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1.
  • Abarenkov, Kessy, et al. (författare)
  • Annotating public fungal ITS sequences from the built environment according to the MIxS-Built Environment standard – a report from a May 23-24, 2016 workshop (Gothenburg, Sweden)
  • 2016
  • Ingår i: MycoKeys. - 1314-4057 .- 1314-4049. ; 16, s. 1-15
  • Tidskriftsartikel (refereegranskat)abstract
    • Recent molecular studies have identified substantial fungal diversity in indoor environments. Fungi and fungal particles have been linked to a range of potentially unwanted effects in the built environment, including asthma, decay of building materials, and food spoilage. The study of the built mycobiome is hampered by a number of constraints, one of which is the poor state of the metadata annotation of fungal DNA sequences from the built environment in public databases. In order to enable precise interrogation of such data - for example, "retrieve all fungal sequences recovered from bathrooms" - a workshop was organized at the University of Gothenburg (May 23-24, 2016) to annotate public fungal barcode (ITS) sequences according to the MIxS-Built Environment annotation standard (http:// gensc.org/ mixs/). The 36 participants assembled a total of 45,488 data points from the published literature, including the addition of 8,430 instances of countries of collection from a total of 83 countries, 5,801 instances of building types, and 3,876 instances of surface-air contaminants. The results were implemented in the UNITE database for molecular identification of fungi (http://unite.ut.ee) and were shared with other online resources. Data obtained from human/animal pathogenic fungi will furthermore be verified on culture based metadata for subsequent inclusion in the ISHAM-ITS database (http:// its. mycologylab.org).
2.
  • Abdeldaim, Aly H., et al. (författare)
  • Large easy-axis anisotropy in the one-dimensional magnet BaMo(PO4)(2)
  • 2019
  • Ingår i: Physical Review B. - 24699969 .- 24699950. ; 100:21
  • Tidskriftsartikel (refereegranskat)abstract
    • We present an extensive experimental and theoretical study on the low-temperature magnetic properties of the monoclinic anhydrous alum compound BaMo(PO4)(2). The magnetic susceptibility reveals strong antiferromagnetic interactions theta(CW) = -167 K and long-range magnetic order at T-N = 22 K, in agreement with a recent report. Powder neutron diffraction furthermore shows that the order is collinear, with the moments near the ac plane. Neutron spectroscopy reveals a large excitation gap Delta = 15 meV in the low-temperature ordered phase, suggesting a much larger easy-axis spin anisotropy than anticipated. However, the large anisotropy justifies the relatively high ordered moment, Neel temperature, and collinear order observed experimentally and is furthermore reproduced in a first-principles calculations by using a new computational scheme. We therefore propose BaMo(PO4)(2) to host S = 1 antiferromagnetic chains with large easy-axis anisotropy, which has been theoretically predicted to realize novel excitation continua.
3.
  • Aboulfadl, Hisham, et al. (författare)
  • Microstructural Characterization of Sulfurization Effects in Cu(In,Ga)Se-2 Thin Film Solar Cells
  • 2019
  • Ingår i: Microscopy and Microanalysis. - CAMBRIDGE UNIV PRESS. - 1431-9276 .- 1435-8115. ; 25:2, s. 532-538
  • Tidskriftsartikel (refereegranskat)abstract
    • Surface sulfurization of Cu(In,Ga)Se-2 (CIGSe) absorbers is a commonly applied technique to improve the conversion efficiency of the corresponding solar cells, via increasing the bandgap towards the heterojunction. However, the resulting device performance is understood to be highly dependent on the thermodynamic stability of the chalcogenide structure at the upper region of the absorber. The present investigation provides a high-resolution chemical analysis, using energy dispersive X-ray spectrometry and laser-pulsed atom probe tomography, to determine the sulfur incorporation and chemical re-distribution in the absorber material. The post-sulfurization treatment was performed by exposing the CIGSe surface to elemental sulfur vapor for 20 min at 500 degrees C. Two distinct sulfur-rich phases were found at the surface of the absorber exhibiting a layered structure showing In-rich and Ga-rich zones, respectively. Furthermore, sulfur atoms were found to segregate at the absorber grain boundaries showing concentrations up to similar to 7 at% with traces of diffusion outwards into the grain interior.
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4.
