Selection and Characterization of a Novel DNA Aptamer for Label-Free Fluorescence Biosensing of Ochratoxin A. University of Missouri. Burke Lab, Summer 2014 Jesse Hall and the historic columns at Francis Quadrangle.
University of Missouri. Researchspace: Selection of RNA aptamers against the M. tuberculosis EsxG protein using surface plasmon resonance-based SELEX. An RNA Aptamer Targets the PDZ-Binding Motif of the HPV16 E6 Oncoprotein. Abstract: Human papillomavirus 16 (HPV16) is a high-risk DNA tumour virus which is the primary causative agent of cervical cancer.
Cell transformation arises from deregulated expression of the E6 and E7 oncogenes. E6 has been shown to bind a number of cellular proteins, including p53 and proteins containing a PDZ domain. This study reports the first RNA aptamers to E6. These have been employed as molecular tools to further investigate E6-p53 and E6-PDZ interactions. This study is focussed on two aptamers (termed F2 and F4) which induced apoptosis in cells derived from an HPV16-transformed cervical carcinoma. 4TS0 Structure Summary. 4TS2 Structure Summary. 4LX5 Structure Summary. 4LX6 Structure Summary. 2RU7 Structure Summary. An adaptable pentaloop defines a robust neomycin-B RNA aptamer with conditional ligand-bound structures. + Author Affiliations + Author Notes ↵5 Present address: Department of Biochemistry and Cell Biology, Rice University, Houston, TX 77005, USA Abstract Aptamers can be highly specific for their targets, which implies precise molecular recognition between aptamer and target.
However, as small polymers, their structures are more subject to environmental conditions than the more constrained longer RNAs such as those that constitute the ribosome. Received July 5, 2013. Application of DNA Aptamers and Quantum Dots to Lateral Flow Test Strips for Detection of Foodborne Pathogens with Improved Sensitivity versus Colloidal Gold. An RNA aptamer possessing a novel monovalent cation-mediated fold inhibits lysozyme catalysis by inhibiting the binding of long natural substrates. An RNA aptamer possessing a novel monovalent cation-mediated fold inhibits lysozyme catalysis by inhibiting the binding of long natural substrates.
An RNA aptamer possessing a novel monovalent cation-mediated fold inhibits lysozyme catalysis by inhibiting the binding of long natural substrates. RNA Aptamer Probes as Optical Imaging Agents for the Detection of Amyloid Plaques. Optical imaging using multiphoton microscopy and whole body near infrared imaging has become a routine part of biomedical research.
However, optical imaging methods rely on the availability of either small molecule reporters or genetically encoded fluorescent proteins, which are challenging and time consuming to develop. While directly labeled antibodies can also be used as imaging agents, antibodies are species specific, can typically not be tagged with multiple fluorescent reporters without interfering with target binding, and are bioactive, almost always eliciting a biological response and thereby influencing the process that is being studied. We examined the possibility of developing highly specific and sensitive optical imaging agents using aptamer technology.
We developed a fluorescently tagged anti-Aβ RNA aptamer, β55, which binds amyloid plaques in both ex vivo human Alzheimer’s disease brain tissue and in vivo APP/PS1 transgenic mice. Figures. An RNA aptamer possessing a novel monovalent cation-mediated fold inhibits lysozyme catalysis by inhibiting the binding of long natural substrates. Abstract RNA aptamers are being developed as inhibitors of macromolecular and cellular function, diagnostic tools, and potential therapeutics.
Our understanding of the physical nature of this emerging class of nucleic acid–protein complexes is limited; few atomic resolution structures have been reported for aptamers bound to their protein target. Guided by chemical mapping, we systematically minimized an RNA aptamer (Lys1) selected against hen egg white lysozyme. The resultant 59-nucleotide compact aptamer (Lys1.2minE) retains nanomolar binding affinity and the ability to inhibit lysozyme's catalytic activity.
DNA-Aptamers Binding Aminoglycoside Antibiotics. An optimized streptavidin-binding RNA aptamer for purification of ribonucleoprotein complexes identifies novel ARE-binding proteins. An optimized streptavidin-binding RNA aptamer for purification of ribonucleoprotein complexes identifies novel ARE-binding proteins.
