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Aptamers

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https://www.readbyqxmd.com/read/29144411/nucleic-acid-aptamers-emerging-applications-in-medical-imaging-nanotechnology-neurosciences-and-drug-delivery
#1
REVIEW
Pascal Röthlisberger, Cécile Gasse, Marcel Hollenstein
Recent progresses in organic chemistry and molecular biology have allowed the emergence of numerous new applications of nucleic acids that markedly deviate from their natural functions. Particularly, DNA and RNA molecules-coined aptamers-can be brought to bind to specific targets with high affinity and selectivity. While aptamers are mainly applied as biosensors, diagnostic agents, tools in proteomics and biotechnology, and as targeted therapeutics, these chemical antibodies slowly begin to be used in other fields...
November 16, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29143447/investigation-of-the-interactions-between-aptamer-and-misfolded-proteins-from-monomer-and-oligomer-to-fibril-by-single-molecule-force-spectroscopy
#2
Yan Zheng, Qing Wang, Xiaohai Yang, Zhiping Li, Lei Gao, Hua Zhang, Wenyan Nie, Xiuhua Geng, Kemin Wang
Increasing knowledge on the understanding interactions of aptamer with misfolded proteins (including monomer, oligomer, and amyloid fibril) is crucial for development of aggregation inhibitors and diagnosis of amyloid diseases. Herein, the interactions of lysozyme monomer-, oligomer-, and amyloid fibril-aptamer were investigated using single-molecule force spectroscopy. The results revealed that the aptamer screened against lysozyme monomer could also bind to oligomer and amyloid fibril, in spite of the recognition at a lower binding probability...
November 16, 2017: Journal of Molecular Recognition: JMR
https://www.readbyqxmd.com/read/29142051/improved-detection-of-her2-by-a-quasi-targeted-proteomics-approach-using-aptamer-peptide-probe-and-liquid-chromatography-tandem-mass-spectrometry
#3
Weixian Zhou, Feifei Xu, Danni Li, Yun Chen
BACKGROUND: Human epidermal growth factor receptor 2 (HER2)-positive breast cancer is a particularly aggressive type of the disease. To date, much evidence has indicated that accurate HER2 status detection is crucial for prognosis and treatment strategy selection. Thus, bioanalytical techniques for early and accurate detection of HER2 have the potential to improve patient care. Currently, the widely used immunohistochemical staining normally has problems with reproducibility and lack of standardization, resulting in poor concordance between laboratories...
November 15, 2017: Clinical Chemistry
https://www.readbyqxmd.com/read/29140474/identification-of-novel-systemic-sclerosis-biomarkers-employing-aptamer-proteomic-analysis
#4
Peter J Wermuth, Sonsoles Piera-Velazquez, Sergio A Jimenez
There is an important unmet need for clinically validated non-invasive biomarkers for SSc diagnosis, assessment of disease activity, extent of internal organ involvement, therapeutic response and prognosis. There is also an unmet need for biomarkers to accurately differentiate primary RP from recent onset RP evolving into SSc. The lack of sensitive and specific biomarkers for SSc and SSc-associated RP is a limitation for the optimal clinical management of these patients. The development of highly sensitive and specific proteomic analysis employing aptamers and the expansion in the number of proteins that can be specifically identified by aptamer proteomics have opened new horizons for biomarker discovery...
November 13, 2017: Rheumatology
https://www.readbyqxmd.com/read/29137923/the-pdgf-pdgfr-pathway-as-a-drug-target
#5
REVIEW
Natalia Papadopoulos, Johan Lennartsson
Platelet-derived growth factors (PDGF) promotes cell proliferation, survival and migration, primarily of cells of mesenchymal origin. Dysfunction of PDGF signaling has been observed in a wide array of pathological conditions, such as cancer, fibrosis, neurological conditions and atherosclerosis. Reported abnormalities of the PDGF pathway include overexpression or amplification of PDGF receptors (PDGFRs), gain of function point mutations or activating chromosomal translocations. Current development of therapeutic drugs often aims at producing compounds that specifically target interaction between PDGFs and their receptors by specific DNA aptamers and ligand traps, or downregulate PDGFRs with blocking antibodies, or inhibit tyrosine kinase activity of PDGFRs with small molecules...
