Arslanoğlu, Alper
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Arslanoglu, A
Arslanoglu, Alper
Arslanoğlu, A.
Arslanoğlu, A
Arslanoglu, A.
Arslanoglu, Alper
Arslanoğlu, A.
Arslanoğlu, A
Arslanoglu, A.
Job Title
Email Address
alperarslanoglu@iyte.edu.tr
Main Affiliation
04.03. Department of Molecular Biology and Genetics
Status
Current Staff
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Scopus Author ID
Turkish CoHE Profile ID
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WoS Researcher ID
Sustainable Development Goals
1NO POVERTY
0
Research Products
2ZERO HUNGER
3
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3GOOD HEALTH AND WELL-BEING
2
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4QUALITY EDUCATION
1
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5GENDER EQUALITY
0
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6CLEAN WATER AND SANITATION
5
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7AFFORDABLE AND CLEAN ENERGY
4
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8DECENT WORK AND ECONOMIC GROWTH
0
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9INDUSTRY, INNOVATION AND INFRASTRUCTURE
13
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10REDUCED INEQUALITIES
0
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11SUSTAINABLE CITIES AND COMMUNITIES
0
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12RESPONSIBLE CONSUMPTION AND PRODUCTION
2
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13CLIMATE ACTION
5
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14LIFE BELOW WATER
1
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15LIFE ON LAND
0
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16PEACE, JUSTICE AND STRONG INSTITUTIONS
0
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17PARTNERSHIPS FOR THE GOALS
0
Research Products
Documents
11
Citations
445
h-index
6
Documents
11
Citations
358
Scholarly Output
26
Articles
9
Views / Downloads
32435/11493
Supervised MSc Theses
14
Supervised PhD Theses
2
WoS Citation Count
338
Scopus Citation Count
411
Patents
0
Projects
10
WoS Citations per Publication
13.00
Scopus Citations per Publication
15.81
Open Access Source
24
Supervised Theses
16
| Journal | Count |
|---|---|
| Food Research International | 2 |
| Food Technology and Biotechnology | 1 |
| Iranian Journal of Biotechnology | 1 |
| Journal of Mass Spectrometry | 1 |
| Journal of the American Society for Mass Spectrometry | 1 |
Current Page: 1 / 2
Scopus Quartile Distribution
Competency Cloud
26 results
Scholarly Output Search Results
Now showing 1 - 10 of 26
Doctoral Thesis Investigation of the Effects of the Hiv-1 Tat Gene on the Expression of Secretory Leucocyte Protease Inhibitor in Primate Cell Lines(Izmir Institute of Technology, 2015) Özdemir, Selçuk; Arslanoğlu, AlperOld world monkey species including African green monkey (AGM) are resistant to HIV-1. Although the virus can gain entry into the susceptible cells of these monkeys, virus replication is blocked prior to viral genome integration by the restriction factors. HIV-1 Tat are the first viral protein that are produced after viral genome integration and they are essential for the production of other viral proteins. According to our preliminary results, AGM CV-1 cells that are known to be resistant to HIV-1 were transfected with HIV-1 regulatory tat. Then, protein profiles of Tat and empty vector expressing AGM CV-1 were compared by 2D-PAGE and that way observed to be induced in cells expressivity tat was identified to be SLPI by mass spectrometry analysis. Based on our literature reviews, SLPI is found to be an anti-bacterial, anti-fungal and anti-inflammatory protein. SLPI also has an extracellular anti-HIV-1 effect. Our study aims to measure SLPI expression level in AGM and human cells in presence of HIV-1 tat and to research effect of SLPI on NF-kB and HIV LTR promoter. In our research, expression level of SLPI gene is measured by QRT-PCR method. SLPI protein was screened by Western Blot method. SLPI’s effect on NF-kB and HIV-LTR promoter was researched through the luciferase experiment. While SLPI gene shows increase in AGM cells in presence of HIV-1 tat, no such increase was observed in human cells. Furthermore, it has been shown that SLPI gene decreases luciferase expression dependent on NF-kB promoter and HIV-LTR. In other words, SLPI suppresses NF-kB promoter and HIV-LTR.Master Thesis Cloning and Expression of the Pseudomonas Sp Ke38 Extra-Cullular Protease Gene in E.coli(01. Izmir Institute of Technology, 2023) Bozlak, Esma Nur; Arslanoğlu, AlperProteases are enzymes that hydrolyze proteins into smaller pieces by breaking the peptide bonds. Protease enzyme is produced by all living things on Earth. Pseudomonas sp. KE-38 is a cold adapted bacterium isolated from soil at high altitude in Erciyes mountain, Kayseri. The purpose of this thesis was to clone the cold-active extracellular protease gene from Pseudomonas sp. KE-38, partial purification and characterization of the extracellular