IZTECH Research Centers Collection / İYTE Araştırma Merkezleri Koleksiyonu
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Article Citation - WoS: 4Citation - Scopus: 5Breakthrough Curve Analysis of Phosphorylated Hazelnut Shell Waste in Column Operation for Continuous Harvesting of Lithium From Water(Elsevier, 2024) Recepoğlu, Yaşar Kemal; Arar, Ozguer; Yuksel, AsliIn batch-scale operations, biosorption employing phosphorylated hazelnut shell waste (FHS) revealed excellent lithium removal and recovery efficiency. Scaling up and implementing packed bed column systems necessitates further design and performance optimization. Lithium biosorption via FHS was investigated utilizing a continuous-flow packed-bed column operated under various flow rates and bed heights to remove Li to ultra-low levels and recover it. The Li biosorption capacity of the FHS column was unaffected by the bed height, however, when the flow rate was increased, the capacity of the FHS column decreased. The breakthrough time, exhaustion time, and uptake capacity of the column bed increased with increasing column bed height, whereas they decreased with increasing influent flow rate. At flow rates of 0.25, 0.5, and 1.0 mL/min, bed volumes (BVs, mL solution/mL biosorbent) at the breakthrough point were found to be 477, 369, and 347, respectively, with the required BVs for total saturation point of 941, 911, and 829, while the total capacity was calculated as 22.29, 20.07, and 17.69 mg Li/g sorbent. In the 1.0, 1.5, and 2.0 cm height columns filled with FHS, the breakthrough times were 282, 366, and 433 min, respectively, whereas the periods required for saturation were 781, 897, and 1033 min. The three conventional breakthrough models of the Thomas, Yoon-Nelson, and Modified Dose-Response (MDR) were used to properly estimate the whole breakthrough behavior of the FHS column and the characteristic model parameters. Li's extremely favorable separation utilizing FHS was evidenced by the steep S-shape of the breakthrough curves for both parameters flow rate and bed height. The reusability of FHS was demonstrated by operating the packed bed column in multi-cycle mode, with no appreciable loss in column performance.Article Citation - WoS: 43Citation - Scopus: 61Current Status and Perspectives of Protease Inhibitors and Their Combination With Nanosized Drug Delivery Systems for Targeted Cancer Therapy(Dove Medical Press Ltd, 2021) Rudzinska, Magdalena; Dağlıoğlu, Cenk; Savvateeva, Lyudmila, V; Kaci, Fatma Necmiye; Antoine, Rodolphe; Zamyatnin, Andrey A., Jr.In cancer treatments, many natural and synthetic products have been examined; among them, protease inhibitors are promising candidates for anti-cancer agents. Since dysregulated proteolytic activities can contribute to tumor development and metastasis, antagonization of proteases with tailored inhibitors is an encouraging approach. Although adverse effects of early designs of these inhibitors disappeared after the introduction of next-generation agents, most of the proposed inhibitors did not pass the early stages of clinical trials due to their nonspecific toxicity and lack of pharmacological effects. Therefore, new applications that modulate proteases more specifically and serve their programmed way of administration are highly appreciated. In this context, nanosized drug delivery systems have attracted much attention because preliminary studies have demonstrated that the therapeutic capacity of inhibitors has been improved significantly with encapsulated formulation as compared to their free forms. Here, we address this issue and discuss the current application and future clinical prospects of this potential combination towards targeted protease-based cancer therapy.Article Citation - WoS: 32Citation - Scopus: 35Distribution of Geothermal Arsenic in Relation To Geothermal Play Types: a Global Review and Case Study From the Anatolian Plate (turkey)(Elsevier, 2021) Baba, Alper; Uzelli, Taygun; Sözbilir, HasanArsenic has a natural cycle as it travels underground. It can mix with geothermal fluid in different ways under the control of magmatic and tectonic processes. Geogenic arsenic is present in many geothermal fields in the world at concentrations above the limits set for human health. The arsenic content of geothermal fluids is also related to the concept of geothermal