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Aptamer: A Next Generation Tool for Application in Agricultural Industry for Food Safety 适体:用于农业食品安全的新一代工具

Aptamers (Oxford, England) Pub Date : 2019-01-01 DOI: 10.1007/978-981-13-8836-1_12

G. S. Yadav, A. Parashar, N. Aggarwal

引用次数: 1

Aptamer: A Futuristic Approach in Diagnosis Rivaling Antibodies 适配体:对抗抗体诊断的未来方法

Aptamers (Oxford, England) Pub Date : 2019-01-01 DOI: 10.1007/978-981-13-8836-1_3

Ruchi Mutreja, Pardeep Kumar, A. Semwal, Shubham Jain, Rajat Dhyani, Rupesh Agarwal, U. Chand, Shahnawaz A. Baba, N. Navani, Piyush Kumar

引用次数: 0

Isolation of DNA aptamers for herbicides under varying divalent metal ion concentrations. 不同二价金属离子浓度下除草剂DNA适体的分离。

Aptamers (Oxford, England) Pub Date : 2018-01-01 Epub Date: 2018-12-11

Erienne K TeSelle, Dana A Baum

{"title":"Isolation of DNA aptamers for herbicides under varying divalent metal ion concentrations.","authors":"Erienne K TeSelle, Dana A Baum","doi":"","DOIUrl":"","url":null,"abstract":"Functional nucleic acids, including aptamers and deoxyribozymes, have become important in a variety of applications, particularly sensors. Aptamers are useful for recognition because of their ability to bind to targets with high selectivity and affinity. They can also be paired with deoxyribozymes to form signaling aptazymes. These aptamers and aptazymes have the potential to significantly improve the detection of small molecule pollutants, such as herbicides, in the environment. One challenge when developing aptazymes is that aptamer selection conditions can vary greatly from optimal deoxyribozyme reaction conditions. Aptamer selections commonly mimic physiological conditions, while deoxyribozyme selections are conducted under a wider range of divalent metal ion conditions. Isolating aptamers under conditions that match deoxyribozyme reaction conditions should ease the development of aptazymes and facilitate the activities of both the binding and catalytic components. Therefore, we conducted in vitro selections under different divalent metal ion conditions to identify DNA aptamers for the herbicides atrazine and alachlor. Conditions were chosen based on optimal reaction conditions for commonly-used deoxyribozymes. Each set of conditions yielded aptamers that were unrelated to aptamers identified under other selection conditions. No particular set of conditions stood out as being optimal from initial binding analysis. The best aptamers bound their target with high-micromolar to low-millimolar affinity, similar to the concentrations used during the selection procedures, as well as regulatory guidelines. Our results demonstrate that different metal ion concentrations can achieve the common goal of binding to a particular target, while providing aptamers that function under alternate conditions.","PeriodicalId":93163,"journal":{"name":"Aptamers (Oxford, England)","volume":"2 ","pages":"82-87"},"PeriodicalIF":0.0,"publicationDate":"2018-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/05/22/nihms-1572566.PMC8168439.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"38987266","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Experimental and mathematical evidence that thrombin-binding aptamers form a 1 aptamer:2 protein complex. 凝血酶结合适体形成1适体:2蛋白复合物的实验和数学证据。

Aptamers (Oxford, England) Pub Date : 2018-01-01 Epub Date: 2018-10-10

Kepler S Mears, Daniel L Markus, Oluwadamilare Ogunjimi, Rebecca J Whelan

{"title":"Experimental and mathematical evidence that thrombin-binding aptamers form a 1 aptamer:2 protein complex.","authors":"Kepler S Mears, Daniel L Markus, Oluwadamilare Ogunjimi, Rebecca J Whelan","doi":"","DOIUrl":"","url":null,"abstract":"The thrombin-binding 15mer and 29mer ssDNA aptamers are a widely used model system. Despite their ubiquity, controversies persist regarding the nature of the aptamer-protein interactions. Reported affinities vary widely; the role of metal ions in binding is unclear; the structure of the complex is contested. We interrogated the effects of instrument, buffer, and mathematical model on apparent affinities of thrombin aptamers for their target. Instrumental method had a pronounced effect on affinity constants for the 15mer and marginal effect the apparent affinity of the 29mer. Buffer composition and ionic environment did not have significant effects. Affinity probe capillary electrophoresis experiments revealed distinct peaks from samples of 29mer aptamer and thrombin, supporting the model of a 1 aptamer:2 protein complex. Fits to high quality data with five mathematical models further support this stoichiometry, as the binding of both aptamers was best described by the Hill equation with Hill coefficients > 1. Our results indicate that the instrumental method and mathematical model influence apparent affinity of thrombin aptamers and that both aptamers bind thrombin in a 1 aptamer: 2 protein stoichiometry through an induced fit mechanism.","PeriodicalId":93163,"journal":{"name":"Aptamers (Oxford, England)","volume":"2 ","pages":"64-73"},"PeriodicalIF":0.0,"publicationDate":"2018-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/75/ce/nihms-1708492.PMC8372783.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39330836","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Aptasensor-Possible Design and Strategy for Aptamer Based Sensor 适体传感器——基于适体的传感器可能的设计和策略

Aptamers (Oxford, England) Pub Date : 1900-01-01 DOI: 10.1007/978-981-13-8836-1_9

J. Yadav, Ankush, Khushboo, Mony Thakur, Karuna Yadav, Manisha Sharma, K. Dubey

引用次数: 1