Showing papers by "University of New Hampshire published in 2016"
University of East Anglia1, University of Oslo2, Commonwealth Scientific and Industrial Research Organisation3, University of Exeter4, Oak Ridge National Laboratory5, National Oceanic and Atmospheric Administration6, Woods Hole Research Center7, University of California, San Diego8, Karlsruhe Institute of Technology9, Cooperative Institute for Marine and Atmospheric Studies10, Centre national de la recherche scientifique11, University of Maryland, College Park12, National Institute of Water and Atmospheric Research13, Woods Hole Oceanographic Institution14, Flanders Marine Institute15, Alfred Wegener Institute for Polar and Marine Research16, Netherlands Environmental Assessment Agency17, University of Illinois at Urbana–Champaign18, Leibniz Institute of Marine Sciences19, Max Planck Society20, University of Paris21, Hobart Corporation22, Oeschger Centre for Climate Change Research23, University of Bern24, National Center for Atmospheric Research25, University of Miami26, Council of Scientific and Industrial Research27, University of Colorado Boulder28, National Institute for Environmental Studies29, Joint Institute for the Study of the Atmosphere and Ocean30, Geophysical Institute, University of Bergen31, Goddard Space Flight Center32, Montana State University33, University of New Hampshire34, Bjerknes Centre for Climate Research35, Imperial College London36, Lamont–Doherty Earth Observatory37, Auburn University38, Wageningen University and Research Centre39, VU University Amsterdam40, Met Office41
TL;DR: In this article, the authors quantify all major components of the global carbon budget, including their uncertainties, based on the combination of a range of data, algorithms, statistics, and model estimates and their interpretation by a broad scientific community.
Abstract: . Accurate assessment of anthropogenic carbon dioxide (CO2) emissions and their redistribution among the atmosphere, ocean, and terrestrial biosphere – the “global carbon budget” – is important to better understand the global carbon cycle, support the development of climate policies, and project future climate change. Here we describe data sets and methodology to quantify all major components of the global carbon budget, including their uncertainties, based on the combination of a range of data, algorithms, statistics, and model estimates and their interpretation by a broad scientific community. We discuss changes compared to previous estimates and consistency within and among components, alongside methodology and data limitations. CO2 emissions from fossil fuels and industry (EFF) are based on energy statistics and cement production data, respectively, while emissions from land-use change (ELUC), mainly deforestation, are based on combined evidence from land-cover change data, fire activity associated with deforestation, and models. The global atmospheric CO2 concentration is measured directly and its rate of growth (GATM) is computed from the annual changes in concentration. The mean ocean CO2 sink (SOCEAN) is based on observations from the 1990s, while the annual anomalies and trends are estimated with ocean models. The variability in SOCEAN is evaluated with data products based on surveys of ocean CO2 measurements. The global residual terrestrial CO2 sink (SLAND) is estimated by the difference of the other terms of the global carbon budget and compared to results of independent dynamic global vegetation models. We compare the mean land and ocean fluxes and their variability to estimates from three atmospheric inverse methods for three broad latitude bands. All uncertainties are reported as ±1σ, reflecting the current capacity to characterise the annual estimates of each component of the global carbon budget. For the last decade available (2006–2015), EFF was 9.3 ± 0.5 GtC yr−1, ELUC 1.0 ± 0.5 GtC yr−1, GATM 4.5 ± 0.1 GtC yr−1, SOCEAN 2.6 ± 0.5 GtC yr−1, and SLAND 3.1 ± 0.9 GtC yr−1. For year 2015 alone, the growth in EFF was approximately zero and emissions remained at 9.9 ± 0.5 GtC yr−1, showing a slowdown in growth of these emissions compared to the average growth of 1.8 % yr−1 that took place during 2006–2015. Also, for 2015, ELUC was 1.3 ± 0.5 GtC yr−1, GATM was 6.3 ± 0.2 GtC yr−1, SOCEAN was 3.0 ± 0.5 GtC yr−1, and SLAND was 1.9 ± 0.9 GtC yr−1. GATM was higher in 2015 compared to the past decade (2006–2015), reflecting a smaller SLAND for that year. The global atmospheric CO2 concentration reached 399.4 ± 0.1 ppm averaged over 2015. For 2016, preliminary data indicate the continuation of low growth in EFF with +0.2 % (range of −1.0 to +1.8 %) based on national emissions projections for China and USA, and projections of gross domestic product corrected for recent changes in the carbon intensity of the economy for the rest of the world. In spite of the low growth of EFF in 2016, the growth rate in atmospheric CO2 concentration is expected to be relatively high because of the persistence of the smaller residual terrestrial sink (SLAND) in response to El Nino conditions of 2015–2016. From this projection of EFF and assumed constant ELUC for 2016, cumulative emissions of CO2 will reach 565 ± 55 GtC (2075 ± 205 GtCO2) for 1870–2016, about 75 % from EFF and 25 % from ELUC. This living data update documents changes in the methods and data sets used in this new carbon budget compared with previous publications of this data set (Le Quere et al., 2015b, a, 2014, 2013). All observations presented here can be downloaded from the Carbon Dioxide Information Analysis Center ( doi:10.3334/CDIAC/GCP_2016 ).
1,224 citations
TL;DR: To achieve mission objectives, the calibration determined on the ground will be refined in space to ensure all eight magnetometers are precisely inter-calibrated, and the information flow that provides the data on the rapid time scale needed for mission success is described.
Abstract: The success of the Magnetospheric Multiscale mission depends on the accurate measurement of the magnetic field on all four spacecraft. To ensure this success, two independently designed and built fluxgate magnetometers were developed, avoiding single-point failures. The magnetometers were dubbed the digital fluxgate (DFG), which uses an ASIC implementation and was supplied by the Space Research Institute of the Austrian Academy of Sciences and the analogue magnetometer (AFG) with a more traditional circuit board design supplied by the University of California, Los Angeles. A stringent magnetic cleanliness program was executed under the supervision of the Johns Hopkins University’s Applied Physics Laboratory. To achieve mission objectives, the calibration determined on the ground will be refined in space to ensure all eight magnetometers are precisely inter-calibrated. Near real-time data plays a key role in the transmission of high-resolution observations stored on board so rapid processing of the low-resolution data is required. This article describes these instruments, the magnetic cleanliness program, and the instrument pre-launch calibrations, the planned in-flight calibration program, and the information flow that provides the data on the rapid time scale needed for mission success.
