Molecular Biology and Genetics / Moleküler Biyoloji ve Genetik
Permanent URI for this collectionhttps://hdl.handle.net/11147/9
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Article Citation - WoS: 3Citation - Scopus: 4Applicability of Low-Intensity Vibrations as a Regulatory Factor on Stem and Progenitor Cell Populations(Bentham Science Publishers, 2020) Baskan, Öznur; Karadaş, Özge; Meşe, Gülistan; Özçivici, EnginPersistent and transient mechanical loads can act as biological signals on all levels of an organism. It is therefore not surprising that most cell types can sense and respond to mechanical loads, similar to their interaction with biochemical and electrical signals. The presence or absence of mechanical forces can be an important determinant of form, function and health of many tissue types. Along with naturally occurring mechanical loads, it is possible to manipulate and apply external physical loads on tissues in biomedical sciences, either for prevention or treatment of catabolism related to many factors, including aging, paralysis, sedentary lifestyles and spaceflight. Mechanical loads consist of many components in their applied signal form such as magnitude, frequency, duration and intervals. Even though high magnitude mechanical loads with low frequencies (e.g. running or weight lifting) induce anabolism in musculoskeletal tissues, their applicability as anabolic agents is limited because of the required compliance and physical health of the target population. On the other hand, it is possible to use low magnitude and high frequency (e.g. in a vibratory form) mechanical loads for anabolism as well. Cells, including stem cells of the musculoskeletal tissue, are sensitive to high frequency, low-intensity mechanical signals. This sensitivity can be utilized not only for the targeted treatment of tissues, but also for stem cell expansion, differentiation and biomaterial interaction in tissue engineering applications. In this review, we reported recent advances in the application of low-intensity vibrations on stem and progenitor cell populations. Modulation of cellular behavior with low-intensity vibrations as an alternative or complementary factor to biochemical and scaffold induced signals may represent an increase of capabilities in studies related to tissue engineering.Article Citation - WoS: 26Citation - Scopus: 32Low-Intensity Vibrations Normalize Adipogenesis-Induced Morphological and Molecular Changes of Adult Mesenchymal Stem Cells(SAGE Publications Inc., 2017) Baskan, Öznur; Meşe, Gülistan; Özçivici, EnginBone marrow mesenchymal stem cells that are committed to adipogenesis were exposed daily to high-frequency low-intensity mechanical vibrations to understand molecular, morphological and ultrastructural adaptations to mechanical signals during adipogenesis. D1-ORL-UVA mouse bone marrow mesenchymal stem cells were cultured with either growth or adipogenic medium for 1 week. Low-intensity vibration signals (15 min/day, 90 Hz, 0.1 g) were applied to one group of adipogenic cells, while the other adipogenic group served as a sham control. Cellular viability, lipid accumulation, ultrastructure and morphology were determined with MTT, Oil-Red-O staining, phalloidin staining and atomic force microscopy. Semiquantitative reverse transcription polymerase chain reaction showed expression profile of the genes responsible for adipogenesis and ultrastructure of cells. Low-intensity vibration signals increased viability of the cells in adipogenic culture that was reduced significantly compared to quiescent controls. Low-intensity vibration signals also normalized the effects of adipogenic condition on cell morphology, including area, perimeter, circularization and actin cytoskeleton. Furthermore, low-intensity vibration signals reduced the expression of some adipogenic markers significantly. Mesenchymal stem cells are sensitive and responsive to mechanical loads, but debilitating conditions such as aging or obesity may steer mesenchymal stem cells toward adipogenesis. Here, daily application of low-intensity vibration signals partially neutralized the effects of adipogenic induction on mesenchymal stem cells, suggesting that these signals may provide an alternative and/or complementary option to reduce fat deposition.Article Citation - WoS: 6Citation - Scopus: 8Mineral Element Uptake Status of Endemic Isoetes Anatolica Prada & Rolleri Populations From Bolu-Turkey(Pakistan Botanical Society, 2013) Özyiğit, İbrahim İlker; Doğan, İlhan; Eskin, Bülent; Keskin, Mustafa; Demir, Göksel; Yalçın, İbrahim ErtuğrulIsoetes genus is commonly known as the "quillworts" and considered to be "fern allies". There are about 200-250 species, with a cosmopolitan distribution but often scarce to rare. Isoetes genus members often grow in extremely sensitive aquatic environments such as temporary ponds, streams and lakes. They are therefore good indicators of environmental quality. Isoetes anatolica Prada & Rolleri is an endemic plant grows on calcareous sediment/soil on the edges of seasonal ponds located in a mountainous area near the southern coast of the Black Sea at 1400 m above sea level at Bolu, Turkey. In this study, mineral element uptake statuses of I. anatolica populations were studied on the background of plant-sediment/soil-water interactions. The study materials were collected from the place where this narrow endemic species only lives in the world (Abant Region, Bolu/Turkey) by using standard methods and plant and sediment/soil mineral element measurements (Al, B, Ca, Cu, Fe, K, Mg, Mn, Na, Ni and Zn) were done. ICP-OES was employed for the measurements during the study. Interrelations between mineral element contents in the sediment/soil, water and plant were discussed. The data revealed that I. anatolica is capable of accumulating considerable amounts of certain mineral elements (B, Ca, Mn and Na).Article Citation - WoS: 11Citation - Scopus: 15Salinity Induced Changes in Cotton (gossypium Hirsutum L.)