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1.
2.
Operando (micro) XAFS analysis
Katarina Vogel-Mikuš, Robert Dominko, Iztok Arčon, 2016, published scientific conference contribution abstract (invited lecture)

Abstract: In the talk the principles of XAS methods were presented with practical examples which illustrate the possibilities and advanced approaches for their use in structural analysis of different types of materials. The emphasis will be on to the use of XAS spectroscopy in operando mode and in combination with X-ray microscopy.
Found in: osebi
Keywords: X-ray absorption spectroscopy, X-ray microscopy, EXAFS, XANES, opearndo mode
Published: 25.03.2016; Views: 2311; Downloads: 34
.pdf Fulltext (18,40 MB)

3.
XAS and micro-XRF analysis of mono and bi-metallic exopolysaccharide (FePd-EPS) bio-generated by K. oxytoca
Franco Baldi, Katarina Vogel-Mikuš, Michele Gallo, Oreste Piccolo, Stefano Paganelli, Iztok Arčon, 2016, published scientific conference contribution abstract

Abstract: Bacteria Klebsiella oxytoca (DSM 29614) secret a specific exopolysaccharide (EPS) in the presence of Fe(III)-citrate, as sole carbon and energy source, and produces after 7 days an iron gel precipitate (Fe-EPS) [1]. In the presence of palladium or other metal species, the culture of K. oxytoca can produce other mono or bimetal species (Pd-EPS, FePd-EPS) [2]. These bio-materials may be used as green biogenerated catalysts or for other biotechnological purposes. In this work we present the analysis of the morphology and the chemical state of the metals in mono and bi-metallic (Fe-EPS, Pd-EPS, FePd-EPS) complexes, by a combination of micro X-ray fluorescence, X-ray absorption spectroscopy methods (XANES and EXAFS), and transmission electron microscopy. The results show that iron in monometallic Fe-EPS and bimetalic FePd-EPS is in the mineralized form of iron oxides/hydroxides, predominantly in the form of Fe3+, with a small amount of Fe2+ in the structure, as a mixture of different nano-crystalline iron oxides and hydroxides. Palladium on the other hand is found as Pd(0) in the form of metallic nanoparticles with fcc structure in both, bi-metallic (FePd-EPS) and mono-metallic (Pd-EPS) species. In bi-metallic species Pd and Fe nanoparticles agglomerate in larger clusters, but they remain spatially separated. Access to the SR facilities at ESRF (beamline ID21, project LS-2225), DESY (beamline C) Hamburg (project I-20110511 EC) and ELETTRA (beamline XAFS, project 20115112) is acknowledged.
Found in: osebi
Keywords: Klebsiella oxytoca, Fe, Pd, XANES, EXAFS, exopolysaccharide, FePd-EPS
Published: 28.06.2016; Views: 2443; Downloads: 0
.pdf Fulltext (388,27 KB)

4.
Biotransformation of copper oxide nanoparticles by the pathogenic fungus Botrytis cinerea
Katarina Vogel-Mikuš, Darko Makovec, Tamás Papp, Iztok Arčon, Johannes Teun van Elteren, Marjana Regvar, Eva Kovačec, 2017, original scientific article

Abstract: Two plant pathogenic fungi, Botrytis cinerea and Alternaria alternata, isolated from crop plants, were exposed to Cu in ionic (Cu2þ), microparticulate (MP, CuO) or nanoparticulate (NP, Cu or CuO) form, in solid and liquid culturing media in order to test fungal response and toxic effects of the mentioned compounds for the potential use as fungicides. B. cinerea has shown pronounced growth and lower levels of lipid peroxidation compared to A. alternata. Its higher resistance/tolerance is attributed mainly to biotransformation of CuO and Cu NPs and CuO MPs into a blue compound at the fungal/culturing media interface, recognized by Cu K-edge EXAFS analysis as Cu-oxalate complex. The pronounced activity of catechol-type siderophores and organic acid secretion in B. cinerea induce leaching and mobilization of Cu ions from the particles and their further complexation with extracellularly secreted oxalic acid. The ability of pathogenic fungus to biotransform CuO MPs and NPs hampers their use as fungicides. However the results show that B. cinerea has a potential to be used in degradation of Cu(O) nanoparticles in environment, copper extraction and purification techniques.
Found in: osebi
Keywords: copper, metal oxide nanoparticles, detoxification mechanisms, metal pollution, Cu-oxalate
Published: 23.08.2017; Views: 1171; Downloads: 0
.pdf Fulltext (1,52 MB)

5.
Arbuscular mycorrhizal fungi alter Hg root uptake and ligand environment as studied by X-ray absorption fine structure
Alojz Kodre, Iztok Arčon, Marta Debeljak, Mateja Potisek, Matevž Likar, Katarina Vogel-Mikuš, 2017, original scientific article