4NI7 Structure Summary. 4NI9 Structure Summary. E88, a new cyclic-di-GMP class I riboswitch aptamer from Clostridium tetani, has a similar fold to the prototypical class I riboswitch, Vc2, but differentially binds to c-di-GMP analogs. E88, a new cyclic-di-GMP class I Riboswitch aptamer from Clostridium tetani has a similar fold to the prototypical class I riboswitch, Vc2, but differentially binds to c-di-GMP analogs. 2LUN Structure Summary. 4M4O Structure Summary.
4M6D Structure Summary. G-rich VEGF aptamer with locked and unlocked nucleic acid modifications exhibits a unique G-quadruplex fold. Quantitative selection and parallel characterization of aptamers. 4I7Y Structure Summary. Development of a Multiplex Sandwich Aptamer Microarray for the Detection of VEGF165 and Thrombin.
Open AccessThis article isfreely availablere-usable Article 1 Dipartimento di Scienze del Farmaco, Università di Padova, via Marzolo 5, 35131 Padova, Italy 2 Veneto Nanotech S.C.p.A., Via S.
Crispino 106, I -35129 Padova, Italy * Author to whom correspondence should be addressed. Received: 30 August 2013; in revised form: 20 September 2013 / Accepted: 29 September 2013 / Published: 3 October 2013 (This article belongs to the Special Issue Aptasensors) Abstract: In this work we have developed a multiplex microarray system capable of detecting VEGF165 and thrombin.
3ZH2 Structure Summary. Ligand-induced stabilization of the aptamer terminal helix in the add adenine riboswitch. Structural basis for discriminatory recognition of Plasmodium lactate dehydrogenase by a DNA aptamer. 2M53 Structure Summary. The Inhibition of Stat5 by a Peptide Aptamer Ligand Specific for the DNA Binding Domain Prevents Target Gene Transactivation and the Growth of Breast and Prostate Tumor Cells. Open AccessThis article isfreely availablere-usable Article 1 Georg-Speyer-Haus, Institute for Biomedical Research, Frankfurt am Main 60596, Germany 2 Ganymed Pharmaceuticals AG, Mainz 55131, Germany 3 Boston Children's Hospital, Division of Hematology/Oncology, Boston MA 02115, USA 4 Ludwig Boltzmann Institute for Cancer Research (LBI-CR), Vienna 1090, Austria * Author to whom correspondence should be addressed.
Received: 8 July 2013; in revised form: 14 August 2013 / Accepted: 16 August 2013 / Published: 20 August 2013 Abstract: The signal transducer and activator of transcription Stat5 is transiently activated by growth factor and cytokine signals in normal cells, but its persistent activation has been observed in a wide range of human tumors. Researchspace: UCLA1, a synthetic derivative of a gp120 RNA aptamer, inhibits entry of human immunodeficiency virus type 1 subtype C. Researchers develop RNA aptamers that inhibit HCV replication. Published on June 3, 2013 at 12:46 AM Treatments against hepatitis C virus have only been partially successful.
A major problem is that antivirals generate drug resistance. Now Seong-Wook Lee of Dankook University, Yongin, Republic of Korea and his collaborators have developed agents that bind to the business end of a critical protein, disabling it so successfully that no resistance has arisen. An RNA Aptamer Provides a Novel Approach for the Induction of Apoptosis by Targeting the HPV16 E7 Oncoprotein.
Abstract Background Human papillomavirus 16 (HPV16) is a high-risk DNA tumour virus, which is a major causative agent of cervical cancer.
Cellular transformation is associated with deregulated expression of the E6 and E7 oncogenes. E7 has been shown to bind a number of cellular proteins, including the cell cycle control protein pRb. ValFold 1.0.0 - Program for the Aptamer Truncation Process. My Biosoftware. Periostin-binding DNA Aptamer Inhibits Breast Cancer Growth and Metastasis. A Review of Therapeutic Aptamer Conjugates with Emphasis on New Approaches. 2RSK Structure Summary. The expression platform and the aptamer: cooperativity between Mg2+ and ligand in the SAM-I riboswitch. 4BCU Structure Summary. Ion-dependent conformational switching by a DNA aptamer that induces remyelination in a mouse model of multiple sclerosis.