protease enzyme. The partial sequence of protease gene from Pseudomonas sp. KE-38 was analysed. The estimated size encoded by this gene after sequence analysis was 105 kDa. However, the size of this enzyme that was purified in this thesis was found to be approximately 50 kDa as evaluated of gelatine zymography analysis. Further investigation of the proteins in the partially purified enzyme sample by Liquid Chromatography Mass Spectrophotometry, revealed the presence of a metalloprotease enzyme with a predicted mass of 50 kDa. These results showed that the purified and characterised protease enzyme was not the same enzyme of which its gene was amplified gene was amplified and sequenced. Nevertheless, the partial characterization of the extracellular metalloprotease was performed, and the optimum temperature and pH was found to be 30°C and 8.0 respectively. The enzyme showed high activity in the presence of calcium, ethanol. The enzyme showed extremely high stability up to 25°C above this temperature; the stability dropped sharply which confirmed that the protease was a cold active enzyme and can have a potential to be used in cold temperature applications.Master Thesis Hiv-1 Regulatory Gene Dependent Expression of a Toxic Gene(İzmir Institute of Technology, 2006) Yeğin, Zeynep; Arslanoğlu, AlperFrom the first day it was discovered, HIV remains as one the major health threats of 21st century and the methods tried up to now focused on the short-term solutions which were efficient at blocking HIV replication, but also resulted with drugresistant strains, instead of methods which would completely eliminate HIV-infected cells from potential reservoirs. In this study, the design of a special DNA vector encoding a toxic protein to be expressed only in cells infected with HIV, thereby not damaging to healthy cells and the test of the efficacy of this vector in the cell culture conditions without using HIV infection was aimed. The toxic gene (suicide gene) presumed to create the desired effect was placed under the transcriptional control of HIV promoter LTR and so that the expression of the toxic gene was made dependent upon the tat regulator gene of HIV. In order to prevent leaky gene expression stemming from the basal gene expression from LTR even if it was not induced by Tat, and thereby having potential to damage healthy cells, the prerequisite cis-acting DNA sequences were cloned downstream of the toxic gene. So that, the transcripts produced could retain in the nucleus and would require the function of a second regulator protein 'Rev' which is a molecular chaperone for being transmitted into the cytoplasm. If the efficiency of this model prooved, a full-protective suicide vector will have been designed and this vector may be suggested to be tested in gene therapy trials of HIV infection in the future.Master Thesis Development of Antibacterial Polymer Based Nanocomposite Materials(Izmir Institute of Technology, 2015) Abatay, Ezgi; Arslanoğlu, Alper; Tanoğlu, MetinHuman beings are often infected by microorganisms such as bacterium, mold, yeast, virus, etc. in the living environment. It became a requirement and a necessity to create sterile fields in areas. Composite stones are one of the main materials that can be used for the contact surfaces in indoor and outdoor places due to their being of highly resistant to abrasives, chemicals and impacts. Research has been intensive in antibacterial material containing various inorganic substances. The aim of this thesis is investigating the antibacterial effect of inorganic substances such as silver, zinc oxide, calcium oxide, titanium oxide and magnesium oxide on stone products. This study also deals with the silver doped zinc oxide powder and their antibacterial efficacies. Stone product is formed of mainly two type compound which are quartz aggregates as reinforced and filler and thermoset polyester resin as matrix. The manufacturing process begins with selection of raw quartz materials. They are crushed and blended in the ratio of 90 % quartz aggregates to 10% polyester matrix and other additives such as antibacterial agent, pigment. These united constituents are used for production of composite stones by applying those combined vacuum, vibration and pressing processes which are named as vibropress, simultaneously. Following it, they are subjected to surface preparation and polishing processes. In this study, mechanical, thermal, and morphological properties of the particles, polyester matrix and stone product were investigated. Antibacterial efficacies of these were investigated based on colony-count method against gram negative (E.coli) and gram positive (Bacillus subtilis) bacteria. Silver-containing stone samples showed best antibacterial property about ninety-nine percent reduction.Article Citation - WoS: 27Citation - Scopus: 36Purification and Biochemical Characterization of an Extracellular Lipase From Psychrotolerant Pseudomonas Fluorescens Ke38(TUBITAK, 2013) Adan Gökbulut, Aysun; Arslanoğlu, AlperAn