Browsing by Author "Toren, P."
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Item Open Access Label-free optical biodetection of pathogen virulence factors in complex media using microtoroids with multifunctional surface functionality(American Chemical Society, 2018) Toren, P.; Ozgur E.; Bayındır, MehmetEarly detection of pathogens or their virulence factors in complex media has a key role in early diagnosis and treatment of many diseases. Nanomolar and selective detection of Exotoxin A, which is a virulence factor secreted from Pseudomonas aeruginosa in the sputum of Cystic Fibrosis (CF) patients, can pave the way for early diagnosis of P. aeruginosa infections. In this study, we conducted a preliminary study to demonstrate the feasibility of optical biodetection of P. aeruginosa Exotoxin A in a diluted artificial sputum mimicking the CF respiratory environment. Our surface engineering approach provides an effective biointerface enabling highly selective detection of the Exotoxin A molecules in the complex media using monoclonal anti-Exotoxin A functionalized microtoroids. The highly resilient microtoroid surface toward other constituents of the sputum provides Exotoxin A detection ability in the complex media by reproducible measurements. In this study, the limit-of-detection of Exotoxin A in the complex media is calculated as 2.45 nM.Item Open Access Oligonucleotide-based label-free detection with optical microresonators: strategies and challenges(Royal Society of Chemistry, 2016) Toren, P.; Ozgur E.; Bayındır, MehmetThis review targets diversified oligonucleotide-based biodetection techniques, focusing on the use of microresonators of whispering gallery mode (WGM) type as optical biosensors mostly integrated with lab-on-a-chip systems. On-chip and microfluidics combined devices along with optical microresonators provide rapid, robust, reproducible and multiplexed biodetection abilities in considerably small volumes. We present a detailed overview of the studies conducted so far, including biodetection of various oligonucleotide biomarkers as well as deoxyribonucleic acids (DNAs), ribonucleic acids (RNAs) and proteins. We particularly advert to chemical surface modifications for specific and selective biosensing.Item Open Access Phosphonate based organosilane modification of a simultaneously protein resistant and bioconjugable silica surface(Royal Society of Chemistry, 2014) Ozgur E.; Toren, P.; Bayındır, MehmetA facile method to coat silica surfaces with THPMP is introduced, forming simultaneously a protein resistant and bioconjugable surface. The coating is experimentally identified and its anti-fouling and bioconjugable characteristics are demonstrated.Item Open Access Real-time and selective detection of single nucleotide DNA mutations using surface engineered microtoroids(American Chemical Society, 2015) Toren, P.; Ozgur E.; Bayındır, MehmetMictoroids, as optical biosensors, can provide beneficial biosensing platforms to understand DNA alterations. These alterations could have significant clinical importance, such as the case of Pseudomonas aeruginosa, which is a commonly found pathogen in Cystic Fibrosis (CF) patients-causing poor prognosis by undergoing mutations during disease steps, gaining virulence and drug resistance. To provide a preliminary diagnosis platform for early-stage bacterial mutations, biosensing with a selective microtoroid surface was suggested. For this purpose, microtoroids with high quality factors were fabricated. The microtoroid surfaces were coated with (3-aminopropyl) triethoxysilane (APTES)/trimethylmethoxysilane (TMMS) mixed silane solution followed by EDC/NHS chemistry for covalent conjugation of DNA probes. Ethanolamine capping was applied to avoid unspecific interactions. The confocal studies confirmed homogeneous functionalization of the microtoroid surface. The DNA hybridization was demonstrated to be affected from the probe length. The optical biosensors showed a significant response (∼22 pm) to the complementary strand of the mutated type P. aeruginosa DNA, while showing substantially low and late response (∼5 pm) to the point mismatch strand. The limit of detection (LOD) for the complementary strand was calculated as 2.32 nM. No significant response was obtained for the noncomplementary strand. The results showed the microtoroids possessed selective surfaces in terms of distinguishing DNA alterations.Item Open Access Surface enhanced Raman spectroscopy of unilamellar liposomes loaded with silver nanoparticles(American Scientific Publishers, 2017) Toren, P.; Tekinay, T.; Ayas S.; Dana, A.; Tunc, I.Imaging organic molecules using surface-enhanced Raman spectroscopy (SERS) has drawn attention due to its non-invasive nature and label-free approach. The SERS approach can be used in tracking organic molecules and monitoring unique Raman spectra of the organic molecules bound to metal nanoparticles (NPs). We prepared unilamellar liposomes composed of 1,2-dipalmitoylsn-glycero-3-phosphocholine (DPPC) molecules with a diameter of around 100 nm. Electrostatic binding of silver (Ag) NPs on the surface of the unilamellar liposomes was achieved by the reduction of silver nitrate (AgNO3) which produces SERS active silver colloidal particles on the unilamellar liposome surfaces. Highly enhanced electromagnetic fields localized around neighbouring Ag NPs provide hot-spot construction around the liposomes, due to the spatial distribution of SERS enhancement in the unilamellar liposomes. It was observed that the signals fluctuate on a second time scale, presumably due to conformational change of DPPC chain and local Brownian motion of liposomal spheres.