Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7148
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Article Citation - WoS: 1On-Site Measurements of Temperature and Humidity Conditions for the Comparison of Urban and Rural Sub-Spaces of Traditional Settlements: Historical City of Mugla, Turkey(Taylor & Francis, 2023) Timur, Barış Ali; Başaran, Tahsin; İpekoğlu, BaşakOne of the significant processes that ensures realistic determination of the energy needs of historical buildings is case-specific definition of their local microclimatic conditions. Accordingly, the aim of this study is to determine differences for the parameters of temperature and humidity in urban and rural sub-settlements of the historical city, Mugla/Turkey. Study method consists of on-site measurements of these variables in sub-settlements for comparisons. As a result, it was identified urban zone shows heat island characteristics with warmer, drier, and more stable conditions; while rural sub-settlement remains cooler, more humid, and more erratic. In parallel, calculated extents of these differences demonstrate the significance and necessity of on-site measurements and consequential microclimatic zoning of historical cities as conservation/planning tools for responding to the thermal needs of architectural heritage. A key application of these processes would be the establishment of local databases of case-specific weather data to be used in thermal simulation assessments.Article Citation - WoS: 16Citation - Scopus: 19Comparative Analysis of Estimation of Slope-Length Gradient (ls) Factor for Entire Afghanistan(Taylor & Francis, 2023) Ansari, Ahmad; Tayfur, GökmenSlope length gradient (LS) is one of the crucial factors in the Universal Soil Loss Equations (USLE, RUSLE). This study aimed at estimating the slope-length and slope-steepness (LS) factor for the entire watersheds of Afghanistan by using three different methods, namely; (1) LS-TOOLMFD (Method 1); (2) The Method of Equations (Method 2); and (3) The approach of Moore and Burch (Method 3). The first method uses the digital elevation model (DEM) in the ASCII format, and the other two methods use the DEM in the spatial domain. The results show that the LS-factor of the study area ranges from 0.01 to 44.31, with a mean of 5.24 and standard deviation of 6.95, according to Method 1; 0.03 to 163.49, with a mean of 9.6 and standard deviation of 13.58, according to Method 2; and 0 to 3985, with a mean of 7.16 and standard deviation of 29.7, according to Method 3. The study reveals that Methods 1 and 2 are more appropriate than Method 3 because Method 3 yields high LS-factor values close to or at streamlines located near mountainous regions. The highest LS values are found to be in the northeast, north, and central regions of Afghanistan, which is consistent with the high mountains and deep valley geomorphology, indicating that these regions are particularly vulnerable to soil erosion by rainfall-runoff processes. The sediment delivery ratio (SDR) for the Upper-Helmand River Basin (Upper-HRB) is also estimated by the RUSLE, employing the LS factors produced by the three methods. The results revealed that the average annual soil loss is found to be, respectively, 9.3, 18.2, and 11.1 (ton/ha/year) by using the three methods, corresponding to SDR of 23.5%, 12.1%, and 19.9%.Article Citation - WoS: 5Citation - Scopus: 5Stabilization of Calcareous Subgrade Soils With Polyelectrolytes: Mechanisms and Mechanical Properties(Taylor & Francis, 2023) Huang, Jianxin; Kogbara, Reginald; Mohomad, Yosef; Kogbara, Reginald B.; Masad, Eyad; Sukhishvili, Svetlana; Little, DallasOrganic polyelectrolytes, i.e. anionic poly(sodium 4-styrenesulphonate) (PSS), cationic poly(diallyldimethylammonium chloride) (PDADMAC) and their polyelectrolyte complexes (PECs) were evaluated for stabilisation of calcareous sandy subgrade soil. This paper investigated the effects of polymer type, surface charge type of PEC, concentrations of PEC solutions and dosages of polymer solutions added to the soil on improvement of soil mechanical properties. We found that anionic polymers, for both PECs and individual polyelectrolytes, were superior to their cationic counterparts in improving soil strength. Besides, the constituent polyelectrolytes, PSS and PDADMAC, worked better than their PECs for the specific soil investigated. The strength of polymer-treated soils was also found to increase with the increase in dosages of the polymer solutions as well as curing periods. Furthermore, polymer-treated soil specimens