November 11, 2017: Molecular Aspects of Medicine
https://www.readbyqxmd.com/read/29137703/fabrication-of-a-novel-aptasensor-based-on-three-dimensional-reduced-graphene-oxide-polyaniline-gold-nanoparticle-composite-as-a-novel-platform-for-high-sensitive-and-specific-cocaine-detection
#6
Pegah Hashemi, Hasan Bagheri, Abbas Afkhami, Yalda Hosseinzadeh Ardakani, Tayyebeh Madrakian
In the present research, we have developed a novel label free aptasensor based on screen printed carbon electrode (SPCE) modified with three-dimensional magnetic reduced graphene oxide(3D-MRGO)/polyaniline(PA)/gold nanoparticle(AuNP) nanocomposite for impedimetric determination of cocaine. To achieve this goal, a specific thiolated cocaine aptamer was immobilized onto the surface of synthesized nanocomposite. The signaling mechanism of the proposed aptasensor was based on increase in the [Fe(CN)6](3-/4-) charge transfer resistance (RCT) as an electrochemical probe in the presence of target analyte...
December 15, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/29137182/current-and-prospective-protein-biomarkers-of-lung-cancer
#7
REVIEW
Tatiana N Zamay, Galina S Zamay, Olga S Kolovskaya, Ruslan A Zukov, Marina M Petrova, Ana Gargaun, Maxim V Berezovski, Anna S Kichkailo
Lung cancer is a malignant lung tumor with various histological variants that arise from different cell types, such as bronchial epithelium, bronchioles, alveoli, or bronchial mucous glands. The clinical course and treatment efficacy of lung cancer depends on the histological variant of the tumor. Therefore, accurate identification of the histological type of cancer and respective protein biomarkers is crucial for adequate therapy. Due to the great diversity in the molecular-biological features of lung cancer histological types, detection is impossible without knowledge of the nature and origin of malignant cells, which release certain protein biomarkers into the bloodstream...
November 13, 2017: Cancers
https://www.readbyqxmd.com/read/29136911/one-step-detection-for-two-serological-biomarker-species-to-improve-the-diagnostic-accuracy-of-hepatocellular-carcinoma
#8
Tao Gao, Jun Zhi, Chaoli Mu, Shiyu Gu, Jing Xiao, Jie Yang, Zhaoxia Wang, Yang Xiang
At present, the accuracy of clinical hepatocellular carcinoma (HCC) diagnosis needs to be further improved. In this work, two kinds of serological biomarker species, microRNA and protein biomarker, have been detected simultaneously to identify HCC. Herein, a dual-aptamer hairpin DNA oligonucleotide is designed as the electrochemical sensing probe (ESP) to achieve this goal. The hairpin-structured DNA probe consists microRNA-16 (miR-16) complementary sequence and alpha fetoprotein (AFP) aptamer sequence, so it can both capture miR-16 and AFP...
February 1, 2018: Talanta
https://www.readbyqxmd.com/read/29136862/stimulus-response-click-chemistry-based-aptamer-functionalized-mesoporous-silica-nanoparticles-for-fluorescence-detection-of-thrombin
#9
Zhonghui Chen, Mi Sun, Fang Luo, Kefeng Xu, Zhenyu Lin, Lan Zhang
In most aptamer based stimulus response mesoporous silica nanoparticles (MSN) systems, the aptamer is modified on the MSN via electrostatic interaction, however leakage might exist after a certain time in the system and hence the stability is not good. In this study, the pores of MSN were capped by aptamer through click chemistry reaction for the first time and the system was then employed to develop a fluorescence biosensor. Specifically, the aptamer of the target (thrombin in this study) was hybridized with its complementary DNA (which was initially modified with alkyne at the terminal) to form a double strand DNA (dsDNA) firstly, and then this dsDNA was modified on N3 modified MSN via Cu(I) catalyzed alkyne-azide cycloaddition reaction...
February 1, 2018: Talanta
https://www.readbyqxmd.com/read/29136823/use-of-a-small-molecule-as-an-initiator-for-interchain-staudinger-reaction-a-new-atp-sensing-platform-using-product-fluorescence
#10
Huan Yu, Jing Zheng, Sheng Yang, Abdullah M Asiri, Khalid A Alamry, Mingtai Sun, Kui Zhang, Suhua Wang, Ronghua Yang
We demonstrated that a small molecule induced interchain Staudinger reaction can be employed for highly selective detection of adenosine triphosphate (ATP), an important energy-storage biomolecule. A designed ATP split aptamer (A1) was first functionalized with a weakly fluorescent coumarin derivative due to an azide group (azido-coumarin). The second DNA strand (A2) was covalently linked with triphenylphosphine, which could selectively and efficiently reduce azido to amino group through the Staudinger reaction...
