Author Correction: The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data

The following authors were omitted from the original version of this Data Descriptor: Markus Reichstein and Nicolas Vuichard. Both contributed to the code development and N. Vuichard contributed to the processing of the ERA-Interim data downscaling. Furthermore, the contribution of the co-author Frank Tiedemann was re-evaluated relative to the colleague Corinna Rebmann, both working at the same sites, and based on this re-evaluation a substitution in the co-author list is implemented (with Rebmann replacing Tiedemann). Finally, two affiliations were listed incorrectly and are corrected here (entries 190 and 193). The author list and affiliations have been amended to address these omissions in both the HTML and PDF versions

The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data.

The FLUXNET2015 dataset provides ecosystem-scale data on CO2, water, and energy exchange between the biosphere and the atmosphere, and other meteorological and biological measurements, from 212 sites around the globe (over 1500 site-years, up to and including year 2014). These sites, independently managed and operated, voluntarily contributed their data to create global datasets. Data were quality controlled and processed using uniform methods, to improve consistency and intercomparability across sites. The dataset is already being used in a number of applications, including ecophysiology studies, remote sensing studies, and development of ecosystem and Earth system models. FLUXNET2015 includes derived-data products, such as gap-filled time series, ecosystem respiration and photosynthetic uptake estimates, estimation of uncertainties, and metadata about the measurements, presented for the first time in this paper. In addition, 206 of these sites are for the first time distributed under a Creative Commons (CC-BY 4.0) license. This paper details this enhanced dataset and the processing methods, now made available as open-source codes, making the dataset more accessible, transparent, and reproducible

Pooled analysis of WHO Surgical Safety Checklist use and mortality after emergency laparotomy

Background The World Health Organization (WHO) Surgical Safety Checklist has fostered safe practice for 10 years, yet its place in emergency surgery has not been assessed on a global scale. The aim of this study was to evaluate reported checklist use in emergency settings and examine the relationship with perioperative mortality in patients who had emergency laparotomy. Methods In two multinational cohort studies, adults undergoing emergency laparotomy were compared with those having elective gastrointestinal surgery. Relationships between reported checklist use and mortality were determined using multivariable logistic regression and bootstrapped simulation. Results Of 12 296 patients included from 76 countries, 4843 underwent emergency laparotomy. After adjusting for patient and disease factors, checklist use before emergency laparotomy was more common in countries with a high Human Development Index (HDI) (2455 of 2741, 89.6 per cent) compared with that in countries with a middle (753 of 1242, 60.6 per cent; odds ratio (OR) 0.17, 95 per cent c.i. 0.14 to 0.21, P <0001) or low (363 of 860, 422 per cent; OR 008, 007 to 010, P <0.001) HDI. Checklist use was less common in elective surgery than for emergency laparotomy in high-HDI countries (risk difference -94 (95 per cent c.i. -11.9 to -6.9) per cent; P <0001), but the relationship was reversed in low-HDI countries (+121 (+7.0 to +173) per cent; P <0001). In multivariable models, checklist use was associated with a lower 30-day perioperative mortality (OR 0.60, 0.50 to 073; P <0.001). The greatest absolute benefit was seen for emergency surgery in low- and middle-HDI countries. Conclusion Checklist use in emergency laparotomy was associated with a significantly lower perioperative mortality rate. Checklist use in low-HDI countries was half that in high-HDI countries.Peer reviewe

Global variation in anastomosis and end colostomy formation following left-sided colorectal resection

Background End colostomy rates following colorectal resection vary across institutions in high-income settings, being influenced by patient, disease, surgeon and system factors. This study aimed to assess global variation in end colostomy rates after left-sided colorectal resection. Methods This study comprised an analysis of GlobalSurg-1 and -2 international, prospective, observational cohort studies (2014, 2016), including consecutive adult patients undergoing elective or emergency left-sided colorectal resection within discrete 2-week windows. Countries were grouped into high-, middle- and low-income tertiles according to the United Nations Human Development Index (HDI). Factors associated with colostomy formation versus primary anastomosis were explored using a multilevel, multivariable logistic regression model. Results In total, 1635 patients from 242 hospitals in 57 countries undergoing left-sided colorectal resection were included: 113 (6·9 per cent) from low-HDI, 254 (15·5 per cent) from middle-HDI and 1268 (77·6 per cent) from high-HDI countries. There was a higher proportion of patients with perforated disease (57·5, 40·9 and 35·4 per cent; P < 0·001) and subsequent use of end colostomy (52·2, 24·8 and 18·9 per cent; P < 0·001) in low- compared with middle- and high-HDI settings. The association with colostomy use in low-HDI settings persisted (odds ratio (OR) 3·20, 95 per cent c.i. 1·35 to 7·57; P = 0·008) after risk adjustment for malignant disease (OR 2·34, 1·65 to 3·32; P < 0·001), emergency surgery (OR 4·08, 2·73 to 6·10; P < 0·001), time to operation at least 48 h (OR 1·99, 1·28 to 3·09; P = 0·002) and disease perforation (OR 4·00, 2·81 to 5·69; P < 0·001). Conclusion Global differences existed in the proportion of patients receiving end stomas after left-sided colorectal resection based on income, which went beyond case mix alone