play type, which forms geothermal systems, because the natural processes that form the geothermal system also control the arsenic cycle. In this study, an attempt is made to explain the relationship between the geothermal play type concept and geothermal arsenic circulation. For this purpose, geothermal field examples are given from around the world and Turkey. The result shows that arsenic concentrations can reach significant levels along with plate tectonic boundaries in the world. When arsenic concentrations were evaluated, the effect of major faults on the Anatolian Plate was clearly seen. Also, in the Anatolian plate where volcanosedimentary units are common, geothermal fluids caused more effective alteration along with structural control and increased arsenic concentrations in geothermal systems. This interaction between structural elements, geothermal fluid, and the arsenic cycle shows that the concept of play type in geothermal systems should also be taken into consideration. It was determined that the places with high arsenic values are located within the convective-non-magmatic extensional geothermal play types such as Western Anatolian Extensional System and the North Anatolian Fault. The concept of play type in geothermal systems includes all systematic and external factors that make up these processes. For this reason, it is very important to evaluate the play type classification together with the arsenic cycle.Article Citation - WoS: 58Citation - Scopus: 59Assessment of Different Nanofiltration and Reverse Osmosis Membranes for Simultaneous Removal of Arsenic and Boron From Spent Geothermal Water(Elsevier, 2021) Jarma, Yakubu A.; Karaoğlu, Aslı; Tekin, Özge; Baba, Alper; Ökten, H.Eser; Tomaszewska, Barbara; Kabay, NalanOne of the factors that determine agricultural crops’ yield is the quality of water used during irrigation. In this study, we assessed the usability of spent geothermal water for agricultural irrigation after membrane treatment. Preliminary membrane tests were conducted on a laboratory-scale set up followed by mini-pilot scale tests in a geothermal heating center. In part I, three commercially available membranes (XLE BWRO, NF90, and Osmonics CK- NF) were tested using a cross-flow flat-sheet membrane testing unit (Sepa CF II, GE-Osmonics) under constant applied pressure of 20 bar. In part II, different spiral wound membranes (TR-NE90-NF, TR-BE-BW, and BW30) other than the ones used in laboratory tests were employed for the mini-pilot scale studies in a continuous mode. Water recovery and applied pressure were maintained constant at 60% and 12 bar, respectively. Performances of the membranes were assessed in terms of the permeate flux, boron and arsenic removals. In laboratory tests, the permeate fluxes were measured as 94.3, 87.9, and 64.3 L m?2 h?1 for XLE BWRO, CK-NF and NF90 membranes, respectively. The arsenic removals were found as 99.0%, 87.5% and 83.6% while the boron removals were 56.8%, 54.2%, and 26.1% for XLE BWRO, NF90 and CK-NF membranes, respectively. In field tests, permeate fluxes were 49.9, 26.8 and 24.0 L m?2 h?1 for TR-NE90-NF, BW30-RO and TR-BE-BW membranes, respectively. Boron removals were calculated as 49.9%, 44.1% and 40.7% for TR-BE-BW, TR-NE90-NF and BW30-RO membranes, respectively. Removal efficiencies of arsenic in mini-pilot scale membrane tests were all over 90%. Quality of the permeate water produced was suitable for irrigation in terms of the electrical conductivity (EC) and the total dissolved solids (TDS) for all tested membranes with respect to guidelines set by the Turkish Ministry of Environment and Urbanisation (TMEU). However, XLE BWRO, CK-NF and NF90 membranes failed to meet the required limits for irrigation in terms of boron and arsenic concentrations in the product water. The permeate streams of TR-BE-BW, TR-NE90-NF and BW30-RO membranes complied with the irrigation water standards in terms of EC, TDS and arsenic concentration while boron concentration remained above the allowable limit. © 2020 Elsevier B.V.Article Citation - WoS: 10Citation - Scopus: 9Bi̇yomalzemelerden İ̇zole Edi̇len Staphylococcus Epidermidis Suşlarinin Yüzey Özelli̇kleri̇ni̇n Beli̇rlenmesi̇(Ankara Mikrobiyoloji Derneği, 2010) Sudağıdan, Mert; Erdem, İlker; Çavuşoğlu, Cengiz; Çiftçioğlu, MuhsinThe surface properties of bacteria play an important