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1.	Carraminana, Albert, et al. (författare) Rationale and Study Design for an Individualized Perioperative Open Lung Ventilatory Strategy in Patients on One-Lung Ventilation (iPROVE-OLV) 2019 Ingår i: Journal of Cardiothoracic and Vascular Anesthesia. - : W B SAUNDERS CO-ELSEVIER INC. - 1053-0770 .- 1532-8422. ; 33:9, s. 2492-2502 Tidskriftsartikel (refereegranskat)abstract Objective: The aim of this clinical trial is to examine whether it is possible to reduce postoperative complications using an individualized perioperative ventilatory strategy versus using a standard lung-protective ventilation strategy in patients scheduled for thoracic surgery requiring one-lung ventilation. Design: International, multicenter, prospective, randomized controlled clinical trial. Setting: A network of university hospitals. Participants: The study comprises 1,380 patients scheduled for thoracic surgery. Interventions: The individualized group will receive intraoperative recruitment maneuvers followed by individualized positive end-expiratory pressure (open lung approach) during the intraoperative period plus postoperative ventilatory support with high-flow nasal cannula, whereas the control group will be managed with conventional lung-protective ventilation. Measurements and Main Results: Individual and total number of postoperative complications, including atelectasis, pneumothorax, pleural effusion, pneumonia, acute lung injury; unplanned readmission and reintubation; length of stay and death in the critical care unit and in the hospital will be analyzed for both groups. The authors hypothesize that the intraoperative application of an open lung approach followed by an individual indication of high-flow nasal cannula in the postoperative period will reduce pulmonary complications and length of hospital stay in high-risk surgical patients. (C) 2019 Published by Elsevier Inc.
2.	Edwards, Robert A., et al. (författare) Global phylogeography and ancient evolution of the widespread human gut virus crAssphage 2019 Ingår i: Nature Microbiology. - : Springer Science and Business Media LLC. - 2058-5276. ; 4:10, s. 1727-1736 Tidskriftsartikel (refereegranskat)abstract Microbiomes are vast communities of microorganisms and viruses that populate all natural ecosystems. Viruses have been considered to be the most variable component of microbiomes, as supported by virome surveys and examples of high genomic mosaicism. However, recent evidence suggests that the human gut virome is remarkably stable compared with that of other environments. Here, we investigate the origin, evolution and epidemiology of crAssphage, a widespread human gut virus. Through a global collaboration, we obtained DNA sequences of crAssphage from more than one-third of the world's countries and showed that the phylogeography of crAssphage is locally clustered within countries, cities and individuals. We also found fully colinear crAssphage-like genomes in both Old-World and New-World primates, suggesting that the association of crAssphage with primates may be millions of years old. Finally, by exploiting a large cohort of more than 1,000 individuals, we tested whether crAssphage is associated with bacterial taxonomic groups of the gut microbiome, diverse human health parameters and a wide range of dietary factors. We identified strong correlations with different clades of bacteria that are related to Bacteroidetes and weak associations with several diet categories, but no significant association with health or disease. We conclude that crAssphage is a benign cosmopolitan virus that may have coevolved with the human lineage and is an integral part of the normal human gut virome.
3.	Klionsky, Daniel J, et al. (författare) Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition). 2016 Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 12:1, s. 1-222 Tidskriftsartikel (refereegranskat)
4.	Muñoz-Medina, José Esteban, et al. (författare) Evolutionary analysis of the Chikungunya virus epidemic in Mexico reveals intra-host mutational hotspots in the E1 protein 2018 Ingår i: PLoS ONE. - : Public Library of Science (PLoS). - 1932-6203. ; 13:12 Tidskriftsartikel (refereegranskat)abstract The epidemic potential of Chikungunya virus (CHIKV) was recently made evident by its introduction and rapid expansion in the Caribbean and the Americas. We sought to gain a detailed understanding of the dynamics of the epidemic in Mexico, the country with the highest number of confirmed CHIKV cases in the Americas, and to characterise viral evolution at the population and intra-host level. Analysis of the spatiotemporal distribution of 2,739 diagnosed cases in Mexico from December 2014 to December 2015 showed a rapid nationwide expansion of the epidemic with focalisation in the South West of the country. We sequenced the envelope glyco-protein 1 gene (E1) from 25 patients using the Illumina MiSeq platform and report synonymous and non-synonymous consensus mutations. Bayesian phylogenetic analysis using 249 Asian lineage E1 sequences gave updated estimates of nucleotide substitution rates for E1 and time to most recent common ancestor of major lineages. The analysis indicates phylogenetically-related emergent Latin American clusters in South Western Mexico, Nicaragua and Honduras and transmission of American strains in the Pacific islands. Detailed analysis showed that intrahost changes in E1 mainly occurred in two variable regions (E1:189–220 and E1:349–358) in domains II and III, respectively, in residues involved in inter and intra-envelope spike interactions. At the population level, this study sheds light on the introduction and evolutionary dynamics of CHIKV in the Americas. At the intra-host level, this study identifies mutational hotspots of the E1 protein with implications for understanding the relationship between the CHIKV quasispecies, viral fitness and pathogenesis.
5.	Munoz, Raul, et al. (författare) Sequential removal of heavy metals ions and organic pollutants using an algal-bacterial consortium 2006 Ingår i: Chemosphere. - : Elsevier BV. - 1879-1298 .- 0045-6535. ; 63:6, s. 903-911 Tidskriftsartikel (refereegranskat)abstract The residual algal-bacterial biomass from photosynthetically supported, organic pollutant biodegradation processes, in enclosed photobioreactors, was tested for its ability to accumulate Cu(II), Ni(II), Cd(II), and Zn(II). Salicylate was chosen as a model contaminant. The algal-bacterial biomass combined the high adsorption capacity of microalgae with the low cost of the residual biomass, which makes it an attractive biosorbent for environmental applications. Cu(II) was preferentially taken-up from the medium when the metals were present both separately and in combination. There was no observed competition for adsorption sites, which suggested that Cu(II), Ni(II), Cd(II), and Zn(II) bind to different sites and that active Ni(II), Cd(II) and Zn(II) binding groups were present at very low concentrations. Therefore, special focus was given to Cu(II) biosorption. Cu(II) biosorption by the algal-bacterial biomass was characterized by an initial fast cell surface adsorption followed by a slower metabolically driven uptake. pH, Cu(II), and algal-bacterial concentration significantly affected the biosorption capacity for Cu(II). Maximum Cu(II) adsorption capacities of 8.5 +/- 0.4 mg g(-1) were achieved at an initial Cu(II) concentration of 20 mg l(-1) and at pH 5 for the tested algal-bacterial biomass. These are consistent with values reported for other microbial sorbents under similar conditions. The desorption of Cu(II) from saturated biomass was feasible by elution with a 0.0125 M HCl solution. Simultaneous Cu(II) and salicylate removal in a continuous stirred tank photobioreactor was not feasible due to the high toxicity of Cu(H) towards the microbial culture. The introduction of an adsorption column, packed with the algal-bacterial biomass, prior to the photobioreactor reduced Cu(II) concentration, thereby allowing the subsequent salicylate biodegradation in the photobioreactor.
6.	Santangelo, James S., et al. (författare) Global urban environmental change drives adaptation in white clover 2022 Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 375 Tidskriftsartikel (refereegranskat)abstract Urbanization transforms environments in ways that alter biological evolution. We examined whether urban environmental change drives parallel evolution by sampling 110,019 white clover plants from 6169 populations in 160 cities globally. Plants were assayed for a Mendelian antiherbivore defense that also affects tolerance to abiotic stressors. Urban-rural gradients were associated with the evolution of clines in defense in 47% of cities throughout the world. Variation in the strength of clines was explained by environmental changes in drought stress and vegetation cover that varied among cities. Sequencing 2074 genomes from 26 cities revealed that the evolution of urban-rural dines was best explained by adaptive evolution, but the degree of parallel adaptation varied among cities. Our results demonstrate that urbanization leads to adaptation at a global scale.
7.	Abelev, Betty, et al. (författare) Long-range angular correlations on the near and away side in p-Pb collisions at root S-NN=5.02 TeV 2013 Ingår i: Physics Letters. Section B: Nuclear, Elementary Particle and High-Energy Physics. - : Elsevier BV. - 0370-2693. ; 719:1-3, s. 29-41 Tidskriftsartikel (refereegranskat)abstract Angular correlations between charged trigger and associated particles are measured by the ALICE detector in p-Pb collisions at a nucleon-nucleon centre-of-mass energy of 5.02 TeV for transverse momentum ranges within 0.5 < P-T,P-assoc < P-T,P-trig < 4 GeV/c. The correlations are measured over two units of pseudorapidity and full azimuthal angle in different intervals of event multiplicity, and expressed as associated yield per trigger particle. Two long-range ridge-like structures, one on the near side and one on the away side, are observed when the per-trigger yield obtained in low-multiplicity events is subtracted from the one in high-multiplicity events. The excess on the near-side is qualitatively similar to that recently reported by the CMS Collaboration, while the excess on the away-side is reported for the first time. The two-ridge structure projected onto azimuthal angle is quantified with the second and third Fourier coefficients as well as by near-side and away-side yields and widths. The yields on the near side and on the away side are equal within the uncertainties for all studied event multiplicity and p(T) bins, and the widths show no significant evolution with event multiplicity or p(T). These findings suggest that the near-side ridge is accompanied by an essentially identical away-side ridge. (c) 2013 CERN. Published by Elsevier B.V. All rights reserved.