BASS. XXVI. DR2 Host Galaxy Stellar Velocity Dispersions

We present new central stellar velocity dispersions for 484 Sy 1.9 and Sy 2 from the second data release of the Swift/BAT AGN Spectroscopic Survey (BASS DR2). This constitutes the largest study of velocity dispersion measurements in X-ray-selected obscured active galactic nuclei (AGN) with 956 independent measurements of the Ca ii H and K lambda 3969, 3934 and Mg I lambda 5175 region (3880-5550 angstrom) and the calcium triplet region (8350-8730 angstrom) from 642 spectra mainly from VLT/X-Shooter or Palomar/DoubleSpec. Our sample spans velocity dispersions of 40-360 km s(1), corresponding to 4-5 orders of magnitude in black hole mass (M (BH) = 10(5.5-9.6) M (circle dot)), bolometric luminosity (L (bol) similar to 10(42-46) erg s(-1)), and Eddington ratio (L/L (Edd) similar to 10(-5) to 2). For 281 AGN, our data and analysis provide the first published central velocity dispersions, including six AGN with low-mass black holes (M (BH) = 10(5.5-6.5) M (circle dot)), discovered thanks to high spectral resolution observations (sigma (inst) similar to 25 km s(-1)). The survey represents a significant advance with a nearly complete census of velocity dispersions of hard X-ray-selected obscured AGN with measurements for 99% of nearby AGN (z &lt; 0.1) outside the Galactic plane ( divide b divide &gt; 10 degrees). The BASS AGN have much higher velocity dispersions than the more numerous optically selected narrow-line AGN (i.e., similar to 150 versus similar to 100 km s(-1)) but are not biased toward the highest velocity dispersions of massive ellipticals (i.e., &gt;250 km s(-1)). Despite sufficient spectral resolution to resolve the velocity dispersions associated with the bulges of small black holes (similar to 10(4-5) M (circle dot)), we do not find a significant population of super-Eddington AGN. Using estimates of the black hole sphere of influence from velocity dispersion, direct stellar and gas black hole mass measurements could be obtained with existing facilities for more than similar to 100 BASS AGN

BASS. XXVIII. Near-infrared Data Release 2: High-ionization and Broad Lines in Active Galactic Nuclei

We present the BAT AGN Spectroscopic Survey (BASS) Near-infrared Data Release 2 (DR2), a study of 168 nearby ((z) over bar = 0.04, z &lt; 0.6) active galactic nuclei (AGN) from the all-sky Swift Burst Array Telescope X-ray survey observed with the Very Large Telescope (VLT)/X-shooter in the near-infrared (NIR; 0.8-2.4 mu m). We find that 49/109 (45%) Seyfert 2 and 35/58 (60%) Seyfert 1 galaxies observed with VLT/X-shooter show at least one NIR high-ionization coronal line (CL; ionization potential chi &gt; 100 eV). Comparing the emission of the [Si VI] lambda 1.9640 CL with the X-ray emission for the DR2 AGN, we find a significantly tighter correlation, with a lower scatter (0.37 dex) than that for the optical [O III] lambda 5007 line (0.71 dex). We do not find any correlation between CL emission and the X-ray photon index Gamma. We find a clear trend of line blueshifts with increasing ionization potential in several CLs, such as [Si VI] lambda 1.9640, [Si X] lambda 1.4300, [S VIII] lambda 0.9915, and [S IX] lambda 1.2520, indicating the radial structure of the CL region. Finally, we find a strong underestimation bias in black hole mass measurements of Sy 1.9 using broad H alpha due to the presence of significant dust obscuration. In contrast, the broad Pa alpha and Pa beta emission lines are in agreement with the M-sigma relation. Based on the combined DR1 and DR2 X-shooter sample, the NIR BASS sample now comprises 266 AGN with rest-frame NIR spectroscopic observations, the largest set assembled to date

BASS. XXI. The Data Release 2 Overview

The BAT AGN Spectroscopic Survey (BASS) is designed to provide a highly complete census of the key physical parameters of the supermassive black holes (SMBHs) that power local active galactic nuclei (AGNs) (z less than or similar to 0.3), including their bolometric luminosity (L (bol)), black hole (BH) mass (M (BH)), accretion rates (L (bol)/L (Edd)), line-of-sight gas obscuration (N (H)), and the distinctive properties of their host galaxies (e.g., star formation rates, masses, and gas fractions). We present an overview of the second data release of BASS (DR2), an unprecedented spectroscopic AGN survey in spectral range, resolution, and sensitivity, including 1449 optical (similar to 3200 angstrom-1 mu m) and 233 near-IR (1-2.5 mu m) spectra for the brightest 858 ultrahard X-ray (14-195 keV) selected AGNs across the entire sky and essentially all levels of obscuration. This release provides a highly complete set of key measurements (emission-line measurements and central velocity dispersions), with 99.9% measured redshifts and 98% BH masses estimated (for unbeamed AGNs outside the Galactic plane). The BASS DR2 AGN sample represents a unique census of nearby powerful AGNs, spanning over 5 orders of magnitude in AGN bolometric luminosity (L (bol) similar to 10(40)-10(47) erg s(-1)), BH mass (M (BH) similar to 10(5)-10(10) M (circle dot)), Eddington ratio (L (bol)/L (Edd) greater than or similar to 10(-5)), and obscuration (N (H) similar to 10(20)-10(25) cm(-2)). The public BASS DR2 sample and measurements can thus be used to answer fundamental questions about SMBH growth and its links to host galaxy evolution and feedback in the local universe, as well as open questions concerning SMBH physics. Here we provide a brief overview of the survey strategy, the key BASS DR2 measurements, data sets and catalogs, and scientific highlights from a series of DR2-based works pursued by the BASS team

