Yarkın Aybars Çetin

Mr. Yarkın Aybars Çetin

Rovira i Virgili University, Tarragona, Catalonia, Spain
orcid

Research Focus & Metrics

Academic Career Length

5Years (2022-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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22 March 2022 in Journal of Fungi
Verified
Journal Article
Open access
PDF file
Esam Hamid HummadiEsam Hamid Hummadi
Esam Hamid Hummadi
Yarkın Aybars ÇetinYarkın Aybars Çetin
Yarkın Aybars Çetin
Merve Gözdenur DemirbekMerve Gözdenur Demirbek
Merve Gözdenur Demirbek
NKNadeems M. Kardar
Nadeems M. Kardar
SKShazia Khan
Shazia Khan
TBTariq Butt
Tariq Butt
Fungal volatile organic compounds (VOCs) represent promising candidates for biopesticide fumigants to control crop pests and pathogens. Herein, VOCs produced using three strains of the entomopathogenic fungus Metarhizium brunneum were identified via GC-MS and screened for antimicrobial activity. The VOC profiles varied with fungal strain, development state (mycelium, spores) and culture conditions. Selected VOCs were screened against a range of rhizosphere and non-rhizosphere microbes, including three Gram-negative bacteria (Escherichia coli, Pantoea agglomerans, Pseudomonas aeruginosa), five Gram-positive bacteria (Micrococcus luteus, Staphylococcus aureus, Bacillus subtilis, B. megaterium, B. thuringiensis), two yeasts (Candida albicans, Candida glabrata) and three plant pathogenic fungi (Pythium ultimum, Botrytis cinerea, Fusarium graminearum). Microbes differed in their sensitivity to the test compounds, with 1-octen-3-ol and isovaleric acid showing broad-spectrum antimicrobial activity. Yeasts and bacteria were inhibited by the same VOCs. Cryo-SEM showed that both yeasts and bacteria underwent some form of “autolysis”, where all components of the cell, including the cell wall, disintegrated with little evidence of their presence in the clear, inhibition zone. The oomycete (P. ultimum) and ascomycete fungi (F. graminearum, B. cinerea) were sensitive to a wider range of VOCs than the bacteria, suggesting that eukaryotic microbes are the main competitors to M. brunneum in the rhizosphere. The ability to alter the VOC profile in response to nutritional cues may assist M. brunneum to survive among the roots of a wide range of plant species. Our VOC studies provided new insights as to how M. brunneum may protect plants from pathogenic microbes and correspondingly promote healthy growth.

13 June 2022 in Journal of Physics: Condensed Matter
Verified
Journal Article
Closed access
Yarkın Aybars ÇetinYarkın Aybars Çetin
Yarkın Aybars Çetin
BMBenjamí Martorell Masip
Benjamí Martorell Masip
FSFrancesc Serratosa
Francesc Serratosa
NANeus Aguilera-Porta
Neus Aguilera-Porta
MCMonica Calatayud
Monica Calatayud
Titanium dioxide is a key material in many fields, including technological, industrial and biomedical applications. Many of these applications are related to the surface reactivity of TiO2 and involve its reducibility properties. Recently titania has been banned as a food additive due to its (nano)toxicity, and the release of reactive oxygen species plays a crucial role in many toxicological mechanisms. Determining chemical descriptors that account for the extension of reduction is necessary to understand such processes and necessary for predicting the reactivity of an unknown system. In the present work, we compute a set of chemical descriptors for selected surfaces of anatase and rutile TiO2. The aim is twofold: we want to provide chemically meaningful information on the surface reactivity, and benchmark the descriptors for two ab initio schemes. To do so, we compute the oxygen vacancy formation energy, and the corresponding electronic structure, in four slab models with two different computational schemes (DFT+U and DFTB). In this way, we characterize the robustness of the dataset, with the purpose of scaling up to more realistic model systems such as nanoparticles or explicit solvent, which are too computationally demanding for state-of-the-art density functional theory approaches.

5 September 2024 in ACS Omega
Verified
Journal Article
Open access
Yarkın Aybars ÇetinYarkın Aybars Çetin
Yarkın Aybars Çetin
BMBenjamí Martorell Masip
Benjamí Martorell Masip
FSFrancesc Serratosa
Francesc Serratosa
MCMonica Calatayud
Monica Calatayud
Metal oxides (MOs) are key materials in many fields, including technological, industrial, and biomedical applications. In most of these implementations, surface reactivity and reducibility properties are critical considerations. In their nanosized form, MOs exhibit enhanced reactivity that is connected to toxicity. Besides the fact that the biological molecule and the surface of the corresponding material interact chemically, little is known about the toxicological mechanisms involved on the atomic scale. The goal of this study is to investigate the role of TiO2 surfaces in interaction with one genetic base, namely guanine. Using a combination of the quasi-electronic density functional-tight binding molecular dynamics simulations and density functional theory calculations, we explored the adsorption modes of guanine with a stoichiometric and oxygen-deficient anatase TiO2 (101) surface. With such an approach, we have characterized new adsorption modes not previously found, and we have highlighted the relevance of defective surfaces in the adsorption of genetic basis, as a model for explaining possible toxicology mechanisms induced by the adsorption process.

2 February 2025 in ACS Omega
Verified
Journal Article
Open access
Yarkın Aybars ÇetinYarkın Aybars Çetin
Yarkın Aybars Çetin
LMLaura Escorihuela Martí
Laura Escorihuela Martí
BMBenjamí Martorell Masip
Benjamí Martorell Masip
FSFrancesc Serratosa
Francesc Serratosa
Metal oxides (MOs) are the key materials in applications of biomedicine industrial technologies due to their versatile features. Knowing their possible toxicity level is crucial given some specific environments, particularly in water. We have learned that their reactivity almost depends on the electronic structure on the surface of the MOs. Thus, a detailed understanding of the electronic structure on the surface and its reactivity processes is useful for determining the toxicity in MOs and defining good descriptive parameters. We simulated the interaction of ZnO and TiO2 slab models with water and checked their geometric and electronic structure changes from the bulk of the material to the water interface. To this end, we used the density functional tight binding theory coupled with finite temperature molecular dynamics. We have observed the interaction of water with the MO surface in terms of electronic and geometric parameters for several conditions, such as temperature, hydrogenated or clean, and exposed surface. In doing so, we provide molecular-level insights into topographical and electronic processes on MO surfaces besides finding critical points on the surface that can explain the initialization of dissolution processes. Thus, we reveal information about potential toxicity descriptors in a systematic analysis approach.