8.	Abelev, Betty, et al. (författare) Measurement of prompt J/psi and beauty hadron production cross sections at mid-rapidity in pp collisions at root s=7 TeV 2012 Ingår i: Journal of High Energy Physics. - 1029-8479. ; :11 Tidskriftsartikel (refereegranskat)abstract The ALICE experiment at the LHC has studied J/psi production at mid-rapidity in pp collisions at root s = 7 TeV through its electron pair decay on a data sample corresponding to an integrated luminosity L-int = 5.6 nb(-1). The fraction of J/psi from the decay of long-lived beauty hadrons was determined for J/psi candidates with transverse momentum p(t) > 1,3 GeV/c and rapidity vertical bar y vertical bar < 0.9. The cross section for prompt J/psi mesons, i.e. directly produced J/psi and prompt decays of heavier charmonium states such as the psi(2S) and chi(c) resonances, is sigma(prompt J/psi) (p(t) > 1.3 GeV/c, vertical bar y vertical bar < 0.9) = 8.3 +/- 0.8(stat.) +/- 1.1 (syst.)(-1.4)(+1.5) (syst. pol.) mu b. The cross section for the production of b-hadrons decaying to J/psi with p(t) > 1.3 GeV/c and vertical bar y vertical bar < 0.9 is a sigma(J/psi <- hB) (p(t) > 1.3 GeV/c, vertical bar y vertical bar < 0.9) = 1.46 +/- 0.38 (stat.)(-0.32)(+0.26) (syst.) mu b. The results are compared to QCD model predictions. The shape of the p(t) and y distributions of b-quarks predicted by perturbative QCD model calculations are used to extrapolate the measured cross section to derive the b (b) over bar pair total cross section and d sigma/dy at mid-rapidity.
9.	Abelev, Betty, et al. (författare) Underlying Event measurements in pp collisions at root s=0.9 and 7 TeV with the ALICE experiment at the LHC 2012 Ingår i: Journal of High Energy Physics. - 1029-8479. ; :7 Tidskriftsartikel (refereegranskat)abstract We present measurements of Underlying Event observables in pp collisions at root s = 0 : 9 and 7 TeV. The analysis is performed as a function of the highest charged-particle transverse momentum p(T),L-T in the event. Different regions are defined with respect to the azimuthal direction of the leading (highest transverse momentum) track: Toward, Transverse and Away. The Toward and Away regions collect the fragmentation products of the hardest partonic interaction. The Transverse region is expected to be most sensitive to the Underlying Event activity. The study is performed with charged particles above three different p(T) thresholds: 0.15, 0.5 and 1.0 GeV/c. In the Transverse region we observe an increase in the multiplicity of a factor 2-3 between the lower and higher collision energies, depending on the track p(T) threshold considered. Data are compared to PYTHIA 6.4, PYTHIA 8.1 and PHOJET. On average, all models considered underestimate the multiplicity and summed p(T) in the Transverse region by about 10-30%.
10.	Adanza, Daniel, et al. (författare) IntentLLM: An AI Chatbot to Create, Find, and Explain Slice Intents in TeraFlowSDN 2024 Ingår i: 2024 IEEE 10th International Conference on Network Softwarization, NetSoft 2024. ; , s. 307-309 Konferensbidrag (refereegranskat)abstract A large language model (LLM) chatbot is integrated within TeraFlowSDN for intent manipulation. The resulting chatbot is capable of understanding the context and is able to carry out three actions: create, find, and explain intents using natural language while being flexible regarding the language used.
11.	Arriaga, S, et al. (författare) Gaseous hexane biodegradation by Fusarium solani in two liquid phase packed-bed and stirred-tank bioreactors 2006 Ingår i: Environmental Science & Technology. - : American Chemical Society (ACS). - 1520-5851 .- 0013-936X. ; 40:7, s. 2390-2395 Tidskriftsartikel (refereegranskat)abstract Biofiltration of hydrophobic volatile pollutants is intrinsically limited by poor transfer of the pollutants from the gaseous to the liquid biotic phase, where biodegradation occurs. This study was conducted to evaluate the potential of silicone oil for enhancing the transport and subsequent biodegradation of hexane by the fungus Fusarium solani in various bioreactor configurations. Silicone oil was first selected among various solvents for its biocompatibility, nonbiodegradability, and good partitioning properties toward hexane. In batch tests, the use of silicone oil improved hexane specific biodegradation by approximately 60%. Subsequent biodegradation experiments were conducted in stirred-tank (1.5 L) and packed-bed (2.5 L) bioreactors fed with a constant gaseous hexane load of 180 g center dot m(reactor)(-3)center dot h(-1) and operated for 12 and 40 days, respectively. In the stirred reactors, the maximum hexane elimination capacity (EC) increased from 50 g center dot m(reactor)(-3)center dot h(-1) (removal efficiency, RE of 28%) in the control not supplied with silicone oil to 120 g center dot m(reactor)(-3)center dot h(-1) in the biphasic system (67% RE). In the packed-bed bioreactors, the maximum EC ranged from 110 (50% RE) to 180 g center dot m(reactor)(-3)center dot h(-1) (>90% RE) in the control and two-liquid-phase systems, respectively. These results represent, to the best of our knowledge, the first reported case of fungi use in a two-liquid-phase bioreactor and the highest hexane removal capacities so far reported in biofilters.
12.	Backes, Claudia, et al. (författare) Production and processing of graphene and related materials 2020 Ingår i: 2D Materials. - : IOP Publishing. - 2053-1583. ; 7:2 Tidskriftsartikel (refereegranskat)abstract We present an overview of the main techniques for production and processing of graphene and related materials (GRMs), as well as the key characterization procedures. We adopt a 'hands-on' approach, providing practical details and procedures as derived from literature as well as from the authors' experience, in order to enable the reader to reproduce the results. Section I is devoted to 'bottom up' approaches, whereby individual constituents are pieced together into more complex structures. We consider graphene nanoribbons (GNRs) produced either by solution processing or by on-surface synthesis in ultra high vacuum (UHV), as well carbon nanomembranes (CNM). Production of a variety of GNRs with tailored band gaps and edge shapes is now possible. CNMs can be tuned in terms of porosity, crystallinity and electronic behaviour. Section II covers 'top down' techniques. These rely on breaking down of a layered precursor, in the graphene case usually natural crystals like graphite or artificially synthesized materials, such as highly oriented pyrolythic graphite, monolayers or few layers (FL) flakes. The main focus of this section is on various exfoliation techniques in a liquid media, either intercalation or liquid phase exfoliation (LPE). The choice of precursor, exfoliation method, medium as well as the control of parameters such as time or temperature are crucial. A definite choice of parameters and conditions yields a particular material with specific properties that makes it more suitable for a targeted application. We cover protocols for the graphitic precursors to graphene oxide (GO). This is an important material for a range of applications in biomedicine, energy storage, nanocomposites, etc. Hummers' and modified Hummers' methods are used to make GO that subsequently can be reduced to obtain reduced graphene oxide (RGO) with a variety of strategies. GO flakes are also employed to prepare three-dimensional (3d) low density structures, such as sponges, foams, hydro- or aerogels. The assembly of flakes into 3d structures can provide improved mechanical properties. Aerogels with a highly open structure, with interconnected hierarchical pores, can enhance the accessibility to the whole surface area, as relevant for a number of applications, such as energy storage. The main recipes to yield graphite intercalation compounds (GICs) are also discussed. GICs are suitable precursors for covalent functionalization of graphene, but can also be used for the synthesis of uncharged graphene in solution. Degradation of the molecules intercalated in GICs can be triggered by high temperature treatment or microwave irradiation, creating a gas pressure surge in graphite and exfoliation. Electrochemical exfoliation by applying a voltage in an electrolyte to a graphite electrode can be tuned by varying precursors, electrolytes and potential. Graphite electrodes can be either negatively or positively intercalated to obtain GICs that are subsequently exfoliated. We also discuss the materials that can be amenable to exfoliation, by employing a theoretical data-mining approach. The exfoliation of LMs usually results in a heterogeneous dispersion of flakes with different lateral size and thickness. This is a critical bottleneck for applications, and hinders the full exploitation of GRMs produced by solution processing. The establishment of procedures to control the morphological properties of exfoliated GRMs, which also need to be industrially scalable, is one of the key needs. Section III deals with the processing of flakes. (Ultra)centrifugation techniques have thus far been the most investigated to sort GRMs following ultrasonication, shear mixing, ball milling, microfluidization, and wet-jet milling. It allows sorting by size and thickness. Inks formulated from GRM dispersions can be printed using a number of processes, from inkjet to screen printing. Each technique has specific rheological requirements, as well as geometrical constraints. The solvent choice is critical, not only for the GRM stability, but also in terms of optimizing printing on different substrates, such as glass, Si, plastic, paper, etc, all with different surface energies. Chemical modifications of such substrates is also a key step. Sections IV-VII are devoted to the growth of GRMs on various substrates and their processing after growth