exhibited significant toughness improvement, which was higher than cement-treated samples. Scanning electron microscopy images revealed the abundance of long palygorskite fibres covering the surfaces of larger calcite and dolomite particles and linking surrounding aggregates after adding polymers. This observation suggests the interconnection of palygorskite fibres and their linking networks between and among coarse aggregates as the likely mechanism of polymer stabilisation of the soil studied.Article Citation - WoS: 11Citation - Scopus: 10Redefining methods for augmenting lactic acid bacteria robustness and phenyllactic acid biocatalysis: Integration valorizes simplicity(Taylor & Francis, 2022) Meruvu, HarithaThe production of phenyllactic acid (PLA) has been reported by several researchers, but so far, no mention has been made of augmented PLA production using an orchestrated assembly of simple techniques integrated to improve lactic acid bacteria (LAB) metabolism for the same. This review summarizes sequentially tailoring LAB growth and metabolism for augmented PLA catalysis through several strategies like monitoring LAB sustenance by choosing appropriate starter PLA-producing LAB strains isolated from natural environments, with desirably fastidious growth rates, properties like acidification, proteolysis, bacteriophage-resistance, aromatic/texturing-features, etc.; entrapping chosen LAB strains in novel cryogels and/or co-cultivating two/more LAB strains to improve their biotransformation potential and promote growth dependency/sustainability; adopting adaptive evolution methods designed to improve LAB strains under selection pressure inducing desired phenotypes tolerant to stress factors like heat, salt, acid, and solvent; monitoring physico-chemical LAB fermentation factors like temperature, pH, dissolved oxygen content, enzymes, and cofactors for PLA biosynthesis; and modulating purification/downstream processes to extract substantial PLA yields. This review paper serves as a comprehensive preliminary guide that can evoke a strategic experimental plan to produce industrial-scale PLA yields using simple techniques orchestrated together in the pursuit of conserving time, effort, and resources.Article Citation - WoS: 30Citation - Scopus: 33Targeting the Panoptosome With 3,4-Methylenedioxy Reduces Panoptosis and Protects the Kidney Against Renal Ischemia-Reperfusion Injury(Taylor & Francis, 2022) Uysal, Erdal; Dokur, Mehmet; Küçükdurmaz, Faruk; Altınay, Serdar; Polat, Sait; Batçıoğlu, Kadir; Sezgin, EfeObjectıves: The objectives of this study were a) to investigate the effect of targeting the PANoptosome with 3,4-methylenedioxy-β-nitrostyrene (MNS) on PANoptosis in the Renal ischemia-reperfussion (RIR) model b) to investigate the kidney protective effect of MNS toward RIR injury. Methods: Thirty-two rats were divided into four groups randomly. The groups were assigned as Control, Sham, DMSO (dimethyl sulfoxide) and MNS groups. The rats in the MNS group were intraperitoneally given 20 mg/kg of MNS 30 minutes before reperfusion. 2% DMSO solvent that dissolves MNS were given to the rats in DMSO group. Left nephrectomy was performed on the rats under anesthesia at the 6th hour after reperfusion. Glutathione peroxidase (GPx), malondialdehyde (MDA), catalase (CAT), superoxide dismutase (SOD) and 8-Okso-2′-deoksiguanozin (8-OHdG) levels were measured. Immunohistochemical analysis, electron microscopic and histological examinations were carried out in the tissues. Results: Total tubular injury score was lower in the MNS group (p < 0.001). Caspase-3, Gasdermin D and MLK (Mixed Lineage Kinase Domain Like Pseudokinase) expressions were considerably decreased in the MNS group (p < 0.001). Apoptotic index (AI) was found to be low in the MNS group (p < 0.001). CAT and SOD levels were higher in the MNS Group (p = 0.006, p = 0.0004, respectively). GPx, MDA, and 8-OH-dG levels were similar (p > 0.05) in all groups. MNS considerably improved the tissue structure, based on the electron microscopic analysis. Conclusıons: Our results suggested that MNS administrated before the reperfusion reduces pyroptosis, apoptosis and necroptosis. These findings suggest that MNS significantly protects the kidney against RIR injury by reducing PANoptosis as a result of specific inhibition of Nod-like receptor pyrin domain-containing 3 (NLRP 3), one of the PANoptosome proteins.Article Citation - WoS: 7Citation - Scopus: 6An Intervention Framework for Developing Interactive Video Lectures Based on Video Clickstream Behavior: a Quasi-Experimental Evaluation(Taylor & Francis, 2022) Yürüm, Ozan Raşit; Yıldırım, Soner; Taşkaya Temizel, TuğbaThe purpose of this study is to develop an intervention framework based on video clickstream interactions for delivering superior user experience for video lectures. Apart from existing studies on data-driven interventions, this study focuses on video clickstream interactions to identify timely interventions for creating interactive video lectures. First, a framework was developed through an exploratory experiment, in which 29 students’ clickstream behaviors were tracked on an online platform and then individual interviews were held with 17 of the students and a subject-matter expert. The framework shows how click types are transformed into interactive elements with five question types (where, why, which, how, what). It includes click types, click reasons, interventions, actions, and interactive elements. Then, a quasi-experimental study was performed with 18 students to investigate the effect of the proposed framework on the students’ satisfaction and engagement. The results showed that students’ satisfaction significantly increased for interactive videos created using the proposed framework when motivation was controlled. In addition, students’ frequency to go back to important points decreased significantly in interactive videos, whilst students’ frequency to skip unimportant points increased significantly in interactive videos. In conclusion, the proposed framework can be used to transform linear videos to interactive videos.Article Citation - WoS: 11Citation - Scopus: 13A Systematic Assessment of Flooding Potential in a Semi-Arid Watershed Using Grace Gravity Estimates and Large-Scale Hydrological Modeling(Taylor & Francis, 2022) Khorrami, Behnam; Fıstıkoğlu, Okan; Gündüz, OrhanThe emergence of the Gravity Recovery And Climate Experiment (GRACE) paved the way for remote tracking of hydrological water cycle components at large scales. With the main motivation of evaluating the feasibility of the coarse resolution GRACE data for small-scale analysis, the GRACE data and large-scale hydrological models were utilized in an integrated manner to monitor the variations of the flood potential index (FPI) over the Western Anatolian Basin (WAB). The results show an ascending trend for monthly and annual FPI over the WAB. The results also suggest that the monthly FPI in 2015, 2003, 2009, and 2016 was the highest, from which the highest potentiality of flood appertains to 2015/07 with an FPI of 0.92. The lowest and highest annual FPI is 0.26 (in 2007) and 0.76 (in 2015), respectively. The validation of the results indicates that variations of FPI coincide with that of the flood incidents, stream discharge, Standardized Precipitation Index (SPI), and the simulated flood risk. The findings accentuate the high feasibility of the GRACE JPL Mascons for better surveillance of floods over local scale areas. Highlights The coarse resolution GRACE JPL mascon functions very well in tracing the spatio-temporal characteristics of flood incidents over local scales. There is an ascending trend in the variations of flood potential over the Western Anatolia Basin (WAB). The WAB has experienced its lowest and highest possibility of flooding in 2007 and 2015 with an average FPI of 0.26 and 0.76, respectively. The variations of the flood potential index (FPI) coincides with that of the reported flood incidents, stream discharge, Standardized Precipitation Index (SPI), and the simulated flood risk.Article Citation - WoS: 36Citation - Scopus: 38Detection and Analysis of Drought Over Turkey With Remote Sensing and Model-Based Drought Indices(Taylor & Francis, 2022) Khorrami, Behnam; Gündüz, OrhanUnder the severe impacts of climate change, drought has become one of the most undesirable and complex natural phenomena with critical consequences for the environment, economy and society. The orthodox drought monitoring approaches use observations of meteorological stations, which are typically restricted in time and space. Remote sensing, conversely, provides continuous global coverage of a variety of hydro-meteorological variables that are influential in drought, and data extracted from remote sensing and modeling missions are now considered more practical and alluring for researchers. In this study, we applied a combination of field data, remotely sensed data and modeled data to detect and quantitatively analyze drought phenomena. To achieve this objective, we utilized Terrestrial Water Storage Anomalies (TWSA) estimations from GRACE mission, Normalized Difference Vegetation Index (NDVI) from MODIS mission, Surface Runoff (R) and Evapotranspiration from ERA5 reanalysis datasets and Soil Moisture (SM) from GLDAS data model to evaluate their feasibility in detecting recent droughts over Turkey. We validated the accuracy of several remote sensing-based indices (GRACE Drought Severity Index, Water Storage Deficit Index [WSDI], Soil Moisture Index, Standardized Runoff Index and NDVI) with the traditional indices (SPI and SPEI) calculated from in situ observations of precipitation. The results revealed that the GRACE-based WSDI gave the best performance with high correlations with the SPI index both temporally and spatially over Turkey. We also found that monthly and annual time series of WSDI agreed well with the SPI index with correlations of 0.69 and 0.73, respectively. The results of drought analysis also indicated that WSDI could be used as a proxy to standard meteorological drought indices over Turkey as it performed well to detect and characterize the recent droughts of Turkey based on its comparisons to SPI results.Article Citation - WoS: 69Citation - Scopus: 73Nanoparticle-Protein Corona Complex: Understanding Multiple Interactions Between Environmental Factors, Corona Formation, and Biological Activity(Taylor & Francis, 2021) Öksel Karakuş, Ceyda; Tomak, Aysel; Çeşmeli, Selin; Hanoğlu, Berçem Dilan; Winkler, DavidThe surfaces of pristine nanoparticles become rapidly coated by proteins in biological fluids, forming the so-called protein corona. The corona modifies key physicochemical characteristics of nanoparticle surfaces that modulate its biological and pharmacokinetic activity, biodistribution, and safety. In the two decades since the protein corona was identified, the importance of nano particles surface properties in regulating biological responses have been recognized. However, there is still a lack of clarity about the relationships between physiological conditions and cor ona composition over time, and how this controls biological activities/interactions. Here we review recent progress in characterizing the structure and composition of protein corona as a function of biological fluid and time. We summarize the influence of nanoparticle characteristics on protein corona composition and discuss the relevance of protein corona to the biological activity and fate of nanoparticles. The aim is to provide a critical summary of the key factors that affect protein corona formation (e.g. characteristics of nanoparticles and biological environ ment) and how the corona modulates biological activity, cellular uptake, biodistribution, and drug delivery. In addition to a discussion on the importance of the characterization of protein corona adsorbed on nanoparticle surfaces under conditions that mimic relevant physiological environment, we discuss the unresolved technical issues related to the characterization of nano particle-protein corona complexes during their journey in the body. Lastly, the paper offers a perspective on how the existing nanomaterial toxicity data obtained from in vitro studies should be reconsidered in the light of the presence of a protein corona, and how recent advances in fields, such as proteomics and machine learning can be integrated into the quantitative analysis of protein corona components.Article Citation - WoS: 35Citation - Scopus: 42Lactic Acid Bacteria: Isolation–characterization Approaches and Industrial Applications(Taylor & Francis, 2022) Meruvu, Haritha; Tellioğlu Harsa, ŞebnemThe current state-of-art research pertaining to lactic acid bacteria (LAB) calls for the screening and isolation of robust LAB strains to achieve holistic exploitation of LAB and their metabolites of marketable importance. Hence it is imperative to comprehend LAB sources, growth requisites, isolation and characterization strategies necessary for featured cataloging and appropriate culturing. This review comprehensively describes various growth media and biomasses used for supporting LAB sustenance, assay procedures needed for the isolation and characterization of LAB strains, and their application in diverse sectors. The various industrial patents and their summarized claims about novel LAB strains isolated and identified, methods and media (used for detection/screening, isolation, adaptation, culturing, preservation, growth improvement), the techniques and/or methodologies supporting LAB fermentation, and applications of produced industrial metabolites in various market scenarios are detailed