extracellular lipase producing bacterium was isolated from a soil sample, and identified as a strain of Pseudomonas fluorescens by 16S rRNA gene sequencing. It was named Pseudomonas fluorescens KE38. KE38 showed psychrotolerant properties with an optimum growth temperature of 25 °C. The lipase enzyme secreted by KE38 was purified 41.13-fold with an overall yield of 54.99%, and a specific activity of 337.3 U/mg. The molecular mass of purified lipase was estimated to be approximately 43 kDa by SDS-PAGE. Although the lipase was active at a temperature range of 15-65 °C, it exhibited maximum activity at 45 °C, at pH 8.0. The enzyme exhibited high stability retaining 100% and 70% of its activity after an incubation period of 45 and 100 min at 45 °C and pH 8.0 respectively. It also showed a broad substrate specificity acting on p-nitrophenyl esters with C8-C18 acyl groups as substrates and was activated by Ca2+ and Ni2+ at 1 mM. While the enzyme retained its activity levels in the presence of a variety of organic solvents, DMSO and dimethylformamide enhanced this. High stability, broad substrate specificity and activity at cold temperatures in the presence of organic solvents, and metal ions make the extracellular lipase of KE38 a candidate for industrial applications.Master Thesis Isolation and Identification of Lipase Producing Soil Fungus; Cloning, Sequencing and Partial Characterization of Its Lipase(Izmir Institute of Technology, 2010) Ergülen, Elvan; Arslanoğlu, AlperLipases are well known enzymes which catalyze the hydrolysis of long chain triglycerides. Contrary to many other enzymes, lipases show a wide range of substrate specificity and remarkable levels of activity and stability in non-aqueous environments. Therefore, they have a great potential in many industrial applications such as detergent industry, paper and food technology, as biocatalysts for the synthesis of organic intermediates. Lipases can be obtained from animals, plants as well as from natural and recombinant microorganisms in good yields. The aim of this thesis was isolation and identification of a lipolytic fungus and purification and characterization of its lipase enzyme. For this purpose, a lipolytic fungus was isolated from soil sample collected from Kula. Lipase activity of this fungus was detected rapidly by Rhodamin B - olive oil plate assay. The lipolytic fungus was identified by 28S rRNA gene sequence analysis and determined to be a strain of Rhizopus stolonifer. Because this lypolytic fungus was isolated from soil sample collected from Kula, it was named as R. stolonifer K45. This fungus showed best growth at 25°C and did not grow above 35°C. In the second part of the study, lipase enzyme of the fungus was partially purified but previously, optimum time and carbon source for lipase production was determined. According to this, optimum lipase production was obtained at 7th day of growth in the media including only olive oil as carbon source. Glucose when included in the growth media was observed to reduce the amount of lipase. In order to purify fungal lipase, aceton precipitation (30 %) and ultrafiltration methods were used. Lipase activity assay was performed spectrophotometrically. The chain length specificity of this lipase was detected and highest activity was observed towards p-NP laurate. The effect of different temperature and pH values on lipase activity and stability was also determined and optimum temperature and pH were found 45°C and pH 8, respectively. Furhermore, different organic solvents and metal ions were tested on lipase activity. The lypolytic enzyme was inhibited by n-hexane. However, methanol and DMSO were detected to enhance the lipase activity.Master Thesis Investigation Og the Effects of Hiv-1 Regulatory Genes on African Green Monkey Cell Lines Master of Science(Izmir Institute of Technology, 2010) Şengez Sünbül, Burcu; Arslanoğlu, AlperThe inheritance of retroviral genome by their hosts first gained its importance by the discovery of endogenous retroviruses in late 1960s. The subject has moved forward with the discovery of gag-like Fv1 protein which is an endogenous factor in mice that restricts MLV infection. In view of the fact that endogenous retroviruses comprise 8-10 % of primate genomes, it is well to consider that cellular expression of retroviral restriction factors may depend on retroviral regulator genes. The products of two such genes in HIV-1, tat and rev, are absolutely required for the replication of HIV-1. It was aimed to investigate the effects of HIV-1 Tat and Rev proteins on the gene expression of African Green Monkey (AGM) cells which are known to be resistant to HIV-1 infection, in an attempt to identify possible HIV restriction factors encoded by endogenous retroviral sequences.To this end, we generated stable cell lines of AGM expressing HIV-1 regulatory genes tat and rev. The expressions were confirmed by both RT-PCR at mRNA level and Western Blotting at protein level using polyclonal antibodies raised