to place them on the surface of choice for specific applications. The substrate for graphene growth is a key determinant of the nature and quality of the resultant film. The lattice mismatch between graphene and substrate influences the resulting crystallinity. Growth on insulators, such as SiO2, typically results in films with small crystallites, whereas growth on the close-packed surfaces of metals yields highly crystalline films. Section IV outlines the growth of graphene on SiC substrates. This satisfies the requirements for electronic applications, with well-defined graphene-substrate interface, low trapped impurities and no need for transfer. It also allows graphene structures and devices to be measured directly on the growth substrate. The flatness of the substrate results in graphene with minimal strain and ripples on large areas, allowing spectroscopies and surface science to be performed. We also discuss the surface engineering by intercalation of the resulting graphene, its integration with Si-wafers and the production of nanostructures with the desired shape, with no need for patterning. Section V deals with chemical vapour deposition (CVD) onto various transition metals and on insulators. Growth on Ni results in graphitized polycrystalline films. While the thickness of these films can be optimized by controlling the deposition parameters, such as the type of hydrocarbon precursor and temperature, it is difficult to attain single layer graphene (SLG) across large areas, owing to the simultaneous nucleation/growth and solution/precipitation mechanisms. The differing characteristics of polycrystalline Ni films facilitate the growth of graphitic layers at different rates, resulting in regions with differing numbers of graphitic layers. High-quality films can be grown on Cu. Cu is available in a variety of shapes and forms, such as foils, bulks, foams, thin films on other materials and powders, making it attractive for industrial production of large area graphene films. The push to use CVD graphene in applications has also triggered a research line for the direct growth on insulators. The quality of the resulting films is lower than possible to date on metals, but enough, in terms of transmittance and resistivity, for many applications as described in section V. Transfer technologies are the focus of section VI. CVD synthesis of graphene on metals and bottom up molecular approaches require SLG to be transferred to the final target substrates. To have technological impact, the advances in production of high-quality large-area CVD graphene must be commensurate with those on transfer and placement on the final substrates. This is a prerequisite for most applications, such as touch panels, anticorrosion coatings, transparent electrodes and gas sensors etc. New strategies have improved the transferred graphene quality, making CVD graphene a feasible option for CMOS foundries. Methods based on complete etching of the metal substrate in suitable etchants, typically iron chloride, ammonium persulfate, or hydrogen chloride although reliable, are time- and resource-consuming, with damage to graphene and production of metal and etchant residues. Electrochemical delamination in a low-concentration aqueous solution is an alternative. In this case metallic substrates can be reused. Dry transfer is less detrimental for the SLG quality, enabling a deterministic transfer. There is a large range of layered materials (LMs) beyond graphite. Only few of them have been already exfoliated and fully characterized. Section VII deals with the growth of some of these materials. Amongst them, h-BN, transition metal tri- and di-chalcogenides are of paramount importance. The growth of h-BN is at present considered essential for the development of graphene in (opto) electronic applications, as h-BN is ideal as capping layer or substrate. The interesting optical and electronic properties of TMDs also require the development of scalable methods for their production. Large scale growth using chemical/physical vapour deposition or thermal assisted conversion has been thus far limited to a small set, such as h-BN or some TMDs. Heterostructures could also be directly grown. Section VIII discusses advances in GRM functionalization. A broad range of organic molecules can be anchored to the sp(2) basal plane by reductive functionalization. Negatively charged graphene can be prepared in liquid phase (e.g. via intercalation chemistry or electrochemically) and can react with electrophiles. This can be achieved both in dispersion or on substrate. The functional groups of GO can be further derivatized. Graphene can also be noncovalently functionalized, in particular with polycyclic aromatic hydrocarbons that assemble on the sp(2) carbon network by pi-pi stacking. In the liquid phase, this can enhance the colloidal stability of SLG/FLG. Approaches to achieve noncovalent on-substrate functionalization are also discussed, which can chemically dope graphene. Research efforts to derivatize CNMs are also summarized, as well as novel routes to selectively address defect sites. In dispersion, edges are the most dominant defects and can be covalently modified. This enhances colloidal stability without modifying the graphene basal plane. Basal plane point defects can also be modified, passivated and healed in ultra-high vacuum. The decoration of graphene with metal nanoparticles (NPs) has also received considerable attention, as it allows to exploit synergistic effects between NPs and graphene. Decoration can be either achieved chemically or in the gas phase. All LMs,
13.	Borde, X, et al. (författare) Synergistic relationships in algal-bacterial microcosms for the treatment of aromatic pollutants. 2003 Ingår i: Bioresource Technology. - 1873-2976. ; 86:3, s. 293-300 Tidskriftsartikel (refereegranskat)abstract The potential of algal–bacterial microcosms was studied for the biodegradation of salicylate, phenol and phenanthrene. The isolation and characterization of aerobic bacterial strains capable of mineralizing each pollutant were first conducted. Ralstonia basilensis was isolated for salicylate degradation, Acinetobacter haemolyticus for phenol and Pseudomonas migulae and Sphingomonas yanoikuyae for phenanthrene. The green alga Chlorella sorokiniana was then cultivated in the presence of the pollutants at different concentrations, showing increasing inhibitory effects in the following order: salicylate85%) was recorded only in the systems inoculated with both algae and bacteria and incubated under continuous lighting. This study presents, to our knowledge, the first reported case of photosynthesis-enhanced biodegradation of toxic aromatic pollutants by algal–bacterial microcosms in a one-stage treatment.
14.	Calderón-Contreras, Rafael, et al. (författare) A regional PECS node built from place-based social-ecological sustainability research in Latin America and the Caribbean 2022 Ingår i: Ecosystems and People. - : Informa UK Limited. - 2639-5908 .- 2639-5916. ; 18:1, s. 1-14 Tidskriftsartikel (refereegranskat)abstract Sustainability requires a combination of meaningful co-production of locally relevant solutions, synthesis of insights gained across regions, and increased cooperation between science, policy and practice. The Programme for Ecosystem Change and Society (PECS) has been coordinating Place-Based Social-Ecological Sustainability Research (PBSESR) across the globe and emphasizes the need for regional scientific nodes from diverse biocultural regions to inform sustainability science and action. In this paper, we assess the strengths of the PBSESR communities in Latin America and the Caribbean (LAC). We provide an overview of PBSESR literature associated with this region and highlight the achievements of two prominent regional networks: The Social-Ecological Systems and Sustainability Research Network from Mexico (SocioEcoS) and the South American Institute for Resilience and Sustainability Studies from Uruguay (SARAS Institute). Finally, we identify the potential in these nodes to constitute a regional PECS node in Latin America and discuss the capacity needed to ensure such function. The results of the literature review show that while still loosely interconnected across the region, networks play key roles in connecting otherwise cloistered teams and we illustrate how the SocioEcoS network (focusing on transdisciplinary co-production of knowledge towards sustainability) and the SARAS Institute (focusing on innovative approaches for looking at complex social-ecological problems, rooted in slow science and arts) operate as key connectors in the region. We conclude that these organizations combined can embody a Latin American node for PECS, and would thereby not only contribute to regional but also global capacities to advance the sustainability agenda.
15.	Casellas, Ramon, et al. (författare) Introduction to the ONDM2020 special issue 2021 Ingår i: Journal of Optical Communications and Networking. - 1943-0620 .- 1943-0639. ; 13:6, s. ONDM1-ONDM2 Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)abstract This JOCN special issue includes extended versions of selected papers that were presented at the 24th International Conference on Optical Network Design and Modeling (ONDM2020), which took place virtually on May 18-21, 2020. The topics covered by the papers represent clear trends in current optical networking research including filterless optical networks and their applicability in metropolitan scenarios; programmable, software-defined-networking-enabled sliceable bandwidth variable transceivers supporting multi-dimensionality; and two applications of machine learning-the cognitive reconfiguration of data-center networks in support of high-performance computing, and quality of transmission estimation for reduced margins.