BASS. XXII. The BASS DR2 AGN Catalog and Data

We present the active galactic nucleus (AGN) catalog and optical spectroscopy for the second data release of the Swift BAT AGN Spectroscopic Survey (BASS DR2). With this DR2 release we provide 1449 optical spectra, of which 1182 are released for the first time, for the 858 hard-X-ray-selected AGNs in the Swift BAT 70-month sample. The majority of the spectra (801/1449, 55%) are newly obtained from Very Large Telescope (VLT)/X-shooter or Palomar/Doublespec. Many of the spectra have both higher resolution (R &gt; 2500, N similar to 450) and/or very wide wavelength coverage (3200-10000 angstrom, N similar to 600) that are important for a variety of AGN and host galaxy studies. We include newly revised AGN counterparts for the full sample and review important issues for population studies, with 47 AGN redshifts determined for the first time and 790 black hole mass and accretion rate estimates. This release is spectroscopically complete for all AGNs (100%, 858/858), with 99.8% having redshift measurements (857/858) and 96% completion in black hole mass estimates of unbeamed AGNs (722/752). This AGN sample represents a unique census of the brightest hard-X-ray-selected AGNs in the sky, spanning many orders of magnitude in Eddington ratio (L/L (Edd) = 10(-5)-100), black hole mass (M (BH) = 10(5)-10(10) M (circle dot)), and AGN bolometric luminosity (L (bol) = 10(40)-10(47) erg s(-1) )

Identification and Analysis of the Role of Superoxide Dismutases Isoforms in the Pathogenesis of Paracoccidioides spp.

The ability of Paracoccidioides to defend itself against reactive oxygen species (ROS) produced by host effector cells is a prerequisite to survive. To counteract these radicals, Paracoccidioides expresses, among different antioxidant enzymes, superoxide dismutases (SODs). In this study, we identified six SODs isoforms encoded by the Paracoccidioides genome. We determined gene expression levels of representative isolates of the phylogenetic lineages of Paracoccidioides spp. (S1, PS2, PS3 and Pb01-like) using quantitative RT-PCR. Assays were carried out to analyze SOD gene expression of yeast cells, mycelia cells, the mycelia-to-yeast transition and the yeast-to-mycelia germination, as well as under treatment with oxidative agents and during interaction with phagocytic cells. We observed an increased expression of PbSOD1 and PbSOD3 during the transition process, exposure to oxidative agents and interaction with phagocytic cells, suggesting that these proteins could assist in combating the superoxide radicals generated during the host-pathogen interaction. Using PbSOD1 and PbSOD3 knockdown strains we showed these genes are involved in the response of the fungus against host effector cells, particularly the oxidative stress response, and in a mouse model of infection. Protein sequence analysis together with functional analysis of knockdown strains seem to suggest that PbSOD3 expression is linked with a pronounced extracellular activity while PbSOD1 seems more related to intracellular requirements of the fungus. Altogether, our data suggests that P. brasiliensis actively responds to the radicals generated endogenously during metabolism and counteracts the oxidative burst of immune cells by inducing the expression of SOD isoforms

Active galactic nuclei: what’s in a name?

Active Galactic Nuclei (AGN) are energetic astrophysical sources powered by accretion onto supermassive black holes in galaxies, and present unique observational signatures that cover the full electromagnetic spectrum over more than twenty orders of magnitude in frequency. The rich phenomenology of AGN has resulted in a large number of different "flavours" in the literature that now comprise a complex and confusing AGN "zoo". It is increasingly clear that these classifications are only partially related to intrinsic differences between AGN, and primarily reflect variations in a relatively small number of astrophysical parameters as well the method by which each class of AGN is selected. Taken together, observations in different electromagnetic bands as well as variations over time provide complementary windows on the physics of different sub-structures in the AGN. In this review, we present an overview of AGN multi-wavelength properties with the aim of painting their "big picture" through observations in each electromagnetic band from radio to gamma-rays as well as AGN variability. We address what we can learn from each observational method, the impact of selection effects, the physics behind the emission at each wavelength, and the potential for future studies. To conclude we use these observations to piece together the basic architecture of AGN, discuss our current understanding of unification models, and highlight some open questions that present opportunities for future observational and theoretical progress.Comment: Accepted for publication in Astronomy & Astrophysics Review, 56 pages, 25 figure