TY - JOUR A1 - Seifarth, Volker A1 - Schehl, D. A1 - Linder, Peter A1 - Gossmann, Matthias A1 - Digel, Ilya A1 - Artmann, Gerhard A1 - Porst, Dariusz A1 - Preiß, C. A1 - Kayser, Peter A1 - Pack, O. A1 - Temiz Artmann, Aysegül T1 - Ureplace: development of a bioreactor for in vitro culturing of cell seeded tubular vessels on collagen scaffolds N2 - The demand of replacements for inoperable organs exceeds the amount of available organ transplants. Therefore, tissue engineering developed as a multidisciplinary field of research for autologous in-vitro organs. Such three dimensional tissue constructs request the application of a bioreactor. The UREPLACE bioreactor is used to grow cells on tubular collagen scaffolds OPTIMAIX Sponge 1 with a maximal length of 7 cm, in order to culture in vitro an adequate ureter replacement. With a rotating unit, (urothelial) cells can be placed homogeneously on the inner scaffold surface. Furthermore, a stimulation is combined with this bioreactor resulting in an orientation of muscle cells. These culturing methods request a precise control of several parameters and actuators. A combination of a LabBox and the suitable software LabVision is used to set and conduct parameters like rotation angles, velocities, pressures and other important cell culture values. The bioreactor was tested waterproof successfully. Furthermore, the temperature controlling was adjusted to 37 °C and the CO2 - concentration regulated to 5 %. Additionally, the pH step responses of several substances showed a perfect functioning of the designed flow chamber. All used software was tested and remained stable for several days. KW - Tissue Engineering KW - Bioreaktor KW - Organkultur KW - Harnleiter Y1 - 2011 ER - TY - JOUR A1 - Digel, Ilya T1 - Primary thermosensory events in cells JF - Transient receptor potential channels / Md. Shahidul Islam, ed. Y1 - 2011 SN - 978-94-007-0264-6 N1 - (Advances in experimental medicine and biology ; 704) SP - 451 EP - 468 PB - Springer CY - Dordrecht [u.a.] ER - TY - JOUR A1 - Digel, Ilya A1 - Temiz Artmann, Aysegül T1 - The emperor's new body : seeking for a blueprint of limb regeneration in humans JF - Stem cell engineering : principles and applications / Gerhard M. Artmann ... eds. Y1 - 2011 SN - 978-3-642-11864-7 SP - 3 EP - 37 PB - Springer CY - Berlin [u.a.] ER - TY - JOUR A1 - Stadler, Andreas M. A1 - Garvey, G. J. A1 - Bocahut, A. A1 - Sacquin-Mora, S. A1 - Digel, Ilya A1 - Schneider, G. J. A1 - Natali, F. A1 - Artmann, Gerhard A1 - Zaccai, G. T1 - Thermal fluctuations of haemoglobin from different species : adaptation to temperature via conformational dynamics JF - Journal of the Royal Society Interface N2 - Thermodynamic stability, configurational motions and internal forces of haemoglobin (Hb) of three endotherms (platypus, Ornithorhynchus anatinus; domestic chicken, Gallus gallus domesticus and human, Homo sapiens) and an ectotherm (salt water crocodile, Crocodylus porosus) were investigated using circular dichroism, incoherent elastic neutron scattering and coarse-grained Brownian dynamics simulations. The experimental results from Hb solutions revealed a direct correlation between protein resilience, melting temperature and average body temperature of the different species on the 0.1 ns time scale. Molecular forces appeared to be adapted to permit conformational fluctuations with a root mean square displacement close to 1.2 Å at the corresponding average body temperature of the endotherms. Strong forces within crocodile Hb maintain the amplitudes of motion within a narrow limit over the entire temperature range in which the animal lives. In fully hydrated powder samples of human and chicken, Hb mean square displacements and effective force constants on the 1 ns time scale showed no differences over the whole temperature range from 10 to 300 K, in contrast to the solution case. A complementary result of the study, therefore, is