16.	Ferreira, Mjv, et al. (författare) Poster Session 3 : Tuesday 5 May 2015, 08 2015 Ingår i: European Heart Journal Cardiovascular Imaging. - : Oxford University Press (OUP). - 2047-2404 .- 2047-2412. ; 16 Suppl 1 Tidskriftsartikel (refereegranskat)
17.	Ferro, Ana, et al. (författare) Fruits and vegetables intake and gastric cancer risk : A pooled analysis within the Stomach cancer Pooling Project. 2020 Ingår i: International Journal of Cancer. - : Wiley. - 0020-7136 .- 1097-0215. ; 147:11, s. 3090-3101 Tidskriftsartikel (refereegranskat)abstract A low intake of fruits and vegetables is a risk factor for gastric cancer, although there is uncertainty regarding the magnitude of the associations. In our study, the relationship between fruits and vegetables intake and gastric cancer was assessed, complementing a previous work on the association betweenconsumption of citrus fruits and gastric cancer. Data from 25 studies (8456 cases and 21 133 controls) with information on fruits and/or vegetables intake were used. A two-stage approach based on random-effects models was used to pool study-specific adjusted (sex, age and the main known risk factors for gastric cancer) odds ratios (ORs) and the corresponding 95% confidence intervals (CIs). Exposure-response relations, including linear and nonlinear associations, were modeled using one- and two-order fractional polynomials. Gastric cancer risk was lower for a higher intake of fruits (OR: 0.76, 95% CI: 0.64-0.90), noncitrus fruits (OR: 0.86, 95% CI: 0.73-1.02), vegetables (OR: 0.68, 95% CI: 0.56-0.84), and fruits and vegetables (OR: 0.61, 95% CI: 0.49-0.75); results were consistent across sociodemographic and lifestyles categories, as well as study characteristics. Exposure-response analyses showed an increasingly protective effect of portions/day of fruits (OR: 0.64, 95% CI: 0.57-0.73 for six portions), noncitrus fruits (OR: 0.71, 95% CI: 0.61-0.83 for six portions) and vegetables (OR: 0.51, 95% CI: 0.43-0.60 for 10 portions). A protective effect of all fruits, noncitrus fruits and vegetables was confirmed, supporting further dietary recommendations to decrease the burden of gastric cancer.
18.	Ferro, Lorenza, 1989-, et al. (författare) Elucidating the symbiotic interactions between a locally isolated microalga Chlorella vulgaris and its co-occurring bacterium Rhizobium sp. in synthetic municipal wastewater 2019 Ingår i: Journal of Applied Phycology. - : Springer. - 0921-8971 .- 1573-5176. ; 31:4, s. 2299-2310 Tidskriftsartikel (refereegranskat)abstract Co-cultivation of microalgae and bacteria during municipal wastewater treatment can boost carbon and nutrient recovery as a result of their synergistic interactions. The symbiotic relationships between the locally isolated microalga Chlorella vulgaris and the bacterium Rhizobium sp., co-isolated from municipal wastewater, were investigated batchwise under photoautotrophic, heterotrophic, and mixotrophic conditions in a synthetic municipal wastewater medium. During photoautotrophic growth in BG11 medium, photosynthetic algal oxygenation and organic carbon production supported bacterial activity but no significant beneficial effects on microalgal growth were observed. In synthetic wastewater, a twofold higher biomass concentration was achieved in the axenic algal culture compared with the co-culture under heterotrophic conditions, suggesting a competition for nutrients. A comparable carbon removal was observed in all cultures (83–79% TOC), but a faster nitrogen consumption (59% TN) and complete phosphate assimilation (100% TP) was only achieved in the co-culture. A positive synergistic relationship was found under mixotrophic conditions, clearly supported by an in situ O2/CO2 exchange between the microorganisms. This mutualism led to a threefold higher biomass production with a 13-fold higher fatty acid content compared with the axenic algal culture, as well as a superior wastewater treatment performance (+ 58% TOC, + 41% TN and + 44% TP). The co-cultivation of C. vulgaris and Rhizobium is therefore suggested as a potential microbial consortium for a cost-efficient biomass generation during municipal wastewater reclamation, especially under mixotrophic conditions.
19.	Ferro, Lorenza, 1989-, et al. (författare) Growth performance and nutrient removal of a Chlorella vulgaris-Rhizobium sp. co-culture during mixotrophic feed-batch cultivation in synthetic wastewater 2019 Ingår i: Algal Research. - : Elsevier. - 2211-9264. ; 44 Tidskriftsartikel (refereegranskat)abstract The subarctic green algal strain Chlorella vulgaris 13-1, newly isolated from Northern Sweden, and its co-occurring bacterium Rhizobium sp. were tested for their ability to produce valuable biomass and remove nutrients from synthetic wastewater during mixotrophic feed-batch cultivation at multiple hydraulic retention times (HRTs = 7, 5 and 3 days). The algal-bacterial co-culture showed better performance compared to the corresponding axenic cultures (HRT = 7 days), with a biomass concentration of 0.63 +/- 0.03 g/L and removal rates of 49.5 +/- 6.1% TOC, 55.7 +/- 8.04% TN and 95.6 +/- 3.6% TP at steady-state. Culture stability and a high nutrient removal capacity were recorded in the algal-bacterial co-culture even at HRTs of 5 and 3 days. Interestingly, reducing the HRT from 7 to 5 days resulted in a higher lipid content of the biomass, further reduction of the HRT to 3 days enhanced both daily biomass productivity (1.03 g/L/day) and nutrient assimilation. Mixotrophic co-cultivation of C. vulgaris-Rhizobium sp. can successfully be applied for wastewater reclamation in continuous mode at HRT of 3-7 days, and thus is suitable for both summer and winter conditions in Nordic countries.
20.	Gitre, Ll, et al. (författare) Demonstration of Zero-touch Device and L3-VPN Service Management using the TeraFlow Cloud-native SDN Controller 2022 Ingår i: 2022 Optical Fiber Communications Conference and Exhibition, OFC 2022 - Proceedings. Konferensbidrag (refereegranskat)abstract We demonstrate zero-touch device bootstrapping, monitoring, and L3-VPN service management using the novel TeraFlow OS SDN controller prototype. TeraFlow aims at producing a cloud-native carrier-grade SDN controller offering scalability, extensibility, high-performance, and high-availability features.
21.	Guieysse, Benoit, et al. (författare) Influence of the initial composition of algal-bacterial microcosms on the degradation of salicylate in a fed-batch culture 2002 Ingår i: Biotechnology Letters. - 1573-6776. ; 24:7, s. 531-538 Tidskriftsartikel (refereegranskat)abstract The influence of the initial composition of an algal-bacterial microcosm constituted of Chlorella sorokiniana and Ralstonia basilensis was tested for the fed-batch degradation of salicylate at 5 mM. Salicylate degradation was always limited by the O-2 generation rate, which was initially proportional to the algal density, but rapidly became limited by the availability of light once the algae started to grow. The decrease of the salicylate removal rate observed at high algal densities was likely caused by mutual shading within the algal population and the increase of O-2 consumption due to algal dark respiration. With repeated salicylate amendments, all systems converged towards the same characteristics, reaching an optimum rate of salicylate degradation at 1 mmol l(-1) day.
22.	Krustok, Ivo, 1987- (författare) Microbiological analysis of municipal wastewater treating photobioreactors 2016 Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract Microalgae reactors, commonly known as photobioreactors, have become increasingly popular as an alternative for wastewater treatment. These systems reduce pollutants and remove nutrients such as nitrogen and phosphorous compounds from wastewater utilizing microalgae and bacteria. The biomass produced in the reactors can potentially be used to produce biofuels and decrease some of the energy demands of the process.Wastewater treating photobioreactors are a relatively new technology and many aspects of their microbiology need further study. This thesis presents a broad overview of the algal and bacterial communities present in these systems by looking at the most important species, metabolic pathways and growth dynamics of both algae and bacteria.The experiments presented in this thesis were conducted using municipal wastewater from the Västerås wastewater treatment plant. The wastewater was inoculated with algae from Lake Mälaren and compared to non-inoculated reactors. Overall, the inoculated reactors demonstrated better algal growth than those that were not inoculated. The tested systems also removed much of the ammonium and phosphorous present in the wastewater.The dominant algae in the tested systems belonged to the genera Scenedesmus, Desmodesmus and Chlorella. In addition to algae, the systems contained a large number of bacteria, mostly from the phyla Proteobacteria and Bacteroidetes.The algal photobioreactors contained a lower abundance of genes related to nitrogen metabolism, virulence and antibiotic resistance compared to the initial wastewater, showing that a shift in the bacterial community had occurred. The bacteria found in the systems were shown to be involved in synthesis of vitamins essential for algae growth such as vitamin B12, suggesting cooperation between the bacteria and algae.