977 citations
TL;DR: This work provides the first direct evidence that soil microbes produce chemically diverse, stable SOM, and shows that SOM accumulation is driven by distinct microbial communities more so than clay mineralogy, where microbial-derived Som accumulation is greatest in soils with higher fungal abundances and more efficient microbial biomass production.
Abstract: Soil organic matter (SOM) and the carbon and nutrients therein drive fundamental submicron- to global-scale biogeochemical processes and influence carbon-climate feedbacks. Consensus is emerging that microbial materials are an important constituent of stable SOM, and new conceptual and quantitative SOM models are rapidly incorporating this view. However, direct evidence demonstrating that microbial residues account for the chemistry, stability and abundance of SOM is still lacking. Further, emerging models emphasize the stabilization of microbial-derived SOM by abiotic mechanisms, while the effects of microbial physiology on microbial residue production remain unclear. Here we provide the first direct evidence that soil microbes produce chemically diverse, stable SOM. We show that SOM accumulation is driven by distinct microbial communities more so than clay mineralogy, where microbial-derived SOM accumulation is greatest in soils with higher fungal abundances and more efficient microbial biomass production. Soil microbes process plant remnants and are hypothesized to synthesize soil organic matter (SOM). Here, Kallenbach and colleagues directly measure chemically diverse and stable SOM derived from microbial communities in the absence of plant compounds.
853 citations
Pacific Northwest National Laboratory1, Yale University2, National Center for Atmospheric Research3, Marine Biological Laboratory4, Colorado State University5, Wageningen University and Research Centre6, University of California, Irvine7, Kansas State University8, University of Oregon9, Michigan Technological University10, University of Sydney11, University of Minnesota12, Duke University13, University of Tennessee14, University of Copenhagen15, Spanish National Research Council16, University of New Hampshire17, Northeast Normal University18, University of California, Berkeley19, University of Oklahoma20, Hungarian Academy of Sciences21, Swedish University of Agricultural Sciences22, University of Manchester23, Tsinghua University24, National University of Singapore25, Chinese Academy of Sciences26, University of Hohenheim27, University of Georgia28, Hampshire College29, Boston University30, University of Alaska Anchorage31
TL;DR: In this article, the authors present a comprehensive analysis of warming-induced changes in soil carbon stocks by assembling data from 49 field experiments located across North America, Europe and Asia, and provide estimates of soil carbon sensitivity to warming that may help to constrain Earth system model projections.
Abstract: The majority of the Earth's terrestrial carbon is stored in the soil. If anthropogenic warming stimulates the loss of this carbon to the atmosphere, it could drive further planetary warming. Despite evidence that warming enhances carbon fluxes to and from the soil, the net global balance between these responses remains uncertain. Here we present a comprehensive analysis of warming-induced changes in soil carbon stocks by assembling data from 49 field experiments located across North America, Europe and Asia. We find that the effects of warming are contingent on the size of the initial soil carbon stock, with considerable losses occurring in high-latitude areas. By extrapolating this empirical relationship to the global scale, we provide estimates of soil carbon sensitivity to warming that may help to constrain Earth system model projections. Our empirical relationship suggests that global soil carbon stocks in the upper soil horizons will fall by 30 ± 30 petagrams of carbon to 203 ± 161 petagrams of carbon under one degree of warming, depending on the rate at which the effects of warming are realized. Under the conservative assumption that the response of soil carbon to warming occurs within a year, a business-as-usual climate scenario would drive the loss of 55 ± 50 petagrams of carbon from the upper soil horizons by 2050. This value is around 12-17 per cent of the expected anthropogenic emissions over this period. Despite the considerable uncertainty in our estimates, the direction of the global soil carbon response is consistent across all scenarios. This provides strong empirical support for the idea that rising temperatures will stimulate the net loss of soil carbon to the atmosphere, driving a positive land carbon-climate feedback that could accelerate climate change.
787 citations
TL;DR: The authors present seven principles that have guided our thinking about emotional intelligence, some of them new, and reformulated our original ability model here guided by these principles, and present a new ability model based on these principles.
Abstract: This article presents seven principles that have guided our thinking about emotional intelligence, some of them new. We have reformulated our original ability model here guided by these principles,...
642 citations
TL;DR: This work concludes that the drift-barrier hypothesis is consistent with comparative measures of mutation rates, provides a simple explanation for the existence of error-prone polymerases and yields a formal counter-argument to the view that selection fine-tunes gene-specific mutation rates.
Abstract: Mutation is the source of genetic diversity on which natural selection acts, therefore understanding the rates of mutations is crucial for understanding evolutionary trajectories. In this Opinion article, the authors discuss how emerging experimental mutation-rate data from genome-wide sequencing studies, combined with population-genetic theory, can provide unifying explanations for the diversity in mutation rates between species and across genomic locations.
612 citations
TL;DR: The spin-plane double probe instrument (SDP) is part of the FIELDS instrument suite of the Magnetospheric Multiscale mission (MMS).
Abstract: The Spin-plane double probe instrument (SDP) is part of the FIELDS instrument suite of the Magnetospheric Multiscale mission (MMS). Together with the Axial double probe instrument (ADP) and the Electron Drift Instrument (EDI), SDP will measure the 3-D electric field with an accuracy of 0.5 mV/m over the frequency range from DC to 100 kHz. SDP consists of 4 biased spherical probes extended on 60 m long wire booms 90∘ apart in the spin plane, giving a 120 m baseline for each of the two spin-plane electric field components. The mechanical and electrical design of SDP is described, together with results from ground tests and calibration of the instrument.
591 citations
Southwest Research Institute1, University of New Hampshire2, University of California, Berkeley3, University of Maryland, College Park4, Goddard Space Flight Center5, University of Colorado Boulder6, Imperial College London7, West Virginia University8, Austrian Academy of Sciences9, Johns Hopkins University Applied Physics Laboratory10, University of California, Los Angeles11, University of Delaware12, Swedish Institute of Space Physics13, Royal Institute of Technology14, The Aerospace Corporation15, Advanced Technology Center16, Rice University17, Marshall Space Flight Center18
TL;DR: For example, NASA's magnetospheric multiscale (MMS) mission has found direct evidence for electron demagnetization and acceleration at sites along the sunward boundary of Earth's magnetosphere where the interplanetary magnetic field reconnects with the terrestrial magnetic field as discussed by the authors.
