Kloramfenikol Aptameri Fonksiyonlandırılmış DNA Hidrojellerinin Sentez Koşullarının Optimizasyonu

Year 2023, Volume: 9 Issue: 1, 145 - 157, 06.03.2023

Gülnur Camızcı Aran , Ceren Bayraç

https://doi.org/10.28979/jarnas.1166311

Cited By: 1

Abstract

Aptamer fonksiyonlandırılmış DNA hidrojelleri yüksek özgünlük, stabilite ve esneklik gibi özellikleri nedeniyle birçok alanda kullanılmaktadır. Bu çalışma kapsamında kloramfenikole özgü aptamer dizisi fonksiyonlandırılmış DNA hidrojeli sentezi gerçekleştirilmiş ve hidrojel stabilitesi için önemli parametreler optimize edilmiştir. Sentez için 5’ uçları akridit modifiyeli kloramfenikole özgü aptamer ile ona kısmen eşlenik DNA ipliği polimer yapıya yan dal olarak katılmış ve eşlenik bölgelerin hibridizasyonu ile bir arada tutularak hidrojel sentezi gerçekleştirilmiştir. Optimize edilmiş parametreler akridit modifiyeli DNA dizilerinin konsantrasyonları, akrilamid yüzdesi, kloramfenikol aptameri ve DNA iplik 1 içeren lineer polimer çözeltilerin molar oranlarıdır. Ayrıca, reaksiyon sıcaklığı ve eşlenik bölgenin uzunluğunun jel stabilitesine etkisi değerlendirilmiştir. Sonuç olarak, DNA hidrojel stabilitesi için %60’lık lineer poliakrilamid-DNA konjugasyonundan, %40 akrilamid stok çözeltisi kullanılarak 1:1 molar oranda karıştırılan aptamer ve DNA iplik çözeltileri ile 25°C’de aptamer fonksiyonlandırılmış DNA hidrojeli sentezi tamamlanmıştır. Bunlara ek olarak, aptamer dizisi ile DNA iplik arasındaki eşlenik bölgenin uzunluğunun stabiliteyi artırdığı sonucuna varılmıştır.

Keywords

Aptamer, DNA hidrojel, kloramfenikol

Supporting Institution

Türkiye Bilimsel ve Teknolojik Araştırma Kurumu (TÜBİTAK)

Project Number

218Z125

Thanks

Bu çalışma Türkiye Bilimsel ve Teknolojik Araştırma Kurumu (TÜBİTAK) tarafından desteklenmiştir. (Proje No: 218Z125).

Optimization of Synthesis Conditions of Chloramphenicol AptamerFunctionalized DNA Hydrogels

Abstract

Aptamer-functionalized DNA hydrogels are used in many fields due to their high specificity, stability and flexibility. In this study, the synthesis of chloramphenicol-specific aptamer sequence functionalized DNA hydrogel was performed and certain parameters for hydrogel stability were optimized. For the synthesis, the 5' ends of the acrydite modified chloramphenicol-specific aptamer and the partially conjugated DNA strand were attached to the polymer structure as a side branch and held together by hybridization of the complementary regions, hydrogel synthesis was carried out. The optimized parameters were the concentrations of acrydite-modified DNA sequences, the percentage of acrylamide, the molar ratios of linear polymer solutions containing chloramphenicol aptamer and DNA strand 1. In addition, the effects of reaction temperature and the length of the complementary region on gel stability were evaluated. As a result, aptamer-functionalized DNA hydrogel synthesis was completed at 25°C with aptamer and
DNA strand solutions mixed in 1:1 molar ratio using 40% acrylamide stock solution from 60% linear polyacrylamideDNA conjugation for DNA hydrogel stability. In addition, it was concluded that the length of the conjugate region between the aptamer sequence and the DNA strand increases stability.

Keywords

Aptamer, DNA hydrogel, chloramphenicol

Project Number

218Z125

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