23.	Marto, João Pedro, et al. (författare) Safety and Outcome of Revascularization Treatment in Patients With Acute Ischemic Stroke and COVID-19: The Global COVID-19 Stroke Registry. 2023 Ingår i: Neurology. - 1526-632X. ; 100:7 Tidskriftsartikel (refereegranskat)abstract COVID-19-related inflammation, endothelial dysfunction, and coagulopathy may increase the bleeding risk and lower the efficacy of revascularization treatments in patients with acute ischemic stroke (AIS). We aimed to evaluate the safety and outcomes of revascularization treatments in patients with AIS and COVID-19.This was a retrospective multicenter cohort study of consecutive patients with AIS receiving intravenous thrombolysis (IVT) and/or endovascular treatment (EVT) between March 2020 and June 2021 tested for severe acute respiratory syndrome coronavirus 2 infection. With a doubly robust model combining propensity score weighting and multivariate regression, we studied the association of COVID-19 with intracranial bleeding complications and clinical outcomes. Subgroup analyses were performed according to treatment groups (IVT-only and EVT).Of a total of 15,128 included patients from 105 centers, 853 (5.6%) were diagnosed with COVID-19; of those, 5,848 (38.7%) patients received IVT-only and 9,280 (61.3%) EVT (with or without IVT). Patients with COVID-19 had a higher rate of symptomatic intracerebral hemorrhage (SICH) (adjusted OR 1.53; 95% CI 1.16-2.01), symptomatic subarachnoid hemorrhage (SSAH) (OR 1.80; 95% CI 1.20-2.69), SICH and/or SSAH combined (OR 1.56; 95% CI 1.23-1.99), 24-hour mortality (OR 2.47; 95% CI 1.58-3.86), and 3-month mortality (OR 1.88; 95% CI 1.52-2.33). Patients with COVID-19 also had an unfavorable shift in the distribution of the modified Rankin score at 3 months (OR 1.42; 95% CI 1.26-1.60).Patients with AIS and COVID-19 showed higher rates of intracranial bleeding complications and worse clinical outcomes after revascularization treatments than contemporaneous non-COVID-19 patients receiving treatment. Current available data do not allow direct conclusions to be drawn on the effectiveness of revascularization treatments in patients with COVID-19 or to establish different treatment recommendations in this subgroup of patients with ischemic stroke. Our findings can be taken into consideration for treatment decisions, patient monitoring, and establishing prognosis.The study was registered under ClinicalTrials.gov identifier NCT04895462.
24.	Munoz, Raul, et al. (författare) Aerobic phenanthrene biodegradation in a two-phase partitioning bioreactor 2005 Ingår i: Water Science and Technology. - 0273-1223. ; 52:8, s. 265-271 Tidskriftsartikel (refereegranskat)abstract The aerobic degradation of phenanthrene by a Pseudomonas migulae strain under classical mechanical aeration and under photosynthetic oxygenation (using a Chlorella sorokiniana strain) in a two-phase partitioning bioreactor (TPPB) constructed with silicone oil as organic phase was investigated. When traditional mechanical aeration was used, an increase in the aeration and/or in the agitation rate enhanced phenanthrene biodegradation. Thus, phenanthrene removal rates (based on the total liquid volume of cultivation) ranged from 22 +/- 1 to 36 +/- 2 mg/l h at 100 rpm and 1 vvm and 400 rpm and 3 vvm, respectively. On the other hand, during phenanthrene biodegradation using the algal-bacterial microcosm a maximum rate of 8.1 +/- 1.2 mg/l h at 200 rpm and 8000 lux of illuminance was achieved.
25.	Munoz, Raul (författare) Algal-Bacterial Photobioreactors for the Degradation of Toxic Organic Pollutants 2005 Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract The aerobic biodegradation of toxic organic volatile contaminants is always limited by the low aqueous solubility of O2. Therefore, intensive bubbling or surface aeration is required to supply the bacterial community with sufficient O2 to carry out pollutant mineralization. This can cause the hazardous volatilization of toxic volatile contaminants. Photosynthetic oxygenation overcomes these limitations by in-situ O2 generation via photosynthesis. More precisely, microalgae produce the O2 required by the aerobic bacteria to mineralize organic pollutants, which in turn use the CO2 released by the bacteria. This oxygenation mode is both safer because there is no risk of volatilization due to air bubbling, and less expensive, because sunlight is used as the main energy source. The potential of photosynthetic oxygenation to support the biodegradation of toxic organic pollutants was investigated. Photosynthetic oxygenation was able to support the complete removal of salicylic acid, phenol, phenanthrene and acetonitrile under continuous artificial illumination in enclosed photobioreactors without any external O2 supply. Microalgae activity often limited the biodegradation process due to their low growth rate and their low tolerance towards toxic pollutants. Special attention was therefore given to the selection of microalgae. Chlorella sorokiniana, Chlorella vulgaris, Scenedesmus obliquus, Selenastrum capricornutum and Scotiellopsis oocystiformis were compared in combination with pollutant-specific degrading bacteria for their ability to support the biodegradation of salicylate and acetonitrile. In both cases, C. sorokiniana exhibited the highest O2 production rates and highest tolerance and therefore supported the fastest removal. The inhibition of microalgae was especially problematic when treating highly concentrated toxic effluents as process inhibition occurred, even with pollutant resistant microalgae. In this regard, two liquid phase bioreactors were shown to bring process stability, by allowing a self-regulated delivery of the toxic organic pollutant to the microbial community. Thus, the addition of silicone oil or tetradecane into the culture medium permitted the biodegradation of phenanthrene at concentrations of up to 500 mg.l-1. Maximum phenanthrene degradation rates up to 24 mg.l-1.h-1 were achieved in test tubes under continuous illumination at 17.000 lux with silicone oil as organic phase. In addition, the presence of the microalgae enhanced phenanthrene mass transfer to the cells by releasing biosurfactants that increased the interfacial area between the organic and the aqueous phase. The inoculation strategy was very important to favor the start-up in batch photobioreactors. Thus, at the early stages of biodegradation, microalgal density limited the process up to a certain algal density where the process became limited by light supply to the photosynthetic cells. Therefore, a sufficient initial microalgal density must be present in order to avoid excessively long lag phases. The continuous photosynthetically oxygenated biodegradation of salicylate was efficient and stable for over 1 year of operation. Under optimised conditions sodium salicylate was removed at a maximum constant rate of 87 mg.l-1.h-1, corresponding to an estimated oxygenation capacity of 77 mgO2.l-1.h-1. Process efficiency was significantly influenced by temperature, light intensity, pollutant concentration, and wastewater flow rate. The control of microalgal concentration by biomass settling and subsequent recirculation into the photobioreactor significantly enhanced pollutant biodegradation. When increasing biomass concentration from 0.4 to 0.6 g.l-1 salicylate removal efficiency increased from 56 to 100 %. One of the main advantages of algal-bacterial systems was the possibility to combine the removal of several pollutants. Indeed, the use of microalgae was specially advantageous for the degradation of organonitriles for two reasons; first it reduced their hazardous volatilisations and secondly a significant amount of the NH4+ generated during their biodegradation was assimilated by microalgae. During continuous acetonitrile biodegradation at 3.5 days of HRT, up to 83 % of the NH4+ produced was removed using a C. sorokiniana in combination with an acetonitrile degrading mixed culture. In addition, the residual biomass produced during pollutant mineralisation exhibited good properties with regards of Cu2+ removal, with specific adsorptions of up to 8.5 mgCu.g-1 at 20 mg.l-1 of initial Cu concentration. This study showed that the implementation of a process configuration based on an adsorption column packed with the residual biomass and placed before the photobioreactor enhanced the stability of a photosynthetically oxygenated salicylate biodegradation process. This study clearly demonstrated the broad potential of photosynthetic microorganisms in environmental biotechnology.
26.	Munoz, Raul, et al. (författare) Algal-bacterial processes for the treatment of hazardous contaminants: A review 2006 Ingår i: Water Research. - : Elsevier BV. - 1879-2448 .- 0043-1354. ; 40:15, s. 2799-2815 Forskningsöversikt (refereegranskat)abstract Microalgae enhance the removal of nutrients, organic contaminants, heavy metals, and pathogens from domestic wastewater and furnish an interesting raw material for the production of high-value chemicals (algae metabolites) or biogas. Photosynthetic oxygen production also reduces the need for external aeration, which is especially advantageous for the treatment of hazardous pollutants that must be biodegraded aerobically but might volatilize during mechanical aeration. Recent studies have therefore shown that when proper methods for algal selection and cultivation are used, it is possible to use microalgae to produce the 02 required by acclimatized bacteria to biodegrade hazardous pollutants such as polycyclic aromatic hydrocarbons, phenolics, and organic solvents. Well-mixed photobioreactors with algal biomass recirculation are recommended to protect the microalgae from effluent toxicity and optimize light utilization efficiency. The optimum biomass concentration to maintain in the system depends mainly on the light intensity and the reactor configuration: At low light intensity the biomass concentration should be optimized to avoid mutual shading and dark respiration whereas at high light intensity, a high biomass concentration can be useful to protect microalgae from light inhibition and optimize the light/dark cycle frequency. Photobioreactors can be designed as open (stabilization ponds or high rate algal ponds) or enclosed (tubular, flat plate) systems. The latter are generally costly to construct and operate but more efficient than open systems. The best configuration to select will depend on factors such as process safety, land cost, and biomass use. Biomass harvest remains a limitation but recent progresses have been made in the selection of flocculating strains, the application of bioflocculants, or the use of immobilized biomass systems.