Abstract: Magnetic reconnection is a fundamental physical process in plasmas whereby stored magnetic energy is converted into heat and kinetic energy of charged particles Reconnection occurs in many astrophysical plasma environments and in laboratory plasmas Using measurements with very high time resolution, NASA's Magnetospheric Multiscale (MMS) mission has found direct evidence for electron demagnetization and acceleration at sites along the sunward boundary of Earth's magnetosphere where the interplanetary magnetic field reconnects with the terrestrial magnetic field We have (i) observed the conversion of magnetic energy to particle energy; (ii) measured the electric field and current, which together cause the dissipation of magnetic energy; and (iii) identified the electron population that carries the current as a result of demagnetization and acceleration within the reconnection diffusion/dissipation region
579 citations
University of California1, University of Minnesota2, Centre national de la recherche scientifique3, University of Colorado Boulder4, Goddard Space Flight Center5, Swedish Institute of Space Physics6, Queen Mary University of London7, University of New Hampshire8, Imperial College London9, University of Maryland, College Park10, Johns Hopkins University Applied Physics Laboratory11, United States Naval Research Laboratory12, University of Michigan13, Southwest Research Institute14, University of Chicago15, Praxis16, University of California, Los Angeles17
TL;DR: The scientific objectives targeted by the SPP/FIELDS instrument, the instrument design itself, and the instrument concept of operations and planned data products are described.
Abstract: NASA’s Solar Probe Plus (SPP) mission will make the first in situ measurements of the solar corona and the birthplace of the solar wind. The FIELDS instrument suite on SPP will make direct measurements of electric and magnetic fields, the properties of in situ plasma waves, electron density and temperature profiles, and interplanetary radio emissions, amongst other things. Here, we describe the scientific objectives targeted by the SPP/FIELDS instrument, the instrument design itself, and the instrument concept of operations and planned data products.
540 citations
TL;DR: The axial double probe (ADP) instrument on the magnetospheric multiscale (MMS) spacecraft has been used to measure DC electric field with a precision of ∼ 1.1mV/m, a resolution of ∼ 25μV/μ, and a range of ∼±1 V/m in most of the plasma environments MMS will encounter.
Abstract: The Axial Double Probe (ADP) instrument measures the DC to ∼100 kHz electric field along the spin axis of the Magnetospheric Multiscale (MMS) spacecraft (Burch et al., Space Sci. Rev., 2014, this issue), completing the vector electric field when combined with the spin plane double probes (SDP) (Torbert et al., Space Sci. Rev., 2014, this issue, Lindqvist et al., Space Sci. Rev., 2014, this issue). Two cylindrical sensors are separated by over 30 m tip-to-tip, the longest baseline on an axial DC electric field ever attempted in space. The ADP on each of the spacecraft consists of two identical, 12.67 m graphite coilable booms with second, smaller 2.25 m booms mounted on their ends. A significant effort was carried out to assure that the potential field of the MMS spacecraft acts equally on the two sensors and that photo- and secondary electron currents do not vary over the spacecraft spin. The ADP on MMS is expected to measure DC electric field with a precision of ∼1 mV/m, a resolution of ∼25 μV/m, and a range of ∼±1 V/m in most of the plasma environments MMS will encounter. The Digital Signal Processing (DSP) units on the MMS spacecraft are designed to perform analog conditioning, analog-to-digital (A/D) conversion, and digital processing on the ADP, SDP, and search coil magnetometer (SCM) (Le Contel et al., Space Sci. Rev., 2014, this issue) signals. The DSP units include digital filters, spectral processing, a high-speed burst memory, a solitary structure detector, and data compression. The DSP uses precision analog processing with, in most cases, >100 dB in dynamic range, better that −80 dB common mode rejection in electric field (E) signal processing, and better that −80 dB cross talk between the E and SCM (B) signals. The A/D conversion is at 16 bits with ∼1/4 LSB accuracy and ∼1 LSB noise. The digital signal processing is powerful and highly flexible allowing for maximum scientific return under a limited telemetry volume. The ADP and DSP are described in this article.
531 citations
University of Michigan1, Harvard University2, University of California, Berkeley3, Centre national de la recherche scientifique4, Massachusetts Institute of Technology5, École Polytechnique6, University of New Hampshire7, Marshall Space Flight Center8, University of Colorado Boulder9, University of Alabama in Huntsville10, Johns Hopkins University Applied Physics Laboratory11, Los Alamos National Laboratory12, Goddard Space Flight Center13, University of Iowa14, University of Texas at San Antonio15, Southwest Research Institute16, University of California, Los Angeles17
TL;DR: The Solar Wind Electrons Alphas and Protons (SWEAP) Investigation on Solar Probe Plus is a four sensor instrument suite that provides complete measurements of the electrons and ionized helium and hydrogen that constitute the bulk of solar wind and coronal plasma.
Abstract: The Solar Wind Electrons Alphas and Protons (SWEAP) Investigation on Solar Probe Plus is a four sensor instrument suite that provides complete measurements of the electrons and ionized helium and hydrogen that constitute the bulk of solar wind and coronal plasma. SWEAP consists of the Solar Probe Cup (SPC) and the Solar Probe Analyzers (SPAN). SPC is a Faraday Cup that looks directly at the Sun and measures ion and electron fluxes and flow angles as a function of energy. SPAN consists of an ion and electron electrostatic analyzer (ESA) on the ram side of SPP (SPAN-A) and an electron ESA on the anti-ram side (SPAN-B). The SPAN-A ion ESA has a time of flight section that enables it to sort particles by their mass/charge ratio, permitting differentiation of ion species. SPAN-A and -B are rotated relative to one another so their broad fields of view combine like the seams on a baseball to view the entire sky except for the region obscured by the heat shield and covered by SPC. Observations by SPC and SPAN produce the combined field of view and measurement capabilities required to fulfill the science objectives of SWEAP and Solar Probe Plus. SWEAP measurements, in concert with magnetic and electric fields, energetic particles, and white light contextual imaging will enable discovery and understanding of solar wind acceleration and formation, coronal and solar wind heating, and particle acceleration in the inner heliosphere of the solar system. SPC and SPAN are managed by the SWEAP Electronics Module (SWEM), which distributes power, formats onboard data products, and serves as a single electrical interface to the spacecraft. SWEAP data products include ion and electron velocity distribution functions with high energy and angular resolution. Full resolution data are stored within the SWEM, enabling high resolution observations of structures such as shocks, reconnection events, and other transient structures to be selected for download after the fact. This paper describes the implementation of the SWEAP Investigation, the driving requirements for the suite, expected performance of the instruments, and planned data products, as of mission preliminary design review.