(Pakistan Botanical Society, 2012) Doğan, İlhan; Kekeç, Güzin; Özyiğit, İbrahim İlker; Sakçalı, Mehmet SerdalCotton (Gossypium hirsutum L.) is susceptible to abiotic stresses. High salinity is a common abiotic stress condition that adversely affects plant growth. Altered ion and water homeostasis changes due to NaCI stress, lead to molecular damage, growth arrest and even death. As a consequence of salt stress effects, secondary stresses such as oxidative damage by reactive oxygen species may occur. Reactive oxygen species can alter cellular metabolism through oxidative damage of lipids, proteins and nucleic acids causing lipid peroxidation, protein denaturing and DNA mutation. In recent years, several selective and sensitive assays have been developed to evaluate the effects of environmental stress on vegetal organisms. RAPD is one of them and developed for DNA analysis. In this study, cotton seedlings were used as bioindicator of salinity stress in the range of 50-400 mM. Effects of salinity stress were determined by comparing RAPD profiles of normal and treated cotton seedlings include variations in band intensities as well as gains or losses of band numbers. The DNA polymorphisms detected by RAPD analysis could be used as an investigation tool and useful biomarker assay for observing environmental stresses such as high salinity on vegetal organisms.Article Citation - WoS: 18Citation - Scopus: 16Determination of Some Heavy Metals and Mineral Nutrients of Bay Tree (laurus Nobilis L.) in Bartin City, Turkey(Pakistan Botanical Society, 2012) Yaşar, Ülkühan; Özyiğit, İbrahim İlker; Yalçın, İbrahim Ertuğrul; Doğan, İlhan; Demir, GökselConcentrations of Al, Cd, Cu, Ni, and Pb in Laurus nobilis L. were examined for assessment of the impact of heavy metal exposure during winter periods, since these metals have the highest toxic potential. In this study, leaf (washed and unwashed), bark and branch samples of L. nobilis and soil samples were collected from 13 different localities, belonged to three stations. In conjunction with analyzing impact of the heavy metal exposure on the city using L. nobilis as a biomonitoring tool, the uptake and composition of mineral nutrients of L. nobilis were also investigated for determining the effects of heavy metals on mineral nutrition metabolism of the plant. The heavy metal and mineral nutrient concentrations of the collected samples were measured by using ICP-OES. The obtained data was analyzed with SPSS statistics program. As a result of measurements, the lowest and highest heavy metal accumulations and the amount of mineral nutrients measured in plants were as follows; Al (14.69-122.44 mg/kg d. wt), Cd (0.23-0.89 mg/kg d. wt), Cu (1.64-14.25 mg/kg d. wt.), Ni (0.001-0.45 mg/kg d. wt.), Pb (2.06-5.28 mg/kg d. wt.) and B (1.04- 6.67 mg/kg d. wt.), Ca (1195.34-4919.03 mg/kg d. wt.), Fe (17.13-203.25 mg/kg d. wt.), K (538.99-3778.37 mg/kg d. wt.), Mg(48.1-268.5 mg/kg d. wt.), Na (24.91-77.43 mg/kg d. wt.) and Zn (4.75-15.74 mg/kg d. wt.). According to the experimental data, the volume of the air pollution was analyzed and found significant in the city. Also, it was noticed that the metabolism of mineral nutrients of L. nobilis was altered by heavy metals. Finally, it was proved that L. nobilis is a suitable organism to be used as a biomonitoring tool for conducting research on heavy metal pollution.Article Citation - WoS: 12Citation - Scopus: 15Mineral Element Distribution of Cotton (gossypium Hirsutum L.) Seedlings Under Different Salinity Levels(Pakistan Botanical Society, 2012) Doğan, İlhan; Özyiğit, İbrahim İlker; Demir, GökselCotton (Gossypium hirsutum L.) is the world's leading natural fiber and second largest oilseed crop. In addition to textile manufacturing, cotton and cotton-by products are the sources of wealth of consumer based products, livestock feed, fertilizer, foodstuff and paper. High concentrations of NaCl in soils account for large decreases in the yield of a wide variety of crops all over the world. The present study was conducted to evaluate NaCl stress on mineral nutrient composition of cotton due to its economic importance. Cotton seeds were germinated in Magenta vessels containing Murshige and Skoog (MS) media for 15 days and then transferred in sterile jars containing MS exposed to different levels of NaCl (50, 100, 200 and 400 mM) treatments for 1 month. Uptake of some mineral nutrients (B, Ca, Fe, K, Mg, Mn, Na and Zn) by the plants was examined in roots and leaves by using an Inductively Coupled Plasma Optical Emission Spectrometer (ICP-OES). The data proved that plant growth and uptake and accumulation of microelements are altered extensively in cotton grown with NaCl. Excess NaCl reduces the uptake pattern of certain elements and increases that of others, the patterns depending on the element and the plant part being compared to the control.