role on adhesion to the biomaterial surface. In this study, the surface properties of Staphylococcus epidermidis strains isolated from clinically used polymeric biomaterial surfaces were investigated on the basis of zeta potential, hydrophobicity and surface topography. A total of 10 S.epidermidis strains isolated from intravenous catheters (n= 5), endotracheal tubes (n= 3) and central venous catheters (n= 2) which were used in the patients of pulmonary Intensive Care Unit, Ege University Medical Faculty Hospital, were included to the study. Seven of those isolates were biofilm producers, inhabiting biofilm genes, 2 were non-biofilm producers, however, inhabiting biofilm genes, and 1 was non-biofilm producer, inhabiting no biofilm genes. Zeta potential analysis have been performed in 3 different buffers (phosphate-buffered saline, 1 mM potassium chloride and 1 mM potassium phosphate buffer) and at different pH values (pH 4.1-8.2), in order to simulate in vivo environment of the biomaterials. Hydrophobicities of the strains were examined by bacterial adhesion to hydrocarbon (BATH) test and the surface topography of biofilms and slime layers were visualized by atomic force microscopy (AFM) and scanning electron microscopy (SEM) methods. It was found that all strains have negative zeta potential values (surface charge) in all buffers and pH values. In hydrophobicity analysis, the highest value (86%) was determined for non-biofilm forming S.epidermidis strain YT-169b (endotracheal tube isolate) and the lowest hydrophobicity (2.5%) was determined for biofilm forming S.epidermidis strain YT-212 (central venous catheter isolate). Biofilm and slime layers of the strains were imaginated by AFM and SEM analysis in ?m scale. SEM analysis showed that bacteria highly adhered to rough surfaces on biomaterial surfaces and the produced slime layers covered the surface of bacteria. In conclusion, elucidating the surface properties of opportunistic pathogens in different physiologic buffers will give important clues for the production of non-adhesive materials and antibacterial surfaces for those bacteria. It was also estimated that designing the surface of the biomaterial to have negative surface charge in the body and to be as smooth as possible will hamper biofilm formation.Article Citation - WoS: 19Citation - Scopus: 18Biyomalzeme Yüzeylerinden İzole Edilen Metisiline Dirençli Staphylococcus Aureus Suşlarında Virülans Genlerinin Araştırılması(Ankara Microbiology Society, 2008) Sudağıdan, Mert; Çavuşoğlu, Cengiz; Bacakoğlu, FezaStafilokoklar, biyomalzeme kaynaklı nozokomiyal enfeksiyonların en önemli etkenlerindendir. Bu çalışmada, Göğüs Hastalıkları Yoğun Bakım Ünitesi (YBÜ)'nde yatan 48 hastada kullanılan polimerik biyomalzeme yüzeylerinden izole edilen metisiline dirençli 11 Staphylococcus aureus suşunda virülans genlerinin varlığının saptanması ve bunların bazılarının fenotipik ifadelerinin araştırılması amaçlanmıştır. Çalışmamızda polimeraz zincir reaksiyonu (PCR) ile özgül primerler kullanılarak, bağlanma ve biyofilm oluşumundan sorumlu genler (icaA, icaC, bap), metisilin direnç geni (mecA), enterotoksin A-E üretiminden sorumlu genler (sea, seb, sec, sed, see), toksik şok sendromu toksini geni [tst), eksfoliatif toksin A ve B genleri (eta ve etb), alfa ve beta-hemolizin genleri (hla ve hlb), stafilokokal ekzotoksin benzeri protein-1 geni (sef1), proteaz genleri (sspA, sspB, aur, serine proteaz geni), lipaz geni (geh) ve regülatör genler (sarA ve agrCA) araştırılmıştır. Ayrıca suşların fenotipik olarak biyofilm oluşturma, antibiyotik duyarlılık, proteaz ve lipaz üretimi gibi özellikleri de değerlendirilmiştir. Biyofilm testlerinde, biyofilm yapan ve "slime" üreten suşlara rastlanmamış, ancak tüm suşların biyofilm yapımında rol oynayan icaA genine sahip olduğu bulunmuştur. Bununla birlikte biyofilm yapımında rol oynayan icaC ve bap genleri tespit edilememiştir. Tüm suşlarda mecA geninin varlığı saptanmış ve suşların hepsinin oksasilin, penisilin G ve gentamisine; 10'unun eritromisine ve dokuzunun da ofloksasine dirençli olduğu bulunmuştur. İzolatların tümü vankomisin, teikoplanin ve ko-trimoksazole duyarlı olarak saptanmıştır. Ekzotoksin ve regülatör genlerinin taranması sonucunda, suşların sea, seti, hla, hlb ve sarA genlerini taşıdığı belirlenmiştir. PCR ile tüm suşların, çalışılan bütün