27.	Munoz, Raul, et al. (författare) Biofilm photobioreactors for the treatment of industrial wastewaters. 2009 Ingår i: Journal of Hazardous Materials. - : Elsevier BV. - 1873-3336 .- 0304-3894. ; 161:1, s. 29-34 Tidskriftsartikel (refereegranskat)abstract A flat plate and a tubular packed-bed photobioreactor with an algal-bacterial biofilm attached onto Poraver((R)) beads carriers, a flat plate and a tubular photobioreactor with the biofilm attached onto the reactor walls, and an algal-turf reactor were compared in terms of BOD removal efficiencies, elimination capacities, and stability. A control column photobioreactor with suspended algal-bacterial biomass was also tested to compare the performance of biofilm photobioreactors with conventional algal-based processes. When the algal-bacterial biomass was immobilized onto Poraver((R)) the process never reached a steady state due to a poor homogenization in the bioreactor. When the biofilm was formed onto the reactor wall (or reactor base) the process was stable. A maximum degradation rate of 295mg BODl(-1)h(-1) was achieved in the algal-turf reactor although control experiments performed in the dark showed atmospheric O(2) diffusion represented 55% of the oxygenation capacity in this system. BOD removal rates of 108, and 92mg BODl(-1)h(-1) were achieved in the tubular and flat plate biofilm reactors, respectively, compared to 77mg BODl(-1)h(-1) in the control suspended bioreactor. In addition, all biofilm photobioreactors produced an easily settleable biomass. Evidence was found that biomass attachment to the reactor's wall improved stability.
28.	Munoz, Raul, et al. (författare) Combined carbon and nitrogen removal from acetonitrile using algal-bacterial bioreactors 2005 Ingår i: Applied Microbiology and Biotechnology. - : Springer Science and Business Media LLC. - 1432-0614 .- 0175-7598. ; 67:5, s. 699-707 Tidskriftsartikel (refereegranskat)abstract When compared with Chlorella vulgaris, Scenedesmus obliquus and Selenastrum capricornutum, C. sorokiniana presented the highest tolerance to acetonitrile and the highest O-2 production capacity. It also supported the fastest acetonitrile biodegradation when mixed with a suitable acetonitrile-degrading bacterial consortium. Consequently, this microalga was tested in symbiosis with the bacterial culture for the continuous biodegradation of acetonitrile at 2 g l(-1) in a stirred tank photobioreactor and in a column photobioreactor under continuous illumination (250 mu E m(-2) s(-1)). Acetonitrile removal rates of up to 2.3 g l(-1) day(-1) and 1.9 g l(-1) day(-1) were achieved in the column photobioreactor and the stirred-tank photobioreactor, respectively, when operated at the shortest retention times tested (0.4 days, 0.6 days, respectively). In addition, when the stirred-tank photobioreactor was operated with a retention time of 3.5 days, the microbial culture was capable of assimilating up to 71% and nitrifying up to 12% of the NH4+ theoretically released through the biodegradation of acetonitrile, thus reducing the need for subsequent nitrogen removal. This study suggests that complete removal of N-organics can be combined with a significant removal of nitrogen by using algal - bacterial systems and that further residual biomass digestion could pay-back part of the operation costs of the treatment plant.
29.	Munoz, Raul, et al. (författare) Enhanced hexane biodegradation in a two phase partitioning bioreactor: Overcoming pollutant transport limitations 2006 Ingår i: Process Biochemistry. - : Elsevier BV. - 1873-3298 .- 1359-5113. ; 41:7, s. 1614-1619 Tidskriftsartikel (refereegranskat)abstract The use of an organic solvent can allow to increase the mass transfer, and thereby biodegradation, of hydrophobic gaseous pollutants. The biodegradation of hexane by a Pseudomonas aeruginosa strain was thus optimized in a two phase partitioning bioreactor (TPPB). Silicone oil was first selected among various organic solvents based on its biocompatibility and resistance to R aeruginosa and its high affinity for hexane (air-organic partitioning of 0.0034). A silicone oil based TPPB was then compared with a conventional biofilter packed with foamed glass beads for the removal of hexane. The use of silicone oil significantly improved the process performance, allowing removal efficiencies (RE) and elimination capacities (EC) of 70 +/- 5% and 135 +/- 17 g m(reactor)(-3), h(-1) respectively, which were approximately five times higher than those in a similar system deprived from organic phase. When a conventional packed-bed biofilter was used, the average RE and EC achieved were 74% and 12 +/- 7 g m(reactor)(-3) h(-1) respectively. This study therefore confirms the potential of TPPBs for enhancing the transport and subsequent biodegradation of poorly soluble gaseous contaminants.
30.	Munoz, Raul, et al. (författare) Phenenthrene biodegradation by an algal-bacterial consortium in two-phase partitioning bioreactors. 2003 Ingår i: Applied Microbiology and Biotechnology. - : Springer Science and Business Media LLC. - 1432-0614 .- 0175-7598. ; 61:3, s. 261-267 Tidskriftsartikel (refereegranskat)abstract An algal-bacterial consortium formed by Chlorella sorokiniana and a phenanthrene-degrading Pseudomonas migulae strain was able to biodegrade 200-500 mg/l of phenanthrene dissolved in silicone oil or tetradecane under photosynthetic conditions and without any external supply of oxygen. Phenanthrene was only removed when provided in organic solvent, which confirms the potential of two-phase systems for toxicity reduction. Phenanthrene was degraded at highest rates when provided in silicone oil rather than in tetradecane since this solvent probably sequestered the PAH, reducing its mass transfer to the aqueous phase. The influence of phenanthrene concentration, amount of inoculum and light intensity on pollutant removal was also investigated and, under the best conditions, phenanthrene was degraded at 24.2 g mm3·hm1. In addition to being cost-effective and mitigating the release of greenhouse gases into the atmosphere, photosynthetic oxygenation was especially beneficial to the use of two-phase partitioning bioreactors since it prevented solvent emulsification and/or volatilization and evidence was found that the microalgae release biosurfactants that could further enhance phenanthrene degradation.
31.	Munoz, Raul, et al. (författare) Photosynthetically oxygenated acetonitrile biodegradation by an algal-bacterial microcosm: a pilot-scale study 2005 Ingår i: Water Science and Technology. - 0273-1223. ; 51:12, s. 261-265 Tidskriftsartikel (refereegranskat)abstract A 43-L column photobioreactor wash tested for the treatment of acetonitrile Using a symbiotic consortium consisting of a Chlorella sorokiniana strain and a Comamonas strain. Complete biodegradation of 1 g acetonitrile/l was achieved in 79 hours under continuous illumination at 500 mu E/m(2) s and 26 degrees C. When the photobioreactor was operated at 26 degrees C under a 14/10 hours light/dark illumination regime at 500 mu E/m(2) S, complete.mineralization of 1 g acetonitrile/l was achieved in. 111, hours. However, when acetonitrile was supplied at 2 g/l, the biodegradation process was severely inhibited by the increase of pH and NH4+ concentration during cultivation. In addition to saving energy for aeration, the microalgae assimilated 33% of the NH4+ released during acetonitrile biodegradation, which significantly reduces the need for subsequent nitrogen removal.
32.	Munoz, Raul, et al. (författare) Photosynthetically oxygenated salicylate biodegradation in a continuous stirred tank photobioreactor 2004 Ingår i: Biotechnology and Bioengineering. - : Wiley. - 1097-0290 .- 0006-3592. ; 87:6, s. 797-803 Tidskriftsartikel (refereegranskat)abstract A consortium consisting of a Chlorella sorokiniana strain and a Ralstonia basilensis strain was able to carry out sodium salicylate biodegradation in a continuous stirred tank reactor (CSTR) using exclusively photosynthetic oxygenation. Salicylate biodegradation depended on algal activity, which itself was a function of microalgal concentration, light intensity, and temperature. Biomass recirculation improved the photobioreactor performance by up to 44% but the results showed the existence of an optimal biomass concentration above which dark respiration started to occur and the process efficiency started to decline. The salicylate removal efficiency increased by a factor of 3 when illumination was increased from 50 - 300 muE/M-2 (.)s. In addition, the removal rate of sodium salicylate was shown to be temperature-dependent, increasing from 14 to 27 mg/l(.)h when the temperature was raised from 26.5 to 31.5degreesC. Under optimized conditions (300 muE/m(2) (.)s, 30degreesC, 1 g sodium salicylate/l in the feed and biomass recirculation) sodium salicylate was removed at a maximum constant rate of 87 mg/l.h, corresponding to an estimated oxygenation capacity of 77 mg O-2/l(.)h (based on a BOD value of 0.88 g O-2/g sodium salicylate for the tested bacterium), which is in the range of the oxygen transfer capacity of large-scale mechanical surface aerators. Thus, although higher degradation rates were attained in the control reactor, the photobioreactor is a cost-efficient process which reduces the cost of aeration and prevents volatilization problems associated with the degradation of toxic volatile organic compounds under aerobic conditions. (C) 2004 Wiley Periodicals, Inc.