University of New Hampshire1, Southwest Research Institute2, University of California, Los Angeles3, Austrian Academy of Sciences4, University of Colorado Boulder5, Royal Institute of Technology6, Swedish Institute of Space Physics7, University of Iowa8, Johns Hopkins University Applied Physics Laboratory9, Goddard Space Flight Center10, University of Oulu11
TL;DR: The FIELDS instrumentation suite on the Magnetospheric Multiscale (MMS) mission provides comprehensive measurements of the full vector magnetic and electric fields in the reconnection regions investigated by MMS, including the dayside magnetopause and the night-side magnetotail acceleration regions out to 25 Re.
Abstract: The FIELDS instrumentation suite on the Magnetospheric Multiscale (MMS) mission provides comprehensive measurements of the full vector magnetic and electric fields in the reconnection regions investigated by MMS, including the dayside magnetopause and the night-side magnetotail acceleration regions out to 25 Re. Six sensors on each of the four MMS spacecraft provide overlapping measurements of these fields with sensitive cross-calibrations both before and after launch. The FIELDS magnetic sensors consist of redundant flux-gate magnetometers (AFG and DFG) over the frequency range from DC to 64 Hz, a search coil magnetometer (SCM) providing AC measurements over the full whistler mode spectrum expected to be seen on MMS, and an Electron Drift Instrument (EDI) that calibrates offsets for the magnetometers. The FIELDS three-axis electric field measurements are provided by two sets of biased double-probe sensors (SDP and ADP) operating in a highly symmetric spacecraft environment to reduce significantly electrostatic errors. These sensors are complemented with the EDI electric measurements that are free from all local spacecraft perturbations. Cross-calibrated vector electric field measurements are thus produced from DC to 100 kHz, well beyond the upper hybrid resonance whose frequency provides an accurate determination of the local electron density. Due to its very large geometric factor, EDI also provides very high time resolution (∼1 ms) ambient electron flux measurements at a few selected energies near 1 keV. This paper provides an overview of the FIELDS suite, its science objectives and measurement requirements, and its performance as verified in calibration and cross-calibration procedures that result in anticipated errors less than 0.1 nT in B and 0.5 mV/m in E. Summaries of data products that result from FIELDS are also described, as well as algorithms for cross-calibration. Details of the design and performance characteristics of AFG/DFG, SCM, ADP, SDP, and EDI are provided in five companion papers.
University of East Anglia1, Bjerknes Centre for Climate Research2, Geophysical Institute, University of Bergen3, University of Paris4, University of Exeter5, Leibniz Institute of Marine Sciences6, University of Colorado Boulder7, Earth System Research Laboratory8, Columbia University9, Cooperative Research Centre10, Hobart Corporation11, Atlantic Oceanographic and Meteorological Laboratory12, University of Miami13, University of Southampton14, Federal University of Pernambuco15, State Oceanic Administration16, University of Gothenburg17, University of Alaska Fairbanks18, Norwegian Polar Institute19, University of Perpignan20, Council of Scientific and Industrial Research21, Commonwealth Scientific and Industrial Research Organisation22, University of Hawaii at Manoa23, Alfred Wegener Institute for Polar and Marine Research24, University of New Hampshire25, Institut de recherche pour le développement26, Plymouth Marine Laboratory27, Oak Ridge National Laboratory28, University of the Aegean29, Max Planck Society30, Japan Agency for Marine-Earth Science and Technology31, United States Geological Survey32, Japan Meteorological Agency33, Leibniz Association34, World Meteorological Organization35, National University of Ireland, Galway36
TL;DR: This ESSD "living data" publication documents the methods and data sets used for the assembly of this new version of the SOCAT data collection and compares these with those used for earlier versions of the data collection.
Abstract: . The Surface Ocean CO2 Atlas (SOCAT) is a synthesis of quality-controlled fCO2 (fugacity of carbon dioxide) values for the global surface oceans and coastal seas with regular updates. Version 3 of SOCAT has 14.7 million fCO2 values from 3646 data sets covering the years 1957 to 2014. This latest version has an additional 4.6 million fCO2 values relative to version 2 and extends the record from 2011 to 2014. Version 3 also significantly increases the data availability for 2005 to 2013. SOCAT has an average of approximately 1.2 million surface water fCO2 values per year for the years 2006 to 2012. Quality and documentation of the data has improved. A new feature is the data set quality control (QC) flag of E for data from alternative sensors and platforms. The accuracy of surface water fCO2 has been defined for all data set QC flags. Automated range checking has been carried out for all data sets during their upload into SOCAT. The upgrade of the interactive Data Set Viewer (previously known as the Cruise Data Viewer) allows better interrogation of the SOCAT data collection and rapid creation of high-quality figures for scientific presentations. Automated data upload has been launched for version 4 and will enable more frequent SOCAT releases in the future. High-profile scientific applications of SOCAT include quantification of the ocean sink for atmospheric carbon dioxide and its long-term variation, detection of ocean acidification, as well as evaluation of coupled-climate and ocean-only biogeochemical models. Users of SOCAT data products are urged to acknowledge the contribution of data providers, as stated in the SOCAT Fair Data Use Statement. This ESSD (Earth System Science Data) "living data" publication documents the methods and data sets used for the assembly of this new version of the SOCAT data collection and compares these with those used for earlier versions of the data collection (Pfeil et al., 2013; Sabine et al., 2013; Bakker et al., 2014). Individual data set files, included in the synthesis product, can be downloaded here: doi:10.1594/PANGAEA.849770 . The gridded products are available here: doi:10.3334/CDIAC/OTG.SOCAT_V3_GRID .
TL;DR: The 3XMM-DR5 dataset as mentioned in this paper contains 565,962 X-ray detections from the European Space Agency X-Ray observatory XMM-Newton.