proteaz genlerine (sspA, sspB, aur ve serin proteaz geni) sahip olduğu görülmüş, ancak sütlü (skim milk ve milk agar) ve kazein ağarlarda yapılan proteaz üretimi testlerinde negatif sonuç alınmıştır. Lipaz üretiminin belirlenmesi için Tween 20, Tween 80 ve tributyrin içeren besiyerleri kullanılmış ve tüm suşlarda geç dönemde (inkübasyonun üçüncü günü) pozitif sonuç alınmasına karşın, izolatların hiçbirisinde lipaz üretiminden sorumlu geh geni bulunmamıştır. Sonuç olarak, biyomalzeme yüzeylerinden izole edilen S.aureus suşlarında, araştırılan virülans genlerinden bazılarının varlığı saptanmış, ancak bunların tam olarak fenotipe yansımadığı izlenmiştir. İzolat sayısının azlığına ve tüm genlerin ekspresyonlarının fenotipik olarak çalışılamamış olmasına rağmen, bu genlerin varlığının yoğun bakım hastalan için potansiyel bir risk teşkil edebileceği düşünülmüştür.Article Citation - WoS: 3Citation - Scopus: 4Evaluation of Multifunctional Hybrid Analogs for Stilbenes, Chalcones and Flavanones(Bentham Science Publishers, 2017) Çağır, Ali; Odacı, Burcu; Varol, Mehmet; Akçok, İsmail; Okur, Özgür; Koparal, Ayşe T.Aims: In this study, discovery of novel anticancer agents acting by more than one mechanism was aimed. Method: For this purpose, eleven previously synthesized simple-stilbene, chalcone, flavanone derivatives and 31 novel stilbene-fused chalcones and stilbene-fused flavanones were tested for their aromatase inhibition, anti-angiogenic and anti-proliferative properties in cancer (PC3, MCF-7) and healthy (HUVEC) cell lines. MTT cell viability assay was used to evaluate the anti-proliferative activities of the compounds. CYP19/MFC high-throughput screening kit (BD Biosciences, Oxford, UK) was used to search the aromatase inhibition properties and matrigel tube formation assay was applied to determine the anti-angiogenic activities. Results: Results indicate that the simple-chalcone and flavanone derivatives were more cytotoxic than the simple-stilbenes in the both cancer cell lines. In contrast, the simple-stilbene structures were much more effective at aromatase inhibition. The cytotoxicity profiles of stilbene-fused chalcones in cancer cells imply that these molecules mostly mimic the simple chalcone structures. On the other hand, flavanones lose their cytotoxic activities after becoming fused with stilbenes. Additionally, aromatase inhibition assays showed that stilbene-fused chalcones again do mimic the simple-chalcones but not simple-stilbenes and anti-angiogenic profiles of the tested molecules seem to be not related with stilbene fragments. Furthermore, stilbene-fused flavanones may mimic both simple-flavanones and simple-stilbenes depending upon the type and position of the substituent in their respective terminal aromatic rings.Article Citation - WoS: 1Effect of Ultraviolet B Radiation on the Absorption Characteristics of Various Intraocular Lenses(S. Karger AG, 2006) Koçak, Nilüfer; Kaynak, Süleyman; İlknur, Turna; Özkan, Şebnem; Erdoğan, Gökhan; Çıngıl, GürayBackground: The aim of this study was to determine the effect of ultraviolet B (UVB) exposure on UV filters of various intraocular lenses (IOLs). Methods: Eight samples each of the hydrophobic acrylic, hydrophilic acrylic and silicone IOLs were used. Four IOLs of each type was selected randomly as the control group while the remaining four IOLs of each type were exposed to a UVB dose of 1.4 J/cm2 (2.40 mW/cm2) for 9.45 min, two times with a 4-week interval. IOLs were evaluated for any sign of opacification under microscope weekly. After a follow-up period of 16 weeks, spectrometry for UV filter absorption rates, scanning electron microscopy for deposit formation and energy dispersive X-ray analysis for elemental composition were performed for all IOLs, and findings of the control group IOLs were compared with those of the UVB-exposed IOLs. All these procedures were done at the Department of Ophthalmology, Faculty of Medicine, Dokuz Eylul University. Results: All the IOLs were free of any opacification during the follow-up period. Spectrometric analysis of their UV filters revealed a change in absorption rates in the hydrophilic acrylic and silicone IOLs compared to the control IOLs of the same type. Only the hydrophobic acrylic IOLs preserved the same UV absorption curve after UVB exposure. Conclusion: The pathogenesis of IOL