  • Abrahamsson, K., et al. (författare)
  • Variations of biochemical parameters along a transect in the Southern Ocean, with special emphasis on volatile halogenated organic compounds
  • 2004
  • Ingår i: Deep-sea research. Part II, Topical studies in oceanography. - 0967-0645. ; 51:22-24, s. 2745-2756
  • Tidskriftsartikel (refereegranskat)abstract
    • A number of parameters of biogeochemical interest were monitored along a north–southerly transect (S 43–S 63°) in the Atlantic Sector of the Southern Ocean from the 8th to the 20th of December 1997. Changes in total dissolved inorganic carbon (CT) and total alkalinity (AT) were mostly dependent on temperature and salinity until the ice edge was reached. After this point only a weak correlation was seen between these. Highest mean values of CT and AT were observed in the Winter Ice Edge (WIE) (2195 and 2319 μmol kg−1, respectively). Lowest mean AT (2277 μmol kg−1) was observed in the Sub-Antarctic Front (SAF), whereas lowest mean CT concentration (2068 μmol kg−1) was associated with the Sub-Tropical Front (STF). The pH in situ varied between 8.060 and 8.156 where the highest values were observed in the southern part of the Antarctic Polar Front (APF) and in the Summer Ice Edge (SIE) Region . These peaks were associated with areas of high chlorophyll a (chl a) and tribromomethane values. In the other areas the pH in situ was mainly dependent on hydrography. Bacterial abundance decreased more than one order of magnitude when going from north to south. The decrease appeared to be strongly related to water temperature and there were no elevated abundances at frontal zones. Microphytoplankton dominated in the SAF and APF, whereas the nano- and picoplankton dominated outside these regions.Volatile halogenated compounds were found to vary both with regions, and with daylight. For the iodinated compounds, the highest concentrations were found north of the STF. Brominated hydrocarbons had high concentrations in the STF, but elevated concentrations were also found in the APF and SIE regions. No obvious correlation could be found between the occurrence of individual halocarbons and chl a. On some occasions trichloroethene and tribromomethane related to the presence of nano- and microplankton, respectively.
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5.
  • Abrahamsson, Maria, et al. (författare)
  • High Extinction Coefficient Ru-Sensitizers that Promote Hole Transfer on Nanocrystalline TiO2
  • 2014
  • Ingår i: ChemPhysChem. - 1439-7641 .- 1439-4235. ; 15:6, s. 1154-1163
  • Tidskriftsartikel (refereegranskat)abstract
    • Two series of Ru-II polypyridyl compounds with formulas [(bpy)(2)RuL](PF6)(2) and [(deeb)(2)RuL](PF6)(2), where bpy is 2,2-bipyridine, deeb is 4,4-diethylester-2,2-bpy, and L is one of several substituted 9-(1,3-dithiole-2-ylidene)-4,5-diazafluorene ligands, were studied as potential photosensitizers for TiO2. These compounds possess notably high extinction coefficients (40000M(-1)cm(-1) @470 nm) which are shown by time-dependent density functional theory (TD-DFT) calculations to result from overlapping metal-to-ligand charge transfer (MLCT) and ligand-localized transitions. Low-temperature absorption and photoluminescence measurements were suggestive of a short-lived MLCT excited state. When adsorbed onto TiO2 thin films, both the free ligands (L) and their corresponding [(deeb)(2)RuL](2+) complexes exhibited rapid excited-state electron injection into TiO2; in the case of the complexes, this was followed by rapid (k>10(8) s(-1)) hole transfer from Ru-III to the 1,3-dithiole ring of the L ligand. Observation of diffusion-limited reductive quenching of the [Ru(bpz)(3)](2+)* (bpz is 2,2-bipyrazine) excited state by the L ligands in solution supported the occurrence of intramolecular hole transfer following electron injection by the TiO2-anchored complexes.
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6.
  • Abrahamsson, Maria, et al. (författare)
  • Steric influence on the excited-state lifetimes of ruthenium complexes with bipyridyl-alkanylene-pyridyl ligands.
  • 2008
  • Ingår i: Inorganic Chemistry. - ACS. - 0020-1669 .- 1520-510X. ; 47:9, s. 3540-3548
  • Tidskriftsartikel (refereegranskat)abstract
    • The structural effect on the metal-to-ligand charge transfer (MLCT) excited-state lifetime has been investigated in bis-tridentate Ru(II)-polypyridyl complexes based on the terpyridine-like ligands [6-(2,2'-bipyridyl)](2-pyridyl)methane (1) and 2-[6-(2,2'-bipyridyl)]-2-(2-pyridyl)propane (2). A homoleptic ([Ru(2)(2)](2+)) and a heteroleptic complex ([Ru(ttpy)(2)](2+)) based on the new ligand 2 have been prepared and their photophysical and structural properties studied experimentally and theoretically and compared to the results for the previously reported [Ru(1)(2)](2+). The excited-state lifetime of the homoleptic Ru-II complex with the isopropylene-bridged ligand 2 was found to be 50 times shorter than that of the corresponding homoleptic Ru-II complex of ligand 1, containing a methylene bridge. A comparison of the ground-state geometries of the two homoleptic complexes shows that steric interactions involving the isopropylene bridges make the coordination to the central Ru-II ion less octahedral in [Ru(2)(2)](2+) than in [Ru(1)(2))(2+). Calculations indicate that the structural differences in these complexes influence their ligand field splittings as well as the relative stabilities of the triplet metal-to-ligand charge transfer ((MLCT)-M-3) and metal-centered ((MC)-M-3) excited states. The large difference in measured excited-state lifetimes for the two homoleptic Ru-II complexes is attributed to a strong influence of steric interactions on the ligand field strength, which in turn affects the activation barriers for thermal conversion from (MLCT)-M-3 states to short-lived (MC)-M-3 states.
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7.