Abstract: Context. Thanks to the large collecting area (3 ×~1500 cm2 at 1.5 keV) and wide field of view (30′ across in full field mode) of the X-ray cameras on board the European Space Agency X-ray observatory XMM-Newton , each individual pointing can result in the detection of up to several hundred X-ray sources, most of which are newly discovered objects. Since XMM-Newton has now been in orbit for more than 15 yr, hundreds of thousands of sources have been detected. Aims. Recently, many improvements in the XMM-Newton data reduction algorithms have been made. These include enhanced source characterisation and reduced spurious source detections, refined astrometric precision of sources, greater net sensitivity for source detection, and the extraction of spectra and time series for fainter sources, both with better signal-to-noise. Thanks to these enhancements, the quality of the catalogue products has been much improved over earlier catalogues. Furthermore, almost 50% more observations are in the public domain compared to 2XMMi-DR3, allowing the XMM-Newton Survey Science Centre to produce a much larger and better quality X-ray source catalogue.Methods. The XMM-Newton Survey Science Centre has developed a pipeline to reduce the XMM-Newton data automatically. Using the latest version of this pipeline, along with better calibration, a new version of the catalogue has been produced, using XMM-Newton X-ray observations made public on or before 2013 December 31. Manual screening of all of the X-ray detections ensures the highest data quality. This catalogue is known as 3XMM.Results. In the latest release of the 3XMM catalogue, 3XMM-DR5, there are 565 962 X-ray detections comprising 396 910 unique X-ray sources. Spectra and lightcurves are provided for the 133 000 brightest sources. For all detections, the positions on the sky, a measure of the quality of the detection, and an evaluation of the X-ray variability is provided, along with the fluxes and count rates in 7 X-ray energy bands, the total 0.2–12 keV band counts, and four hardness ratios. With the aim of identifying the detections, a cross correlation with 228 catalogues of sources detected in all wavebands is also provided for each X-ray detection.Conclusions. 3XMM-DR5 is the largest X-ray source catalogue ever produced. Thanks to the large array of data products associated with each detection and each source, it is an excellent resource for finding new and extreme objects.
TL;DR: In this article, a synthesis of the greenhouse gas methane from lakes and ponds is presented in the boreal region and northwards of the United States, where almost half of these waters are located.
Abstract: Lakes and ponds represent one of the largest natural sources of the greenhouse gas methane. By surface area, almost half of these waters are located in the boreal region and northwards. A synthesis ...
Massachusetts Institute of Technology1, University of Amsterdam2, Autonomous University of Barcelona3, Institut national de la recherche scientifique4, Northeastern University5, Virginia Tech6, Yale University7, International Institute for Environment and Development8, EThekwini Municipality9, Brown University10, University of New Hampshire11
TL;DR: In this paper, the authors present a roadmap to reorient research on the social dimensions of urban climate adaptation around four issues of equity and justice: broadening participation in adaptation planning; expanding adaptation to rapidly growing cities and those with low financial or institutional capacity; and integrating justice into infrastructure and urban design processes.
Abstract: The 2015 United Nations Climate Change Conference in Paris (COP21) highlighted the importance of cities to climate action, as well as the unjust burdens borne by the world's most disadvantaged peoples in addressing climate impacts. Few studies have documented the barriers to redressing the drivers of social vulnerability as part of urban local climate change adaptation efforts, or evaluated how emerging adaptation plans impact marginalized groups. Here, we present a roadmap to reorient research on the social dimensions of urban climate adaptation around four issues of equity and justice: (1) broadening participation in adaptation planning; (2) expanding adaptation to rapidly growing cities and those with low financial or institutional capacity; (3) adopting a multilevel and multi-scalar approach to adaptation planning; and (4) integrating justice into infrastructure and urban design processes. Responding to these empirical and theoretical research needs is the first step towards identifying pathways to more transformative adaptation policies.
TL;DR: The results suggest that codon content modulates a kinetic competition between protein elongation and mRNA degradation that is a central feature of the physiology and also possibly the regulation of translation in E. coli.
Abstract: Degeneracy in the genetic code, which enables a single protein to be encoded by a multitude of synonymous gene sequences, has an important role in regulating protein expression, but substantial uncertainty exists concerning the details of this phenomenon. Here we analyse the sequence features influencing protein expression levels in 6,348 experiments using bacteriophage T7 polymerase to synthesize messenger RNA in Escherichia coli. Logistic regression yields a new codon-influence metric that correlates only weakly with genomic codon-usage frequency, but strongly with global physiological protein concentrations and also mRNA concentrations and lifetimes in vivo. Overall, the codon content influences protein expression more strongly than mRNA-folding parameters, although the latter dominate in the initial ~16 codons. Genes redesigned based on our analyses are transcribed with unaltered efficiency but translated with higher efficiency in vitro. The less efficiently translated native sequences show greatly reduced mRNA levels in vivo. Our results suggest that codon content modulates a kinetic competition between protein elongation and mRNA degradation that is a central feature of the physiology and also possibly the regulation of translation in E. coli.
Harvard University1, University of Wollongong2, Goddard Space Flight Center3, California Institute of Technology4, University of California, Berkeley5, University of New Hampshire6, National Center for Atmospheric Research7, University of Maryland, College Park8, Colorado State University9, National Oceanic and Atmospheric Administration10, University of Colorado Boulder11, State University of New York System12, New York State Department of Health13
TL;DR: The authors used detailed chemical observations from the SEAC4RS aircraft campaign in August and September 2013, interpreted with the GEOS-Chem chemical transport model at 0.3125° horizontal resolution, to understand the factors controlling surface ozone in the Southeast US.