February 1, 2018: Talanta
https://www.readbyqxmd.com/read/29136589/nucleic-acid-aptamer-based-methods-for-diagnosis-of-infections
#11
REVIEW
Ki Soo Park
Infectious diseases are a serious global problem, which not only take an enormous human toll but also incur tremendous economic losses. In combating infectious diseases, rapid and accurate diagnostic tests are required for pathogen identification at the point of care (POC). In this review, investigations of diagnostic strategies for infectious diseases that are based on aptamers, especially nucleic acid aptamers, oligonucleotides that have high affinities and specificities toward their targets, are described...
November 8, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/29135251/micellar-thrombin-binding-aptamers-reversible-nanoscale-anticoagulants
#12
Alexander Roloff, Andrea S Carlini, Cassandra E Callmann, Nathan C Gianneschi
Aptamers are nucleic acid-based ligands that exhibit promising features including specific and reversible target binding and inhibition. Aptamers can function as anticoagulants if they are directed against enzymes of the coagulation cascade. However, they typically suffer from nucleolytic digestion and fast clearance from the bloodstream. We present thrombin-binding aptamer amphiphiles that self-assemble into nanoscale polymeric micelles with a densely functionalized aptamer-displaying corona. We show that these micellar aptamers retain their native secondary structure in a crowded environment and are stabilized against degradation by nucleases in human serum...
November 14, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/29135009/bacterial-species-identifiable-magnetic-nanosystems-for-early-sepsis-diagnosis-and-extracorporeal-photodynamic-blood-disinfection
#13
Jianhao Wang, Hao Wu, Yanmei Yang, Rong Yan, Yuan Zhao, Yanhao Wang, Aihong Chen, Shilong Shao, Pengju Jiang, Yong-Qiang Li
Despite the numerous bacteria detection and elimination techniques available nowadays, sensitive diagnosis and treatment of sepsis (caused by the presence of bacteria in the bloodstream), especially at the early stage, remain big challenges. Here we report a nanosystem for early sepsis diagnosis and complete extracorporeal blood disinfection, based on iron oxide magnetic nanoparticles functionalized with chlorin e6 molecules and bacterial species-identifiable aptamers (Fe3O4-Ce6-Apt). We demonstrate that the Fe3O4-Ce6-Apt nanosystem can achieve simultaneous blood bacterial species identification and enrichment in a single step, and the enriched bacteria can be easily detected with the assistance of fluorescence microscopic determination...
November 14, 2017: Nanoscale
https://www.readbyqxmd.com/read/29133961/triplex-quadruplex-structural-scaffold-a-new-binding-structure-of-aptamer
#14
Tao Bing, Wei Zheng, Xin Zhang, Luyao Shen, Xiangjun Liu, Fuyi Wang, Jie Cui, Zehui Cao, Dihua Shangguan
Apart from the canonical Watson-Crick duplex, nucleic acids can often form other structures, e.g. G-quadruplex and triplex. These structures give nucleic acid additional functions besides coding for genetic information. Aptamers are one type of functional nucleic acids that bind to specific targets with high selectivity and affinity by folding into special tertiary structures. Despite the fact that numerous aptamers have been reported, only a few different types of aptamer structures are identified. Here we report a novel triplex-quadruplex hybrid scaffold formed by a codeine binding aptamer (CBA)...
November 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29132385/aptamer-selection-and-applications-for-breast-cancer-diagnostics-and-therapy
#15
REVIEW
Mei Liu, Xiaocheng Yu, Zhu Chen, Tong Yang, Dandan Yang, Qianqian Liu, Keke Du, Bo Li, Zhifei Wang, Song Li, Yan Deng, Nongyue He
Aptamers are short non-coding, single-stranded oligonucleotides (RNA or DNA) developed through Systematic Evolution of Ligands by Exponential enrichment (SELEX) in vitro. Similar to antibodies, aptamers can bind to specific targets with high affinity, and are considered promising therapeutic agents as they have several advantages over antibodies, including high specificity, stability, and non-immunogenicity. Furthermore, aptamers can be produced at a low cost and easily modified, and are, therefore, called "chemical antibodies"...