in rabbits by immunization with GST fusion proteins of Tat and Rev. Currently, we are using these cell lines for the identification of possible AGM genes selectively expressed in the presence of HIV-1 Tat and Rev proteins by microarray analysis and 2D-PAGE.Article Citation - WoS: 2Citation - Scopus: 2Gas Phase Fragmentation Behavior of Proline in Macrocyclic B7 Ions(American Chemical Society, 2023) Taşoğlu, Çağdaş; Arslanoğlu, Alper; Yalçın, TalatThefragmentation characteristics of b (7) ionsproduced from proline-containing heptapeptides have been studiedin detail. The study has utilized the following C-terminally amidatedmodel peptides: PA(6), APA(5), A(2)PA(4), A(3)PA(3), A(4)PA(2), A(5)PA, A(6)P, PYAGFLV, PAGFLVY, PGFLVYA, PFLVYAG,PLVYAGF, PVYAGFL, YPAGFLV, YAPGFLV, YAGPFLV, YAGFPLV, YAGFLPV, YAGFLVP,PYAFLVG, PVLFYAG, A(2)PXA(3), and A(2)XPA(3) (where X = C, D, F, G, L, V, and Y, respectively). The resultshave shown that b (7) ions undergo head-to-tailcyclization and form a macrocyclic structure. Under the collision-induceddissociation (CID) condition, it generates nondirect sequence ionsregardless of the position of the proline and the neighboring aminoacid residues. This study highlights the unusual and unique fragmentationbehavior of proline-containing heptapeptides. Following the head-to-tailcyclization, the ring opens up and places the proline residue in theN-terminal position while forming a regular oxazolone form of b (2) ions for all peptide series. Then, the fragmentationreaction pathway is followed by the elimination of proline with itsC-terminal neighbor residue as an oxazolone (e.g., PXoxa) for all proline-containing peptide series.Article Gas-Phase Fragmentation Reactions of A7 Ions Containing a Glutamine Residue(Wiley-Blackwell, 2021) Atik, Ahmet; Arslanoğlu, Alper; Yalçın, Talat; Atik, Ahmet; Arslanoğlu, Alper; Yalçın, TalatThe gas-phase fragmentation reactions of the a7 ions derived from glutamine (Q) containing model heptapeptides have been studied in detail with low-energy collision-induced dissociation (CID) tandem mass spectrometry (MS/MS). Specifically, the positional effect of the Q residue has been investigated on the fragmentation reactions of a7 ions. The study involves two sets of permuted isomers of the Q containing model heptapeptides. The first set contains the QAAAAAA sequence, and the second set involves of QYAGFLV sequence, where the position of the Q residue is changed from N- to C-terminal gradually for both peptide series. An intense loss of ammonia from the a7 ions followed by internal amino acid eliminations strongly supports forming the imine-amides structure via cyclization/rearrangement reaction for all studied a7 ions. This is in agreement with the pioneering study reported by Bythell et al. (2010, 10.1021/ja101556g). A novel rearrangement reaction is detected upon fragmentation of imine-amide structure, which yields a protonated C-terminal amidated hexapeptide excluding the Q residue. A possible fragmentation mechanism was proposed to form the protonated C-terminal amidated hexapeptide, assisted via nucleophilic attack of the side chain amide nitrogen of the Q residue on its N-protonated imine carbon atom of the rearranged imine-amide structure. Highlights: The gas-phase fragmentation reactions of a7 ions obtained from protonated model peptides containing glutamine residue were studied by ESI-MS/MS. A rearranged imine-amide structure is the predominant even for a7 ions. Novel rearrangement reaction is observed which forms a protonated C-terminal amidated hexapeptide excluding Q residue upon fragmentation of the imine-amide structure.Conference Object Citation - Scopus: 1Silver and Zinc Oxide Based Nano Powders and Their Polymer Based Nanocomposites for Antibacterial Application(European Conference on Composite Materials, 2014) Abatay, Ezgi; Özmen, Tuğçe; Arslanoğlu, Alper; Tanoğlu, MetinThe microorganisms cause some serious infections. It is a requirement and a necessity to create sterile fields such as hospital, food processing and public places. Composite stones are one of the main building materials that have been used in buildings due to their high resistant to abrasives, chemicals and mechanical impacts. The silver (Ag), zinc oxide (ZnO), and also nano Ag loaded ZnO (ZnO/Ag) nanopowders have demonsrated capability for the preparation of the polymer based antibacterial nanocomposite materials. In this study, Ag/polyester, ZnO/polyester, Ag/ZnO/polyester and their nanocomposites were prepared and tested with various weight fractions. The microstructure and surface morphology of these nanocomposites were investigated by means of scanning electron microscopy (SEM/EDX). The thermal properties were analyzed by differential scanning calorimetry (DSC) and thermal gravimetric analysis (TGA). Finally, The antibacterial properties of nanocomposites were analyzed against gram positive (Bacillus subtilis) and gram negative bacteria (Escherichia coli).
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