that one hydration layer is not sufficient to activate all conformational fluctuations of Hb in the pico- to nanosecond time scale which might be relevant for biological function. Coarse-grained Brownian dynamics simulations permitted to explore residue-specific effects. They indicated that temperature sensing of human and chicken Hb occurs mainly at residues lining internal cavities in the β-subunits. Y1 - 2012 U6 - http://dx.doi.org/10.1098/rsif.2012.0364 SN - 1742-5689 VL - 9 IS - 76 SP - 2845 EP - 2855 PB - The Royal Society CY - London ER - TY - JOUR A1 - Kurulgan Demirci, Eylem A1 - Demirci, Taylan A1 - Linder, Peter A1 - Trzewik, Jürgen A1 - Gierkowski, Jessica Ricarda A1 - Gossmann, Matthias A1 - Kayser, Peter A1 - Porst, Dariusz A1 - Digel, Ilya A1 - Artmann, Gerhard A1 - Temiz Artmann, Aysegül T1 - rhAPC reduces the endothelial cell permeability via a decrease of contractile tensions induced by endothelial cells JF - Journal of Bioscience and Bioengineering N2 - All cells generate contractile tension. This strain is crucial for mechanically controlling the cell shape, function and survival. In this study, the CellDrum technology quantifying cell's (the cellular) mechanical tension on a pico-scale was used to investigate the effect of lipopolysaccharide (LPS) on human aortic endothelial cell (HAoEC) tension. The LPS effect during gram-negative sepsis on endothelial cells is cell contraction causing endothelium permeability increase. The aim was to finding out whether recombinant activated protein C (rhAPC) would reverse the endothelial cell response in an in-vitro sepsis model. In this study, the established in-vitro sepsis model was confirmed by interleukin 6 (IL-6) levels at the proteomic and genomic levels by ELISA, real time-PCR and reactive oxygen species (ROS) activation by florescence staining. The thrombin cellular contraction effect on endothelial cells was used as a positive control when the CellDrum technology was applied. Additionally, the Ras homolog gene family, member A (RhoA) mRNA expression level was checked by real time-PCR to support contractile tension results. According to contractile tension results, the mechanical predominance of actin stress fibers was a reason of the increased endothelial contractile tension leading to enhanced endothelium contractility and thus permeability enhancement. The originality of this data supports firstly the basic measurement principles of the CellDrum technology and secondly that rhAPC has a beneficial effect on sepsis influenced cellular tension. The technology presented here is promising for future high-throughput cellular tension analysis that will help identify pathological contractile tension responses of cells and prove further cell in-vitro models. KW - Cell permeability KW - Cellular force KW - Endothelial cells KW - Recombinant activated protein C KW - Lipopolysaccharide KW - Contractile tension KW - CellDrum Y1 - 2012 U6 - http://dx.doi.org/10.1016/j.jbiosc.2012.03.019 SN - 1347-4421 VL - 113 IS - 2 SP - 212 EP - 219 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Bassam, Rasha A1 - Hescheler, Jürgen A1 - Temiz Artmann, Aysegül A1 - Artmann, Gerhard A1 - Digel, Ilya T1 - Effects of spermine NONOate and ATP on the thermal stability of hemoglobin JF - BMC Biophysics N2 - Background Minor changes in protein structure induced by small organic and inorganic molecules can result in significant metabolic effects. The effects can be even more profound if the molecular players are chemically active and present in the cell in considerable amounts. The aim of our study was to investigate effects of a nitric oxide donor (spermine NONOate), ATP and sodium/potassium environment on the dynamics of thermal unfolding of human hemoglobin (Hb). The effect of these molecules was examined by means of circular dichroism spectrometry (CD) in the temperature range between 25°C and 70°C. The alpha-helical content of