Abstract: . Ozone pollution in the Southeast US involves complex chemistry driven by emissions of anthropogenic nitrogen oxide radicals (NOx ≡ NO + NO2) and biogenic isoprene. Model estimates of surface ozone concentrations tend to be biased high in the region and this is of concern for designing effective emission control strategies to meet air quality standards. We use detailed chemical observations from the SEAC4RS aircraft campaign in August and September 2013, interpreted with the GEOS-Chem chemical transport model at 0.25° × 0.3125° horizontal resolution, to better understand the factors controlling surface ozone in the Southeast US. We find that the National Emission Inventory (NEI) for NOx from the US Environmental Protection Agency (EPA) is too high. This finding is based on SEAC4RS observations of NOx and its oxidation products, surface network observations of nitrate wet deposition fluxes, and OMI satellite observations of tropospheric NO2 columns. Our results indicate that NEI NOx emissions from mobile and industrial sources must be reduced by 30–60 %, dependent on the assumption of the contribution by soil NOx emissions. Upper-tropospheric NO2 from lightning makes a large contribution to satellite observations of tropospheric NO2 that must be accounted for when using these data to estimate surface NOx emissions. We find that only half of isoprene oxidation proceeds by the high-NOx pathway to produce ozone; this fraction is only moderately sensitive to changes in NOx emissions because isoprene and NOx emissions are spatially segregated. GEOS-Chem with reduced NOx emissions provides an unbiased simulation of ozone observations from the aircraft and reproduces the observed ozone production efficiency in the boundary layer as derived from a regression of ozone and NOx oxidation products. However, the model is still biased high by 6 ± 14 ppb relative to observed surface ozone in the Southeast US. Ozonesondes launched during midday hours show a 7 ppb ozone decrease from 1.5 km to the surface that GEOS-Chem does not capture. This bias may reflect a combination of excessive vertical mixing and net ozone production in the model boundary layer.
TL;DR: The aim here is to succinctly describe the different technologies available within the omics toolbox and showcase the opportunities available to contemporary ecologists to advance the understanding of biodiversity and its potential roles in ecosystems.
Abstract: Summary
The past 100 years of ecological research has seen substantial progress in understanding the natural world and likely effects of change, whether natural or anthropogenic. Traditional ecological approaches underpin such advances, but would additionally benefit from recent developments in the sequence-based quantification of biodiversity from the fields of molecular ecology and genomics. By building on a long and rich history of molecular taxonomy and taking advantage of the new generation of DNA sequencing technologies, we are gaining previously impossible insights into alpha and beta diversity from all domains of life, irrespective of body size. While a number of complementary reviews are available in specialist journals, our aim here is to succinctly describe the different technologies available within the omics toolbox and showcase the opportunities available to contemporary ecologists to advance our understanding of biodiversity and its potential roles in ecosystems.
Starting in the field, we walk the reader through sampling and preservation of genomic material, including typical taxonomy marker genes used for species identification. Moving on to the laboratory, we cover nucleic acid extraction approaches and highlight the principal features of using marker gene assessment, metagenomics, metatranscriptomics, single-cell genomics and targeted genome sequencing as complementary approaches to assess the taxonomic and functional characteristics of biodiversity. We additionally provide clear guidance on the forms of DNA found in the environmental samples (e.g. environmental vs. ancient DNA) and highlight a selection of case studies, including the investigation of trophic relationships/food webs. Given the maturity of sequence-based identification of prokaryotes and microbial eukaryotes, more exposure is given to macrobial communities. We additionally illustrate current approaches to genomic data analysis and highlight the exciting prospects of the publicly available data underpinning published sequence-based studies.
Given that ecology ‘has to count’, we identify the impact that molecular genetic analyses have had on stakeholders and end-users and predict future developments for the fields of biomonitoring. Furthermore, we conclude by highlighting future opportunities in the field of systems ecology afforded by effective engagement between the fields of traditional and molecular ecology.
Marine Biological Laboratory1, Boston University2, United States Geological Survey3, Yale University4, Michigan Technological University5, Purdue University6, University of New Hampshire7, University of Oklahoma8, Colorado State University9, University of Georgia10, University of California, Davis11, University of Minnesota12, University of Sydney13, Chinese Academy of Sciences14, University of California, Irvine15, University of Hohenheim16, University of Oregon17, University of New Mexico18, University of Arizona19, University of California, Berkeley20, University of Copenhagen21, Stanford University22, Clemson University23, University of Amsterdam24
TL;DR: The largest global dataset to date of soil respiration, moisture, and temperature measurements, totaling >3,800 observations representing 27 temperature manipulation studies, spanning nine biomes and over 2 decades of warming, finds that although warming increases soilrespiration rates, there is limited evidence for a shifting respiration response with experimental warming.
Abstract: The respiratory release of carbon dioxide (CO2) from soil is a major yet poorly understood flux in the global carbon cycle. Climatic warming is hypothesized to increase rates of soil respiration, potentially fueling further increases in global temperatures. However, despite considerable scientific attention in recent decades, the overall response of soil respiration to anticipated climatic warming remains unclear. We synthesize the largest global dataset to date of soil respiration, moisture, and temperature measurements, totaling >3,800 observations representing 27 temperature manipulation studies, spanning nine biomes and over 2 decades of warming. Our analysis reveals no significant differences in the temperature sensitivity of soil respiration between control and warmed plots in all biomes, with the exception of deserts and boreal forests. Thus, our data provide limited evidence of acclimation of soil respiration to experimental warming in several major biome types, contrary to the results from multiple single-site studies. Moreover, across all nondesert biomes, respiration rates with and without experimental warming follow a Gaussian response, increasing with soil temperature up to a threshold of ∼25 °C, above which respiration rates decrease with further increases in temperature. This consistent decrease in temperature sensitivity at higher temperatures demonstrates that rising global temperatures may result in regionally variable responses in soil respiration, with colder climates being considerably more responsive to increased ambient temperatures compared with warmer regions. Our analysis adds a unique cross-biome perspective on the temperature response of soil respiration, information critical to improving our mechanistic understanding of how soil carbon dynamics change with climatic warming.
University of New Hampshire1, Stockholm University2, Saint Petersburg State University3, Arctic and Antarctic Research Institute4, Environment Canada5, University of Victoria6, University of Alaska Fairbanks7, Uppsala University8, Sogn og Fjordane University College9, University of Magallanes10, State Hydrological Institute11, McMaster University12
TL;DR: In this article, the authors discuss the role of terrestrial hydrology in the Arctic system and its freshwater circulation. But they focus on water transport and water constituents vary, however, across a very diverse geography.
Abstract: Terrestrial hydrology is central to the Arctic system and its freshwater circulation. Water transport and water constituents vary, however, across a very diverse geography. In this paper, which is ...