Abstract: Mercury (Hg) – plant – fungal interactions are only poorly studied. Hg speciation and ligand environment in maize roots inoculated with arbuscular mycorrhizal (AM) fungi were investigated in order to better understand the role of AM in Hg soil to root transfer. The maize plants were grown in Hg polluted substrate (50 mg g1 as dissolved HgCl2) and inoculated with AM fungi originating from: a) highly Hg polluted environment of a former Hg smelting site in Idrija, Slovenia, (Glomus sp. – sample AmI), and b) non-polluted environment (commercial AM inoculum Symbivit1 – sample AmC). Hg speciation and ligand environment in maize roots was studied by Hg-L3 XANES and EXAFS with emphasis on XAS methodology – modelling and fitting the XAFS spectra to extract in a reliable way as much information on Hg coordination as possible. The AmI plants developed more arbuscules and less vesicles than the AmC plants, and also accumulated more Hg in the roots. A clear difference in Hg coordination between the AM (AmC & AmI) and the control (ConC & ConI) plants is recognized in Hg L3-edge EXAFS analysis: in the ConC & ConI maize roots 73–80% of Hg is attached between two sulphur atoms at the distance of 2.34 Å. The remaining ligand is nitrogen at 2.04 Å. In AmI & AmC roots another Hg-S attachment encompassing four thiol groups at the S-distance of 2.50 Å are identified, accounting for 21–26%. AM fungi can modify Hg ligand environment in plant roots, thus playing an important role in biogeochemical cycling of Hg in terrestrial ecosystems.
Found in: osebi
Keywords: EXAFS XANES Arbuscular mycorrhiza Phytoremediation Toxicity Hg coordination Ligand environment
Published: 27.09.2016; Views: 2370; Downloads: 0
.pdf Fulltext (1,82 MB)

6.
Cadmium associates with oxalate in calcium oxalate crystals and competes with calcium for translocation to stems in the cadmium bioindicator Gomphrena claussenii
Paula Pongrac, Tania Serra, Hiram Castillo Michel, Katarina Vogel-Mikuš, Iztok Arčon, Mitja Klemen, Boštjan Jencic, Anja Kavčič, Mina T. Villafort Carvalho, Mark G. M. Aarts, 2018, original scientific article

Abstract: Cadmium (Cd) was shown to co-localise with calcium (Ca) in oxalate crystals in the stems and leaves of Cd tolerant Gomphrena claussenii, but Cd binding remained unresolved. Using synchrotron radiation X-ray absorption near edge spectroscopy we demonstrate that in oxalate crystals of hydroponically grown G. claussenii the vast majority of Cd is bound to oxygen ligands in oxalate crystals (488%; Cd–O–C coordination) and the remaining Cd is bound to sulphur ligands (Cd–S–C coordination). Cadmium binding to oxalate does not depend on the amount of Ca supplied or from which organs the crystals originate (stems and mature leaves). By contrast, roots contain no oxalate crystals and therein Cd is bound predominantly by S ligands. The potential to remove Cd by extraction of Cd-rich oxalate crystals from plant material should be tested in phytoextraction or phytomining strategies.
Found in: osebi
Keywords: Cd XANES, Cd oxalate, Gomphrena claussenii
Published: 06.09.2018; Views: 525; Downloads: 0
.pdf Fulltext (3,68 MB)

7.
X-ray spectrometry in plant biology
Primož Pelicon, Peter Kump, Anja Kavčič, Alojz Kodre, Iztok Arčon, Katarina Vogel-Mikuš, 2018, published scientific conference contribution abstract (invited lecture)

Abstract: Trace elements are essential components of living systems, but at the same time they can be toxic at concentrations beyond those necessary for their biological functions. In addition, the toxicity can be extended to other non-essential elements of very similar atomic characteristics that can mimic the properties of a trace element. Trace element malnutrition affects more than half of the world’s population, while on the other hand industrialization, traffic and extensive use of fertilizers have resulted in exceedingly high concentrations of non-essential elements in food crops, posing risks to human health. In order to be able to develop and improve phyto-technologies that enable production of safe and quality food, knowledge on the basic mechanisms involved in trace and non-essential element uptake, transport, accumulation and ligand environment in plants is needed. Such studies are nowadays supported by highly sophisticated X-ray based techniques, such as synchrotron based X-ray fluorescence spectrometry, proton induced X-ray emission and X-ray absorption spectroscopy, enabling imaging of element distribution and determination of speciation and ligand environment of trace elements in biological tissues and cells with high spatial resolution and sensitivity. Selected case studies of metal distribution and speciation in selected model and crop plants, achieved by interdisciplinary work, will be presented.
Found in: osebi
Keywords: X-ray spectrometry, plants, XANES, EXAFS
Published: 12.09.2018; Views: 606; Downloads: 0
.pdf Fulltext (62,44 KB)

8.
Ionomic and metabolomic changes in mercury and selenium exposed plants and animals by X - ray and FTIR spectrometry
Katarina Vogel-Mikuš, Iztok Arčon, Jože Grdadolnik, Petra Gregorič, Anja Kavčič, 2018, published scientific conference contribution abstract

Found in: osebi
Keywords: mercury, selenium, plants, animals
Published: 12.09.2018; Views: 639; Downloads: 0
.pdf Fulltext (62,45 KB)

9.
Nickel coordination in hyperaccumulator plants studied by XANES and EXAFS
Jana Padežnik Gomilšek, Katarina Vogel-Mikuš, Alojz Kodre, Iztok Arčon, 2018, published scientific conference contribution abstract

Found in: osebi
Keywords: nickel, hyperaccumulator plants
Published: 12.09.2018; Views: 470; Downloads: 0
.pdf Fulltext (64,89 KB)

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