  • Adell, Martin, et al. (författare)
  • Postgrowth annealing of (Ga,Mn) As under As capping: An alternative way to increase T-C
  • 2005
  • Ingår i: Applied Physics Letters. - AIP Publishing LLC. - 0003-6951. ; 86:11
  • Tidskriftsartikel (refereegranskat)abstract
    • In situ postgrowth annealing of (Ga,Mn)As layers under As capping is adequate for achieving high Curie temperatures (T-C) in a similar way as ex situ annealing in air or in N-2 atmosphere practiced earlier. Thus, the first efforts give an increase of T-C from 68 to 145 K after 2 h annealing at 180 degrees C. These data, in combination with lattice parameter determinations and photoemission results, show that the As capping acts as an efficient sink for diffusing Mn interstitials.
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8.
  • Agren, Rasmus, et al. (författare)
  • Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling
  • 2014
  • Ingår i: Molecular Systems Biology. - 1744-4292. ; 10:3
  • Tidskriftsartikel (refereegranskat)abstract
    • Synopsis Personalized GEMs for six hepatocellular carcinoma patients are reconstructed using proteomics data and a task-driven model reconstruction algorithm. These GEMs are used to predict antimetabolites preventing tumor growth in all patients or in individual patients. The presence of proteins encoded by 15,841 genes in tumors from 27 HCC patients is evaluated by immunohistochemistry. Personalized GEMs for six HCC patients and GEMs for 83 healthy cell types are reconstructed based on HMR 2.0 and the tINIT algorithm for task-driven model reconstruction. 101 antimetabolites are predicted to inhibit tumor growth in all patients. Antimetabolite toxicity is tested using the 83 cell type-specific GEMs. Genome-scale metabolic models (GEMs) have proven useful as scaffolds for the integration of omics data for understanding the genotype-phenotype relationship in a mechanistic manner. Here, we evaluated the presence/absence of proteins encoded by 15,841 genes in 27 hepatocellular carcinoma (HCC) patients using immunohistochemistry. We used this information to reconstruct personalized GEMs for six HCC patients based on the proteomics data, HMR 2.0, and a task-driven model reconstruction algorithm (tINIT). The personalized GEMs were employed to identify anticancer drugs using the concept of antimetabolites; i.e., drugs that are structural analogs to metabolites. The toxicity of each antimetabolite was predicted by assessing the in silico functionality of 83 healthy cell type-specific GEMs, which were also reconstructed with the tINIT algorithm. We predicted 101 antimetabolites that could be effective in preventing tumor growth in all HCC patients, and 46 antimetabolites which were specific to individual patients. Twenty-two of the 101 predicted antimetabolites have already been used in different cancer treatment strategies, while the remaining antimetabolites represent new potential drugs. Finally, one of the identified targets was validated experimentally, and it was confirmed to attenuate growth of the HepG2 cell line.
9.
  • Ahlberg, D., et al. (författare)
  • Gilbert's Disc Model With Geostatistical Marking
  • 2018
  • Ingår i: Advances in Applied Probability. - 0001-8678. ; 50:4, s. 1075-1094
  • Tidskriftsartikel (refereegranskat)abstract
    • We study a variant of Gilbert's disc model, in which discs are positioned at the points of a Poisson process in R-2 with radii determined by an underlying stationary and ergodic random field phi: R-2 -> [0, infinity), independent of the Poisson process. This setting, in which the random field is independent of the point process, is often referred to as geostatistical marking. We examine how typical properties of interest in stochastic geometry and percolation theory, such as coverage probabilities and the existence of long-range connections, differ between Gilbert's model with radii given by some random field and Gilbert's model with radii assigned independently, but with the same marginal distribution. Among our main observations we find that complete coverage of R(2 )does not necessarily happen simultaneously, and that the spatial dependence induced by the random field may both increase as well as decrease the critical threshold for percolation.
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10.
  • Ahlberg, Daniel, 1982-, et al. (författare)
  • Scaling limits for the threshold window : When does a monotone Boolean function flip its outcome?
  • 2017
  • Ingår i: Annales de l'I.H.P. Probabilites et statistiques. - 0246-0203 .- 1778-7017. ; 53:4, s. 2135-2161
  • Tidskriftsartikel (refereegranskat)abstract
    • Consider a monotone Boolean function f : {0, 1}(n) -> {0, 1} and the canonical monotone coupling {eta(p) : p is an element of [0, 1]} of an element in {0, 1}(n) chosen according to product measure with intensity p is an element of [0, 1]. The random point p is an element of [0, 1] where f (eta(p)) flips from 0 to 1 is often concentrated near a particular point, thus exhibiting a threshold phenomenon. For a sequence of such Boolean functions, we peer closely into this threshold window and consider, for large n, the limiting distribution (properly normalized to be nondegenerate) of this random point where the Boolean function switches from being 0 to 1. We determine this distribution for a number of the Boolean functions which are typically studied and pay particular attention to the functions corresponding to iterated majority and percolation crossings. It turns out that these limiting distributions have quite varying behavior. In fact, we show that any nondegenerate probability measure on R arises in this way for some sequence of Boolean functions.
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