33.	Munoz, Raul, et al. (författare) Salicylate biodegradation by various algal-bacterial consortia under photosynthetic oxygenation. 2003 Ingår i: Biotechnology Letters. - 1573-6776. ; 25:22, s. 1905-1911 Tidskriftsartikel (refereegranskat)abstract Four green microalgae (Chlorella sorokiniana, Chlorella vulgaris, Scenedesmus obliquus and Selenastrum capricornutum), a wild Bolivian microalga strain and two cyanobacteria (Anabaena catenula and Microcystis aeruginosa) were compared for tolerance to salicylate, O2 production capacity and ability to support salicylate degradation by a Ralstonia basilensis strain in symbiotic microcosms with the microalgae. Microcystis aeruginosa had the highest tolerance to salicylate at 500 mg l-1 and 1500 mg l-1 but only produced 0.7 mg O2 l-1 h-1 in the absence of pollutant. Chlorella sorokiniana resisted salicylate at 1500 mg l-1 with the highest O2 production in the absence of salicylate (26 mg l-1 h-1) closely followed by the Bolivian microalga (23 mg l-1 h-1) and Chlorella vulgaris (21 mg l-1 h-1). Selenastrum capricornutum and Anabaena catenula were completely inhibited by salicylate at 500 mg l-1. When inoculated with Ralstonia sp. and supplied with salicylate, Chlorella sorokiniana had the highest removal rate (19 mg l-1 h-1), followed by the wild Bolivian strain (18 mg l-1 h-1) and Chlorella vulgaris (14 mg l-1 h-1).
34.	Natalino Da Silva, Carlos, 1987, et al. (författare) A Flexible and Scalable ML-Based Diagnosis Module for Optical Networks: A Security Use Case 2023 Ingår i: Journal of Optical Communications and Networking. - 1943-0620 .- 1943-0639. ; 15:8, s. C155-C165 Tidskriftsartikel (refereegranskat)abstract To support the pervasive digital evolution, optical network infrastructures must be able to quickly and effectively adapt to the changes arising from traffic dynamicity or external factors such as faults and attacks. Network automation is crucial for enabling dynamic, scalable, resource-efficient, and trustworthy network operations. Novel telemetry solutions enable optical network management systems to obtain fine-grained monitoring data from devices and channels as the first step towards the near-real-time diagnosis of anomalies such as security threats and soft failures. However, the collection of large amounts of data creates a scalability challenge related to processing the data within the desired monitoring cycle regardless of the number of optical services being analyzed. This paper proposes a module that leverages the cloud native software deployment approach to achieve near-real-time \ac{ML}-assisted diagnosis of optical channels. The results obtained over an emulated physical-layer security scenario demonstrate that the architecture successfully scales the necessary components according to the computational load, and consistently achieves the desired monitoring cycle duration over a varying number of monitored optical channels.
35.	Natalino Da Silva, Carlos, 1987, et al. (författare) Microservice-Based Unsupervised Anomaly Detection Loop for Optical Networks 2022 Ingår i: 2022 Optical Fiber Communications Conference and Exhibition, OFC 2022 - Proceedings. Konferensbidrag (refereegranskat)abstract Unsupervised learning (UL) is a technique to detect previously unseen anomalies without needing labeled datasets. We propose the integration of a scalable UL-based inference component in the monitoring loop of an SDN-controlled optical network.
36.	Natalino Da Silva, Carlos, 1987, et al. (författare) Microservice-Based Unsupervised Anomaly Detection Loop for Optical Networks 2016 Ingår i: Optics InfoBase Conference Papers. ; 2016 Konferensbidrag (refereegranskat)abstract Unsupervised learning (UL) is a technique to detect previously unseen anomalies without needing labeled datasets. We propose the integration of a scalable UL-based inference component in the monitoring loop of an SDN-controlled optical network.
37.	Natalino Da Silva, Carlos, 1987, et al. (författare) Scalable and Efficient Pipeline for ML-based Optical Network Monitoring 2023 Ingår i: 2023 Optical Fiber Communications Conference and Exhibition, OFC 2023 - Proceedings. Konferensbidrag (refereegranskat)abstract We demonstrate a scalable processing of OPM data using ML to detect anomalies in optical services at run time. A dashboard will show operational SDN controller metrics, raw OPM data, and the ML assessment results.
38.	Natalino Da Silva, Carlos, 1987, et al. (författare) Scalable Physical Layer Security Components for Microservice-Based Optical SDN Controllers 2021 Ingår i: European Conference on Optical Communication, ECOC. ; 2021 Konferensbidrag (refereegranskat)abstract We propose and demonstrate a set of microservice-based security components able to perform physical layer security assessment and mitigation in optical networks. Results illustrate the scalability of the attack detection mechanism and the agility in mitigating attacks.
39.	Olson, Nathan D., et al. (författare) precisionFDA Truth Challenge V2: Calling variants from short- and long-reads in difficult-to-map regions 2020 Annan publikation (övrigt vetenskapligt/konstnärligt)abstract The precisionFDA Truth Challenge V2 aimed to assess the state-of-the-art of variant calling in difficult-to-map regions and the Major Histocompatibility Complex (MHC). Starting with FASTQ files, 20 challenge participants applied their variant calling pipelines and submitted 64 variant callsets for one or more sequencing technologies (~35X Illumina, ~35X PacBio HiFi, and ~50X Oxford Nanopore Technologies). Submissions were evaluated following best practices for benchmarking small variants with the new GIAB benchmark sets and genome stratifications. Challenge submissions included a number of innovative methods for all three technologies, with graph-based and machine-learning methods scoring best for short-read and long-read datasets, respectively. New methods out-performed the 2016 Truth Challenge winners, and new machine-learning approaches combining multiple sequencing technologies performed particularly well. Recent developments in sequencing and variant calling have enabled benchmarking variants in challenging genomic regions, paving the way for the identification of previously unknown clinically relevant variants.
40.	Olson, Nathan D., et al. (författare) PrecisionFDA Truth Challenge V2: Calling variants from short and long reads in difficult-to-map regions 2022 Ingår i: Cell Genomics. - : Elsevier BV. - 2666-979X. ; 2:5, s. 1-12 Tidskriftsartikel (refereegranskat)abstract The precisionFDA Truth Challenge V2 aimed to assess the state of the art of variant calling in challenging genomic regions. Starting with FASTQs, 20 challenge participants applied their variant-calling pipelines and submitted 64 variant call sets for one or more sequencing technologies (Illumina, PacBio HiFi, and Oxford Nanopore Technologies). Submissions were evaluated following best practices for benchmarking small variants with updated Genome in a Bottle benchmark sets and genome stratifications. Challenge submissions included numerous innovative methods, with graph-based and machine learning methods scoring best for short-read and long-read datasets, respectively. With machine learning approaches, combining multiple sequencing technologies performed particularly well. Recent developments in sequencing and variant calling have enabled benchmarking variants in challenging genomic regions, paving the way for the identification of previously unknown clinically relevant variants.
41.	Olsson, Jesper, 1975- (författare) Co-digestion of microalgae and sewage sludge - A feasibility study for municipal wastewater treatment plants 2018 Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract The increased emissions of anthropogenic greenhouse gases over the last 100 years is the reason for the acceleration in the greenhouse effect, which has led to an increase of the globally averaged combined land and ocean surface temperature of 0.85 °C between 1880 and 2012. A small fraction of the increased anthropogenic greenhouse gases originates from municipal wastewater treatment plants (WWTPs).This doctoral thesis was part of a larger investigation of using an alternative biological treatment based on the symbiosis of microalgae and bacteria (MAAS-process (microalgae and activated sludge)). This solution could be more energy efficient and potentially consume carbon dioxide from fossil combustion processes and also directly capture carbon dioxide from the atmosphere and thereby reduce the addition of anthropogenic greenhouse gases to the air. The objective of the thesis was to explore the effects when the microalgae-derived biomass from the biological treatment were co-digested with sewage sludge. The results from these experimental studies were then used to evaluate the effects on a system level when implementing microalgae in municipal WWTP. Microalgae grown from a synthetic medium improved the methane yield with up to 23% in mesophilic conditions when part of the sewage sludge was replaced by the microalgae. The microalgae grown from municipal wastewater showed no synergetic effect. In the semi-continuous experiments the methane yield was slightly reduced when implementing the microalgae. Furthermore the digestibility of the co-digestion between sewage sludge and microalgae were lower compared to the digestion of sewage sludge. The digestates containing microalgal substrate had higher heavy metals content than digestates containing only sewage sludge. This could have a negative effect on the potential to use this digestate on arable land in future, due to strict limits from the authorities. Filterability measurements indicated that the addition of microalgae enhanced the dewaterability of the digested sludge and lowered the demand for polyelectrolyte significantly. When a hypothetical MAAS-process replaced a conventional ASP-process the amount of feedstock of biomass increased significantly due to the increased production from the autotrophic microalgae. This increased the biogas production by 66-210% and reduced the heavy metal concentration in the digestate due to a dilution effect from the increased biomass production. The thesis demonstrates that microalgae in combination with bacteria from a MAAS-process can be a realistic alternative feedstock to WAS in the anaerobic digestion at a municipal WWTP. A few drawbacks need to be considered when choosing a MAAS-process as biological treatment.