TL;DR: In this paper, the authors use the footprints for water, nitrogen, carbon and land to quantitatively evaluate resource demands and greenhouse gas (GHG) emissions of future agriculture and investigate whether an increase in these environmental burdens of food production can be avoided under a variety of dietary scenarios.
Abstract: Meeting the food needs of the growing and increasingly affluent human population with the planet’s limited resources is a major challenge of our time. Seen as the preferred approach to global food security issues, ‘sustainable intensification’ is the enhancement of crop yields while minimizing environmental impacts and preserving the ability of future generations to use the land. It is still unclear to what extent sustainable intensification would allow humanity to meet its demand for food commodities. Here we use the footprints for water, nitrogen, carbon and land to quantitatively evaluate resource demands and greenhouse gas (GHG) emissions of future agriculture and investigate whether an increase in these environmental burdens of food production can be avoided under a variety of dietary scenarios. We calculate average footprints of the current diet and find that animal products account for 43–87% of an individual’s environmental burden – compared to 18% of caloric intake and 39% of protein intake. Interestingly, we find that projected improvements in production efficiency would be insufficient to meet future food demand without also increasing the total environmental burden of food production. Transitioning to less impactful diets would in many cases allow production efficiency to keep pace with growth in human demand while minimizing the food system’s environmental burden. This study provides a useful approach for evaluating the attainability of sustainable targets and for better integrating food security and environmental impacts.
TL;DR: The tri-axial search-coil magnetometer (SCM) belongs to the FIELDS instrumentation suite on the Magnetospheric Multiscale (MMS) mission as discussed by the authors.
Abstract: The tri-axial search-coil magnetometer (SCM) belongs to the FIELDS instrumentation suite on the Magnetospheric Multiscale (MMS) mission (Torbert et al. in Space Sci. Rev. (2014), this issue). It provides the three magnetic components of the waves from 1 Hz to 6 kHz in particular in the key regions of the Earth’s magnetosphere namely the subsolar region and the magnetotail. Magnetospheric plasmas being collisionless, such a measurement is crucial as the electromagnetic waves are thought to provide a way to ensure the conversion from magnetic to thermal and kinetic energies allowing local or global reconfigurations of the Earth’s magnetic field. The analog waveforms provided by the SCM are digitized and processed inside the digital signal processor (DSP), within the Central Electronics Box (CEB), together with the electric field data provided by the spin-plane double probe (SDP) and the axial double probe (ADP). On-board calibration signal provided by DSP allows the verification of the SCM transfer function once per orbit. Magnetic waveforms and on-board spectra computed by DSP are available at different time resolution depending on the selected mode. The SCM design is described in details as well as the different steps of the ground and in-flight calibrations.
TL;DR: A conceptual framework is proposed that structures the definition of CUE according to increasingly broad temporal and spatial drivers, and embodies an ecosystem perspective that fully captures all drivers of microbial biomass synthesis and decay.
Abstract: Microbial carbon use efficiency (CUE) is a critical regulator of soil organic matter dynamics and terrestrial carbon fluxes, with strong implications for soil biogeochemistry models. While ecologists increasingly appreciate the importance of CUE, its core concepts remain ambiguous: terminology is inconsistent and confusing, methods capture variable temporal and spatial scales, and the significance of many fundamental drivers remains inconclusive. Here we outline the processes underlying microbial efficiency and propose a conceptual framework that structures the definition of CUE according to increasingly broad temporal and spatial drivers where (1) CUE
P
reflects population-scale carbon use efficiency of microbes governed by species-specific metabolic and thermodynamic constraints, (2) CUE
C
defines community-scale microbial efficiency as gross biomass production per unit substrate taken up over short time scales, largely excluding recycling of microbial necromass and exudates, and (3) CUE
E
reflects the ecosystem-scale efficiency of net microbial biomass production (growth) per unit substrate taken up as iterative breakdown and recycling of microbial products occurs. CUEE integrates all internal and extracellular constraints on CUE and hence embodies an ecosystem perspective that fully captures all drivers of microbial biomass synthesis and decay. These three definitions are distinct yet complementary, capturing the capacity for carbon storage in microbial biomass across different ecological scales. By unifying the existing concepts and terminology underlying microbial efficiency, our framework enhances data interpretation and theoretical advances.
TL;DR: This updated SR confirms and strengthens the conclusions of the original US Dietary Guidelines Advisory Committee SR, which found that adherence to several well-characterized dietary patterns, including vegetarian (with variations) diets, dietary guidelines-related diets, Mediterranean-style diets, Dietary Approaches to Stop Hypertension diet, and other sustainable diet scenarios, promotes greater health and has a less negative impact on the environment than current average dietary intakes.
TL;DR: Interest in this field continues to grow partially due to the variety of potential applications of SCNP including catalysis, sensors, nanoreactors, and nanomedicine.
Abstract: With the increasing appeal of nanotechnology, there is a demand for development of synthetic techniques for the fabrication of nano-sized objects that allow for precise size control and tailored functionalization. To this end, the collapse or folding of single polymer chains into architecturally defined nanostructures is a rapidly growing research topic in polymer science. Many synthetic approaches have been developed for the formation of single-chain nanoparticles (SCNP), and a variety of characterization methods and computational efforts have been utilized to detail their formation and probe their morphological characteristics. Interest in this field continues to grow partially due to the variety of potential applications of SCNP including catalysis, sensors, nanoreactors, and nanomedicine. While numerous developments have been made, the field is continuing to evolve, and there are still many unanswered questions regarding synthesis and characterization of SCNP. This Perspective serves to identify recen...
TL;DR: It is found that under conditions of stress, such as malignant transformation fuelled by MYC, the chaperome becomes biochemically ‘rewired’ to form a network of stable, survival-facilitating, high-molecular-weight complexes.