buffered hemoglobin samples (0.1 mg/ml) was estimated via ellipticity change measurements at a heating rate of 1°C/min. Results Major results were: 1) spermine NONOate persistently decreased the hemoglobin unfolding temperature T u irrespectively of the Na + /K + environment, 2) ATP instead increased the unfolding temperature by 3°C in both sodium-based and potassium-based buffers and 3) mutual effects of ATP and NO were strongly influenced by particular buffer ionic compositions. Moreover, the presence of potassium facilitated a partial unfolding of alpha-helical structures even at room temperature. Conclusion The obtained data might shed more light on molecular mechanisms and biophysics involved in the regulation of protein activity by small solutes in the cell. KW - Nitric Oxide Donor KW - NONOate KW - Circular Dichroism KW - Nitric Oxide Y1 - 2012 U6 - http://dx.doi.org/10.1186/2046-1682-5-16 SN - 2046-1682 VL - 5 PB - BioMed Central CY - London ER - TY - JOUR A1 - Mansurov, Z. A1 - Digel, Ilya A1 - Biisenbaev, M. A1 - Savistkaya, I. A1 - Kistaubaeva, A. A1 - Akimbekov, N. A1 - Zhubanova, A. T1 - Bio-composite material on the basis of carbonized rice husk in biomedicine and environmental applications JF - Eurasian Chemico-Technological Journal Y1 - 2012 U6 - http://dx.doi.org/10.18321/ectj105 SN - 2522-4867 VL - 14 IS - 2 SP - 115 EP - 131 PB - Institute of Combustion Problems CY - Almaty ER - TY - JOUR A1 - Akimbekov, Nuraly Shardarbekovich A1 - Mansurov, Zulkhair A1 - Jandosov, J. A1 - Digel, Ilya A1 - Gossmann, Matthias A1 - Artmann, Gerhard A1 - Temiz Artmann, Aysegül A1 - Zhubanova, Azhar A. T1 - Wound healing activity of carbonized rice husk N2 - The carbonized rice husk (CRH) was evaluated for its wound healing activity in rats using excision models. In this study, the influences of CRH on wound healing in rat skin in vivo and cellular behavior of human dermal fibroblasts in vitro were investigated. The obtained results showed that the CRH treatment promoted wound epithelization in rats and exhibited moderate inhibition of cell proliferation in vitro. CRH with lanolin oil treated wounds were found to epithelize faster as compared to controls. KW - Wundheilung KW - Epithel KW - Fibroblast KW - carbonized rice husk KW - wound healing KW - epithelization KW - human dermal fibroblasts Y1 - 2013 PB - Trans Tech Publications, Switzerland CY - Bäch ER - TY - JOUR A1 - Bassam, Rasha A1 - Digel, Ilya A1 - Hescheler, Jürgen A1 - Temiz Artmann, Aysegül A1 - Artmann, Gerhard T1 - Effects of spermine NONOate and ATP on protein aggregation: light scattering evidences JF - BMC Biophysics Y1 - 2013 U6 - http://nbn-resolving.de/urn/resolver.pl?10.1186/2046-1682-6-1 SN - 2046-1682 SP - 1 EP - 14 PB - BioMed Central CY - London ER - TY - JOUR A1 - Micili, Serap C. A1 - Valter, Markus A1 - Oflaz, Hakan A1 - Ozogul, Candan A1 - Linder, Peter A1 - Föckler, Nicole A1 - Artmann, Gerhard A1 - Digel, Ilya A1 - Temiz Artmann, Aysegül T1 - Optical coherence tomography : a potential tool to predict premature rupture of fetal membranes JF - Proceedings of the Institution of Mechanical Engineers. Part H : Journal of engineering in medicine Y1 - 2013 SN - 0046-2039 (Print) ; 2041-3033 (E-Journal) VL - Vol. 227 IS - No. 4 SP - 393 EP - 401 PB - Sage CY - London ER - TY - JOUR A1 - Akimbekov, N. S. A1 - Digel, Ilya A1 - Tastambek, K. T. A1 - Zhubanova, A. A. T1 - Biocompatibility of carbonized rice husk with a rat heart cells line H9c2 JF - Experimental Biology Y1 - 2013 SN - 1563-0218 N1 - Original in russischer Sprache VL - 59 IS - 3/1 SP - 23 EP - 25 ER - TY - JOUR A1 - Akimbekov, N.Sh. A1 - Digel, Ilya A1 - Savitkaya, I.S. A1 - Zhubanova, A.A. A1 - Tastambek, K.T. T1 - Investigations of LPS endotoxin elimination in the flowing column conditions with the sorbent on the basis of carbonized rice husk JF - KazNU Bulletin. Biology series Y1 - 2013 SN - 1563-0218 N1 - Original in russischer Sprache