42.	Olsson, Jesper, 1975- (författare) Enhanced biogas production from municipal WWTPs : Co-digestion of microalgae with sewage sludge and thermophilic secondary digestion of mesophilic digested sludge 2015 Licentiatavhandling (övrigt vetenskapligt/konstnärligt)abstract Biogas is produced when organic material is broken down in oxygen-free (anaerobic) conditions. This process is called anaerobic digestion and is used in most large and medium-sized municipal wastewater treatment plants in Sweden. In the wastewater treatment sewage sludge is obtained, from the mecanical-, biological and chemical treatment step, which contains decomposable organic material. The sludge is pumped into a digester, which is an airtight container. In the digester raw biogas, consisting of methane and carbon dioxide, is produced. The material that comes out of the digester is a nutrient rich residue (digestate) which can be used as a fertilizer or soil conditioner. The purpose of this study was to explore ways to increase the biogas production that takes place at the municipal wastewater treatment plants by either co-digestion of sewage sludge with microalgae from a possible future biological purification steps or to use two digestion stages in series with different operating temperatures, mesophilic (37ºC) followed by a thermophilic digestion (55ºC). The challenges with these methods, which are also taken into consideration in the studies, were changes in the dewaterability of the digestate, system efficiency regarding electricity and heat consumption, the ability to recycle nutrients, changes in the carbon footprint from the treatment plant, change of the pollution level in the digestate and the ability to create a sanitization method for the digestate.The results from the first part showed in both batch digestability tests and continuous anaerobic digestion experiment that microalgae cultivated on wastewater can be a feasible feedstock for anaerobic co-digestion with sewage sludge. Microalgae improved the biogas production in mesophilic conditions but not in thermophilic digestion. In the semi-continous experiment, with the addition of a natural mix of microalgae grown from wastewater to sewage sludge, the specific methane production was enhanced with 39 % for every gram organic matter reduced. The specific methane production for every gram added organic matter to the reactors were 9% lower in the digester where microalgae had been added. When microalgae were added the total digestibility was reduced compared to the reference digestion with only sewage sludge. Filterability tests indicated that the addition of microalgae enhanced the dewaterability of the digested sludge. Heavy metal levels in the microalgae substrate were much higher than in the sludge which could restrict the utilization of the digestate on arable land in a possible future full scale application.The results in the second part showed that the process solution could be a self-sufficient sanitation method. The highest organic loading rates tested in this study were in the range causing an unstable process due to high ammonia levels The thermophilic digestion gave the sludge worse dewaterability. However, a subsequent aeration step could improve the properties again.
43.	Quino Lima, Israel, 1980-, et al. (författare) Hydrochemical assessment with respect to arsenic and other trace elementsin the Lower Katari Basin, Bolivian Altiplano 2019 Ingår i: Groundwater for Sustainable Development. - : Elsevier BV. - 2352-801X. ; 8, s. 281-293 Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)abstract Hydrochemical investigations of groundwater and surface water were carried out to better understand the spatial distribution of As, major ions and trace elements.The study was carried out to evaluate the sources of dissolved species and elucidate the processes that govern the evolution of natural water in the Lower Katari Basin.The study area is close to the Titicaca Lake (Cohana Bay) formed by sediments of the Quaternary system, deposited in the fluvio-glacial to fluvio-lacustrineenvironment and geologic formations of the Devonian and Neogene system of volcanic origin. The study area has several environmental problems mainly caused bycontaminants such as heavy metals, nutrients, and bacteria. These problems are linked to the urban and industrial wastes, natural geologic conditions, and miningactivities carried out upstream of the Katari Basin, where rivers discharge into the Cohana Bay.A total of 37 water samples were collected during wet season, 31 groundwater samples including drinking water wells and six surface water samples. Thehierarchical cluster analysis and principal component analysis were applied to hydrochemical data. Results show high salinity in groundwater related to theevaporation causing serious problems for the groundwater quality and rendering it unsuitable for drinking. Dissolved As concentration ranges from 0.7 to 89.7 μg/L;the principal source of As could be the alteration of volcanic rocks, more than 48% of the shallow groundwater samples exceeded the WHO guideline value for As andmore than 22% for NO3-. Groundwater has neutral to slightly alkaline pH, and moderately oxidizing character. The groundwater chemistry reveals considerablevariability, ranging from Na-SO4,Cl type through mixed Na-HCO3 type and Ca,Na-HCO3,Cl type. The distribution of trace elements shows a large range of concentrations.Speciation of As indicates that the predominant oxidation state is As (V). The geochemical modelling indicates that As could be associated with ironoxides and hydroxides which are probably the most important mineral phases for the As adsorption. The spatial distribution and the variation of dissolved Asconcentration in groundwater is governed by the variability in geological characteristics of the region that raises a significant concern about drinking water quality.
44.	Rota, Matteo, et al. (författare) Education and gastric cancer risk-An individual participant data meta-analysis in the StoP project consortium 2020 Ingår i: International Journal of Cancer. - : WILEY. - 0020-7136 .- 1097-0215. ; 146:3, s. 671-681 Tidskriftsartikel (refereegranskat)abstract Low socioeconomic position (SEP) is a strong risk factor for incidence and premature mortality from several cancers. Our study aimed at quantifying the association between SEP and gastric cancer (GC) risk through an individual participant data meta-analysis within the "Stomach cancer Pooling (StoP) Project". Educational level and household income were used as proxies for the SEP. We estimated pooled odds ratios (ORs) and the corresponding 95% confidence intervals (CIs) across levels of education and household income by pooling study-specific ORs through random-effects meta-analytic models. The relative index of inequality (RII) was also computed. A total of 9,773 GC cases and 24,373 controls from 25 studies from Europe, Asia and America were included. The pooled OR for the highest compared to the lowest level of education was 0.60 (95% CI, 0.44-0.84), while the pooled RII was 0.45 (95% CI, 0.29-0.69). A strong inverse association was observed both for noncardia (OR 0.39, 95% CI, 0.22-0.70) and cardia GC (OR 0.47, 95% CI, 0.22-0.99). The relation was stronger among H. pylori negative subjects (RII 0.14, 95% CI, 0.04-0.48) as compared to H. pylori positive ones (RII 0.29, 95% CI, 0.10-0.84), in the absence of a significant interaction (p = 0.28). The highest household income category showed a pooled OR of 0.65 (95% CI, 0.48-0.89), while the corresponding RII was 0.40 (95% CI, 0.22-0.72). Our collaborative pooled-analysis showed a strong inverse relationship between SEP indicators and GC risk. Our data call for public health interventions to reduce GC risk among the more vulnerable groups of the population. What's new? Gastric cancer is associated with low socioeconomic position but the precise impact of education on gastric cancer risk needs to be quantified. Here the authors provide an updated quantification through the analysis of the Stomach cancer Pooling (StoP) Project, a large international consortium of case-control studies. They observe a similar to 40% decreased risk of gastric cancer among individuals with intermediate/high education status as compared to less educated study subjects. The association was evident regardless of Helicobacter pylori infection, underscoring the need for public health interventions to reduce gastric cancer risk.
45.	Valdes, Raúl, et al. (författare) Cellular Trafficking of Glutathione Transferase M2-2 Between U373MG and SHSY-S7 Cells is Mediated by Exosomes 2021 Ingår i: Neurotoxicity research. - : Springer Science and Business Media LLC. - 1029-8428 .- 1476-3524. ; 39:2, s. 182-190 Tidskriftsartikel (refereegranskat)abstract The enzyme glutathione transferase M2-2, expressed in human astrocytes, increases its expression in the presence of aminochrome and catalyzes the conjugation of aminochrome, preventing its toxic effects. Secretion of the enzyme glutathione transferase M2-2 from U373MG cells, used as a cellular model for astrocytes, has been reported, and the enzyme is taken up by neuroblastoma SYSH-S7 cells and provide protection against aminochrome. The present study provides evidence that glutathione transferase M2-2 is released in exosomes from U373MG cells, thereby providing a means for intercellular transport of the enzyme. With particular relevance to Parkinson disease and other degenerative conditions, we propose a new mechanism by which astrocytes may protect dopaminergic neurons against the endogenous neurotoxin aminochrome.
46.	Vilalta, Ricard, et al. (författare) TeraFlow: Secured autonomic traffic management for a tera of SDN flows 2021 Ingår i: 2021 Joint European Conference on Networks and Communications and 6G Summit, EuCNC/6G Summit 2021. - 9781665415262 ; , s. 377-382 Konferensbidrag (refereegranskat)abstract TeraFlow proposes a new type of secure, cloud-native Software Defined Networking (SDN) controller that will radically advance the state-of-the-art in beyond 5G networks by introducing novel micro-services architecture, and provide revolutionary features for both flow management (service layer) and optical/microwave network equipment integration (infras-tructure layer) by adapting new data models. TeraFlow will also incorporate security using Machine Learning (ML) and forensic evidence for multi-tenancy based on Distributed Ledgers. Finally, this new SDN controller shall be able to integrate with the current Network Function Virtualization (NFV) and Multi-access Edge Computing (MEC) frameworks as well as to other networks. The target pool of TeraFlow stakeholders expands beyond the traditional telecom operators towards edge and hyperscale cloud providers.
47.	Zamora, Juan Carlos, et al. (författare) Considerations and consequences of allowing DNA sequence data as types of fungal taxa 2018 Ingår i: IMA Fungus. - : INT MYCOLOGICAL ASSOC. - 2210-6340 .- 2210-6359. ; 9:1, s. 167-185 Tidskriftsartikel (refereegranskat)abstract Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.

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