Abstract: Transient, multi-protein complexes are important facilitators of cellular functions. This includes the chaperome, an abundant protein family comprising chaperones, co-chaperones, adaptors, and folding enzymes-dynamic complexes of which regulate cellular homeostasis together with the protein degradation machinery. Numerous studies have addressed the role of chaperome members in isolation, yet little is known about their relationships regarding how they interact and function together in malignancy. As function is probably highly dependent on endogenous conditions found in native tumours, chaperomes have resisted investigation, mainly due to the limitations of methods needed to disrupt or engineer the cellular environment to facilitate analysis. Such limitations have led to a bottleneck in our understanding of chaperome-related disease biology and in the development of chaperome-targeted cancer treatment. Here we examined the chaperome complexes in a large set of tumour specimens. The methods used maintained the endogenous native state of tumours and we exploited this to investigate the molecular characteristics and composition of the chaperome in cancer, the molecular factors that drive chaperome networks to crosstalk in tumours, the distinguishing factors of the chaperome in tumours sensitive to pharmacologic inhibition, and the characteristics of tumours that may benefit from chaperome therapy. We find that under conditions of stress, such as malignant transformation fuelled by MYC, the chaperome becomes biochemically 'rewired' to form a network of stable, survival-facilitating, high-molecular-weight complexes. The chaperones heat shock protein 90 (HSP90) and heat shock cognate protein 70 (HSC70) are nucleating sites for these physically and functionally integrated complexes. The results indicate that these tightly integrated chaperome units, here termed the epichaperome, can function as a network to enhance cellular survival, irrespective of tissue of origin or genetic background. The epichaperome, present in over half of all cancers tested, has implications for diagnostics and also provides potential vulnerability as a target for drug intervention.
25 Aug 2016
TL;DR: This study demonstrates how NASP compares with other tools in the analysis of two real bacterial genomics datasets and one simulated dataset and demonstrates differences in results based on the choice of the reference genome and choice of inferring phylogenies from concatenated SNPs or alignments including monomorphic positions.
Abstract: Whole-genome sequencing (WGS) of bacterial isolates has become standard practice in many laboratories. Applications for WGS analysis include phylogeography and molecular epidemiology, using single nucleotide polymorphisms (SNPs) as the unit of evolution. NASP was developed as a reproducible method that scales well with the hundreds to thousands of WGS data typically used in comparative genomics applications. In this study, we demonstrate how NASP compares with other tools in the analysis of two real bacterial genomics datasets and one simulated dataset. Our results demonstrate that NASP produces similar, and often better, results in comparison with other pipelines, but is much more flexible in terms of data input types, job management systems, diversity of supported tools and output formats. We also demonstrate differences in results based on the choice of the reference genome and choice of inferring phylogenies from concatenated SNPs or alignments including monomorphic positions. NASP represents a source-available, version-controlled, unit-tested method and can be obtained from tgennorth.github.io/NASP.
University of Colorado Boulder1, NASA Headquarters2, University of New Hampshire3, Langley Research Center4, Harvard University5, Ames Research Center6, City College of New York7, University of Utah8, National Center for Atmospheric Research9, Earth System Research Laboratory10, United States Naval Research Laboratory11, Goddard Space Flight Center12, University of Montana13
TL;DR: The studies of emissions and atmospheric composition, clouds and climate coupling by regional surveys (SEAC4RS) field mission as mentioned in this paper employed the most comprehensive airborne payload to date to investigate atmospheric composition over North America.
Abstract: The Studies of Emissions and Atmospheric Composition, Clouds and Climate Coupling by Regional Surveys (SEAC4RS) field mission based at Ellington Field, Texas, during August and September 2013 employed the most comprehensive airborne payload to date to investigate atmospheric composition over North America. The NASA ER-2, DC-8, and SPEC Inc. Learjet flew 57 science flights from the surface to 20 km. The ER-2 employed seven remote sensing instruments as a satellite surrogate and eight in situ instruments. The DC-8 employed 23 in situ and five remote sensing instruments for radiation, chemistry, and microphysics. The Learjet used 11 instruments to explore cloud microphysics. SEAC4RS launched numerous balloons, augmented Aerosol RObotic NETwork, and collaborated with many existing ground measurement sites. Flights investigating convection included close coordination of all three aircraft. Coordinated DC-8 and ER-2 flights investigated the optical properties of aerosols, the influence of aerosols on clouds, and the performance of new instruments for satellite measurements of clouds and aerosols. ER-2 sorties sampled stratospheric injections of water vapor and other chemicals by local and distant convection. DC-8 flights studied seasonally evolving chemistry in the Southeastern U.S., atmospheric chemistry with lower emissions of NOx and SO2 than in previous decades, isoprene chemistry under high and low NOx conditions at different locations, organic aerosols, air pollution near Houston and in petroleum fields, smoke from wildfires in western forests and from agricultural fires in the Mississippi Valley, and the ways in which the chemistry in the boundary layer and the upper troposphere were influenced by vertical transport in convective clouds.
Center for International Forestry Research1, University of Valladolid2, Technische Universität München3, Warsaw University of Life Sciences4, Norwegian University of Life Sciences5, Technical University of Madrid6, University of New Hampshire7, University of Trás-os-Montes and Alto Douro8, University of Agriculture, Faisalabad9, Forest Research Institute10, University of Natural Resources and Life Sciences, Vienna11, University of Lisbon12
TL;DR: In this article, a set of measures, indices, and methods at stand level to characterize the structure, dynamics, and productivity of mixed stands, and the pros and cons of their application in growth and yield studies are discussed.
Abstract: The growth and yield of mixed-species stands has become an important topic of research since there are certain advantages of this type of forest as regards functions and services. However, the concepts and methods used to characterize mixed stands need to be understood, as well as harmonized and standardized. In this review we have compiled a set of measures, indices, and methods at stand level to characterize the structure, dynamics, and productivity of mixed stands, and we discuss the pros and cons of their application in growth and yield studies. Parameters for the characterization of mixed stand structure such as stand density, species composition, horizontal (intermingling) and vertical tree distribution pattern, tree size distribution, and age composition are described, detailing the potential as well as the constraints of these parameters for understanding resource capture, use, and efficiency in mixed stands. Furthermore, a set of stand-level parameters was evaluated to characterize the dynamics of mixed stands, e.g. height growth and space partitioning, self- and alien-thinning, and growth partitioning among trees. The deviations and changes in the behaviour of the analysed parameters in comparison with pure stand conditions due to inter-specific interactions are of particular interest. As regards stand productivity, we reviewed site productivity indices, the growth–density relationship in mixed stands as well as methods to compare productivity in mixed versus monospecific stands. Finally, we discuss the main problems associated with the methodology such as up-scaling from tree to stand level as well as the relevance of standardized measures and methods for improving forest growth and yield research in mixed stands. The main challenges are also outlined, especially the need for qualitatively sound data.