VL - 57 IS - 1 SP - 124 EP - 127 ER - TY - JOUR A1 - Digel, Ilya A1 - Akimbekov, N. A1 - Turalieva, M. A1 - Mansurov, Z. A1 - Temiz Artmann, Aysegül A1 - Eshibaev, A. A1 - Zhubanova, A. T1 - Usage of Carbonized Plant Wastes for Purification of Aqueous Solutions JF - Journal of Industrial Technology and Engineering Y1 - 2013 VL - 2 IS - 07 SP - 47 EP - 54 ER - TY - JOUR A1 - Zhubanova, А. A1 - Mansurov, Z.A. A1 - Digel, Ilya A1 - Saviskaya, I.S. A1 - Akimbekov, N.Sh. T1 - Designing of Heterogeneous Nanobiocomposites for Biotechnology JF - KazNU Bulletin. Biology series Y1 - 2013 SN - 1563-0218 VL - 59 IS - No 3/1 SP - 89 EP - 93 ER - TY - JOUR A1 - Akimbekov, N. Sh. A1 - Digel, Ilya A1 - Zhubanova, A. A. T1 - Investigation the Influence of Carbonized Material Based On Rice Husk on Viability and Migration of Fibroblasts in T3B3 Cell Culture JF - KazNU Bulletin. Biology series Y1 - 2013 SN - 1563-0218 N1 - Original in russischer Sprache VL - 59 IS - 3/1 SP - 20 EP - 23 ER - TY - JOUR A1 - Arinkin, Vladimir A1 - Digel, Ilya A1 - Porst, Dariusz A1 - Temiz Artmann, Aysegül A1 - Artmann, Gerhard T1 - Phenotyping date palm varieties via leaflet cross-sectional imaging and artificial neural network application JF - BMC bioinformatics N2 - Background True date palms (Phoenix dactylifera L.) are impressive trees and have served as an indispensable source of food for mankind in tropical and subtropical countries for centuries. The aim of this study is to differentiate date palm tree varieties by analysing leaflet cross sections with technical/optical methods and artificial neural networks (ANN). Results Fluorescence microscopy images of leaflet cross sections have been taken from a set of five date palm tree cultivars (Hewlat al Jouf, Khlas, Nabot Soltan, Shishi, Um Raheem). After features extraction from images, the obtained data have been fed in a multilayer perceptron ANN with backpropagation learning algorithm. Conclusions Overall, an accurate result in prediction and differentiation of date palm tree cultivars was achieved with average prediction in tenfold cross-validation is 89.1% and reached 100% in one of the best ANN. Y1 - 2014 U6 - http://dx.doi.org/10.1186/1471-2105-15-55 SN - 1471-2105 VL - 15 IS - 55 SP - 1 EP - 8 ER - TY - JOUR A1 - Mansurov, Z. A. A1 - Jandosov, J. M. A1 - Kerimkulova, A. R. A1 - Azat, S. A1 - Zhubanova, A. A. A1 - Digel, Ilya A1 - Savistkaya, I. S. A1 - Akimbekov, N. S. A1 - Kistaubaeva, A. S. T1 - Nanostructured carbon materials for biomedical use JF - Eurasian chemico-technological journal : quarterly journal of the International Higher Education Academy of Sciences N2 - One of the priority trends of carbon nanotechnology is creation of nanocomposite systems. Such carbon nanostructured composites were produced using - raw materials based on the products of agricultural waste, such as grape stones, apricot stones, rice husk. These products have a - wide spectrum of application and can be obtained in large quantities. The Institute of Combustion Problems has carried out the work on synthesis of the nanostructured carbon sorbents for multiple applications including the field of biomedicine. The article presents the data on the synthesis and physico-chemical properties of carbonaceous sorbents using physicochemical methods of investigation: separation and purification of biomolecules; isolation of phytohormone - fusicoccin; adsorbent INGO-1 in the form of an adsorption column for blood detoxification, oral (entero) sorbent - INGO-2; the study of efferent and probiotic properties and sorption activity in regard to the lipopolysaccharide (LPS), new biocomposites - based on carbonized rice husk (CRH) and cellular microorganisms; the use of CRH in wound treatment. A new material for blood detoxication (INGO-1) has been obtained. Adsorption of p-cresyl sulfate and indoxyl sulfate has shown that active carbon adsorbent can remove clinically significant