry, NGOs, national governments, international governmental organizations, and the public at large in order to unlock critical knowledge contained in the deep ocean over coming decades, and to realize the mutual benefits of thoughtful deep-ocean observing for all elements of a sustainable ocean.