Anti-prion activity of an RNA aptamer and its structural basis. Aptamer Data from Base Pair Biotechnologies. 4HQU Structure Summary. 4HQX Structure Summary. Researchspace: Inhibition of HIV-1 subtype C by 2’F-RNA aptamers isolated against enveloped pseudovirus. Researchspace: HIV-1 subtype C primary isolates exhibit high sensitivity to an anti-gp120 RNA aptamer. High-resolution structures of two complexes between thrombin and thrombin-binding aptamer shed light on the role of cations in the aptamer inhibitory activity. Cancer_Wisdom : Development and characterization... Development and Optimization of a Thrombin Sandwich Aptamer Microarray. Open AccessThis article isfreely availablere-usable Article 1 Associazione CIVEN, Via delle Industrie 9, I-30175 Venezia-Marghera, Italy 2 Dipartimento di Scienze del Farmaco, University of Padova, Via F.
Marzolo 5, I-35131 Padova, Italy 3 Veneto Nanotech S.C.p.A., Via S. Crispino 106, I -35129 Padova, Italy * Author to whom correspondence should be addressed. Login. Screening of Aptamers on Microfluidic Systems for Clinical Applications. Open AccessThis article isfreely availablere-usable Review 1 Department of Microbiology and Immunology, National Cheng Kung University, Tainan 70101, Taiwan 2 Department of Mechanical Engineering, National Taiwan University, Taipei 10617, Taiwan 3 Department of Power Mechanical Engineering, National Tsing Hua University, Hsinchu 30013, Taiwan * Author to whom correspondence should be addressed. Received: 30 May 2012; in revised form: 2 July 2012 / Accepted: 6 July 2012 / Published: 11 July 2012. Bio-Network: RNA a... Aptamers and the RNA World, Past and Present. + Author Affiliations Correspondence: lgold@somalogic.com Aptamers and the SELEX process were discovered over two decades ago.
These discoveries have spawned a productive academic and commercial industry. The collective results provide insights into biology, past and present, through an in vitro evolutionary exploration of the nature of nucleic acids and their potential roles in ancient life. Aptamers have helped usher in an RNA renaissance. Aptamer Modules as Sensors and Detectors - Accounts of Chemical Research. LIMES Institute, Chemical Biology and Medicinal Chemistry Unit, University of Bonn, Gerhard-Domagk-Strasse 1, 53121 Bonn, Germany Acc.
Chem. Res., 2011, 44 (12), pp 1349–1358 DOI: 10.1021/ar2000293 Publication Date (Web): August 5, 2011 Copyright © 2011 American Chemical Society Biography Michael Famulok studied chemistry at Marburg University until 1986 and completed his Doctorate in 1989. Günter Mayer studied chemistry at the LMU Munich until 1998. An RNA aptamer perturbs heat shock transcription factor activity in Drosophila melanogaster. View All. WIREs Nanomedicine: "Aptamers: turning the spo... Twitter. LSPR biomolecular assay with high sensitivity induced by #aptamer-antigen-antibody sandwich complex. Thrombin–aptamer recognition: a revealed ambiguity. Entropy and Mg2+ control ligand affinity and specificity in the malachite green binding RNA aptamer.
Fluorescence polarization biosensor based on an aptamer enzymatic cleavage protection strategy. Fluorescence protection assay: a novel homogeneous assay platform toward development of aptamer sensors for protein detection. Molecular sensing by the aptamer domain of the FMN riboswitch: a general model for ligand binding by conformational selection.
↵*To whom correspondence should be addressed. Tel: +303 735 2159; Fax: +303 735 1347; Email: robert.batey{at}colorado.edu Received May 9, 2011. Revision received June 20, 2011. Accepted June 21, 2011. Understanding the nature of the free state of riboswitch aptamers is important for illuminating common themes in gene regulation by riboswitches. Measurement of #aptamer–Protein Interactions with Back-Scattering Interferometry.