level of p-cresyl sulfate and indoxyl sulfate from human plasma. Enterosorbent INGO-2 possesses high adsorption activity in relation to Gram-negative bacteria and their endotoxins. INGO-2 slows down the growth of conditionally pathogenic microorganisms, without having a negative effect on bifido and lactobacteria. The use of enterosorbent INGO-2 for sorption therapy may provide a solution to a complex problem - detoxication of the digestive tract and normalization of the intestinal micro ecology. The immobilized probiotic called "Riso-lact" was registered at the Ministry of Health of the Republic of Kazakhstan as a biologically active food additive. The developed technology is patented and provides production of the medicine in the form of freeze-dried biomass immobilized in vials. Y1 - 2014 U6 - http://dx.doi.org/10.18321/ectj224 SN - 1562-3920 VL - 15 (2013) IS - 3 SP - 209 EP - 217 PB - Institute of Combustion Problems CY - Almaty ER - TY - JOUR A1 - Turaliyeva, M. A1 - Yeshibaev, A. A1 - Digel, Ilya A1 - Elibayeva, G. A1 - Sydykova, A. A1 - Uspabayeva, A. A1 - Dosybayeva, G. A1 - Zhylysbayeva, A. A1 - Lakhanova, K. T1 - Molecular-genetic identification of emerged novel invasive pathogens of Asiatic Elm Ulmus pumila L JF - Life science journal N2 - The dwarf elm Ulmus pumila L. (Ulmaceae) is one of indigenous species of flora in Kazakhstan and forms a basis of dendroflora in virtually all settlements of the region. In the past decade, multiple outbreaks of previously unknown diseases of the small-leaved elm have been registered. In our study, by the molecular-genetic analysis it was found that the pathogens responsible for the outbreaks are microfungi belonging to the genus Fusarium – F. solani and F. oxysporum. The nucleotide sequences (ITS regions) isolated from the diseased trees showed very high similarity with the GenBank control numbers EU625403.1 and FJ478128.1 (100.0 and 99.0 % respectively). Oncoming research will focus on the search of natural microbial antagonists of the discovered phytopathogens. Y1 - 2014 U6 - http://dx.doi.org/10.7537/marslsj1105s14.33 SN - 1097-8135 VL - 11 IS - Spec. iss. 5s SP - 171 EP - 175 PB - Marsland Press CY - New York ER - TY - JOUR A1 - Akimbekov, N. Sh. A1 - Digel, Ilya A1 - Zhubanova, A. A. T1 - Advantages of creation of e-books in training of specialists biologists and biotechnologists JF - KazNU Bulletin. Biology series. N2 - The necessity of e-books as a primary of learning, its opportunities for realization of competence during training biologist and biotechnologist specialists are determined. Definitions and requirements to the e-books, its advantages in comparison with traditional textbooks, and the ways of creation of e-books in the SunRav BookEditor program are considered. KW - SunRav BookEditor KW - softs KW - distance learning KW - e-issues KW - e-books Y1 - 2014 SN - 1563-0218 VL - 60 IS - 1 SP - 249 EP - 252 PB - Al-Farabi Kazakh National University CY - Almaty ER - TY - JOUR A1 - Akimbekov, N.Sh. A1 - Digel, Ilya A1 - O´Heras, C. A1 - Tastambek, K.T. A1 - Savitskaya, I.S. A1 - Ualyeva, P.S. A1 - Mansurov, Z.A. A1 - Zhubanova, A.A. T1 - Adsorption of bacterial lipopolysaccharides on carbonized rice husks obtained in the batch experiments JF - Experimental Biology N2 - The scope of this study is the measurement of endotoxin adsorption rate for carbonized rice husk. It showed good adsorption properties for LPS. During the batch experiments, several techniques were used and optimized for improving the material’s adsorption behavior. Also, with the results obtained it was possible to differentiate the materials according to their adsorption capacity and kinetic characteristics. KW - surface modification KW - adsorption KW - carbonized rice husk KW - lipopolysaccharide Y1 - 2014 SN - 1563-0218 N1 - Original in russischer Sprache VL - 60 IS - 1/2 SP - 144 EP - 148 PB - Al-Farabi Kazakh National University CY - Almaty ER -