opacification is still undetermined. Some reports claimed that the UV light was the responsible factor. Our experimental study revealed that high doses of UVB did not cause any opacification though they impaired the function of UV filters of the hydrophilic acrylic and silicone IOLs. Copyright © 2007 S. Karger AG.Article Citation - WoS: 105Citation - Scopus: 125Prevalence of Staphylococcal Enterotoxins, Toxin Genes and Genetic-Relatedness of Foodborne Staphylococcus Aureus Strains Isolated in the Marmara Region of Turkey(Elsevier Ltd., 2011) Aydın, Ali; Sudağıdan, Mert; Muratoğlu, KarloStaphylococcus aureus is a major foodborne pathogen and it has the ability to produce a number of extracellular toxins. We analyzed 1070 food samples obtained from retail markets and dairy farms in the Marmara Region of Turkey for the presence of S. aureus. Out of 147 isolates, 92 (62.6%) were enterotoxigenic. PCR was used to investigate the presence of staphylococcal enterotoxin genes (sea, seb, sec, sed, see, seg, seh, sei, sej, sek, sel, sem, sen, seo, sep, seq and seu), exfoliative toxin genes (eta and etb) and the toxic - shock syndrome toxin gene (tst). The PCR results showed that 53.3% of the isolates contained staphylococcal enterotoxin-like (SEl) toxin genes (seg, seh, sei, sej, sek, sel, sem, sen, seo, sep, seq and seu) which were more frequent than classical enterotoxin genes (sea to see). Furthermore, seo, sei, sem, seg, seu and sec were found in 37.0, 32.7, 30.4, 29.3, 29.3 and 27.2% of the isolates, respectively. The tst gene was detected and confirmed by DNA sequencing in 9 isolates. The presence of eta and etb were not found in the isolates. Enterotoxigenic capabilities of isolates with SEA-SEE were investigated by ELISA. Enterotoxigenic S. aureus isolates produced one to three enterotoxins, with the most frequently produced types being enterotoxin A and C. There was a correlation of 72.1% between production of a specific toxin and the presence of the respective genes. PFGE analysis was used to identify genetic-relatedness of enterotoxigenic S. aureus isolates and the results revealed that 13 groups of isolates from different or the same origin that contained the same genes showed 100% homology with indistinguishable band patterns. The other enterotoxigenic isolates showed related band patterns with 72-86% homology in sea-, 61-90% homology in sec-, 80-96% homology in seh-, and 69-96% homology in sep-positive isolates. To our knowledge, this is the first study to examine enterotoxins and related gene contents of S. aureus food isolates in the Marmara Region of Turkey.Article Citation - WoS: 8Citation - Scopus: 8Nkx3.1 Contributes To S Phase Entry and Regulates Dna Damage Response (ddr) in Prostate Cancer Cell Lines(Academic Press Inc., 2011) Erbaykent Tepedelen, Burcu; Özmen, Besra; Varışlı, Lokman; Gönen Korkmaz, Ceren; Debeleç Bütüner, Bilge; Hamid, Syed Muhammad; Çakmak, Özgür Yılmazer; Korkmaz, Kemal SamiNKX3.1 is an androgen-regulated homeobox gene that encodes a tissue-restricted transcription factor, which plays an important role in the differentiation of the prostate epithelium. Thus, the role of NKX3.1 as a functional topoisomerase I activity enhancer in cell cycle regulation and the DNA damage response (DDR) was explored in prostate cancer cell lines. As an early response to DNA damage following CPT-11 treatment, we found that there was an increase in the γH2AX (S139) foci number and that total phosphorylation levels were reduced in PC-3 cells following ectopic NKX3.1 expression as well as in LNCaP cells following androgen administration. Furthermore, upon drug treatment, the increase in ATM (S1981) phosphorylation was reduced in the presence of NKX3.1 expression, whereas DNA-PKcs expression was increased. Additionally, phosphorylation of CHK2 (T68) and NBS1 (S343) was abrogated by ectopic NKX3.1 expression, compared with the increasing levels in control PC-3 cells in a time-course experiment. Finally, NKX3.1 expression maintained a high cyclin D1 expression level regardless of drug treatment, while total γH2AX (S139) phosphorylation remained depleted in PC-3, as well as in LNCaP, cells. Thus, we suggest that androgen regulated NKX3.1 maintains an active DDR at the intra S progression and contributes to the chemotherapeutic resistance of prostate cancer cells to DNA damaging compounds.