November 13, 2017: Journal of Nanobiotechnology
https://www.readbyqxmd.com/read/29132052/aptamer-functionalized-capacitance-sensors-for-real-time-monitoring-of-bacterial-growth-and-antibiotic-susceptibility
#16
Namgyeong Jo, Bongjun Kim, Sun-Mi Lee, Jeseung Oh, In Ho Park, Kook Jin Lim, Jeon-Soo Shin, Kyung-Hwa Yoo
To prevent spread of infection and antibiotic resistance, fast and accurate diagnosis of bacterial infection and subsequent administration of antimicrobial agents are important. However, conventional methods for bacterial detection and antibiotic susceptibility testing (AST) require more than two days, leading to delays that have contributed to an increase in antibiotic-resistant bacteria. Here, we report an aptamer-functionalized capacitance sensor array that can monitor bacterial growth and antibiotic susceptibility in real-time...
November 10, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/29132030/capture-and-detection-of-staphylococcus-aureus-with-dual-labeled-aptamers-to-cell-surface-components
#17
Shylaja Ramlal, Bhairab Mondal, Padma Sudharani Lavu, Bhavanashri N, Joseph Kingston
In the present study, a high throughput whole cell SELEX method has been applied successfully in selecting specific aptamers against whole cells of Staphylococcus aureus, a potent food poisoning bacterium. A total ten rounds of SELEX and three rounds of intermittent counter SELEX, was performed to obtain specific aptamers. Obtained oligonucleotide pool were cloned, sequenced and then grouped into different families based on their primary sequence homology and secondary structure similarity. FITC labeled sequences from different families were selected for further characterization via flow cytometry analysis...
November 7, 2017: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/29131594/primary-amine-clustered-dna-aptamer-for-dna-protein-conjugation-catalyzed-by-microbial-transglutaminase
#18
Mari Takahara, Rie Wakabayashi, Kosuke Minamihata, Masahiro Goto, Noriho Kamiya
DNA-protein conjugates are promising biomolecules for use in areas ranging from therapeutics to analysis because of the dual functionalities of DNA and protein. Conjugation requires site-specific and efficient covalent bond formation without impairing the activity of both biomolecules. Herein, we have focused on the use of a microbial transglutaminase (MTG) that catalyzes the cross-linking reaction between a glutamine residue and a primary amine. In a model bioconjugation, a highly MTG-reactive Gln (Q)-donor peptide (FYPL<u>Q</u>MRG, FQ) was fused to enhanced green fluorescent protein (FQ-EGFP) and a primary amine-clustered DNA aptamer was enzymatically synthesized as a novel acyl-acceptor substrate of MTG, whose combination leads to efficient and convenient preparation of DNA-protein conjugates with high purity...
November 13, 2017: Bioconjugate Chemistry
https://www.readbyqxmd.com/read/29131585/antibody-templated-assembly-of-an-rna-mimic-of-green-fluorescent-protein
#19
Alessandro Bertucci, Alessandro Porchetta, Francesco Ricci
One of the most intriguing ways through which Nature achieves regulation of biological pathways encompasses the coordination of non-covalent interactions that bring biomolecules to be co-localized in a designated restricted space. This nano-confinement leads to a drastic increase in the effective local concentration of the species involved, which ultimately triggers reactions that would otherwise not occur at the low concentrations found in cells. Inspired by this mechanism, we have explored the possibility of using antibodies as bivalent biomolecular substrates for the templated assembly of a functional RNA structure...
November 13, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29130305/tuning-the-sensing-performance-of-multilayer-plasmonic-core-satellite-assemblies-for-rapid-detection-of-targets-from-lysed-cells
#20
Nguyen Hoang Le, Bach Kim Nguyen, Gang Ye, Chun Peng, Jennifer I L Chen
Optical sensors based on discrete plasmonic nanostructures are invaluable for probing biomolecular interactions when applied as plasmonic rulers or reconfigurable multi-nanoparticle assemblies. However, their adaptation as a versatile sensing platform is limited by the research-grade instrumentation required for single-nanostructure imaging and/or spectroscopy and complex data fitting and analysis. Additionally, the dynamic range is often too narrow for the quantitative analysis of targets of interest in biodiagnostics, food safety or environmental monitoring...
November 13, 2017: ACS Sensors
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