Article
Biochemistry & Molecular Biology
Heinz Fabian Raber, Dennis Horst Kubiczek, Nicholas Bodenberger, Ann-Kathrin Kissmann, Deena D'souza, Hu Xing, Daniel Mayer, Pengfei Xu, Uwe Knippschild, Barbara Spellerberg, Tanja Weil, Frank Rosenau
Summary: This study highlights the development and characterization of DNA aptamers for fast labeling of human gut bacterium Akkermansia muciniphila and their potential impact on Alzheimer's disease. The results demonstrate the universal applicability of aptamers in modern microbiology techniques, including fluorimetry, confocal laser scanning microscopy, and flow cytometry. The findings suggest that these aptamers may have promising prospects for developing novel assays in clinical microbiology and electronic biosensors.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Chemistry, Analytical
Elena Sanchez-Bascones, Francisco Parra, Maria Jesus Lobo-Casta
Summary: Aptamers, short single-stranded nucleic acid molecules selected through SELEX, show advantages over antibodies in viral detection. However, challenges such as low commercial availability and lack of standardized protocols limit their application. Various approaches for selecting aptamers against viruses and their potential use in optical, electrochemical, and piezoelectric transduction are discussed.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2021)
Article
Nanoscience & Nanotechnology
Jiuxing Li, Jimmy Gu, Hongfen Zhang, Rudi Liu, Wenqing Zhang, Mostafa Mohammed-Elsabagh, Jianrun Xia, Devon Morrison, Sandy Zakaria, Dingran Chang, Amjad Arrabi, Yingfu Li
Summary: A highly specific DNA aptamer for RNase H2 from Clostridium difficile was developed through SELEX, demonstrating its potential for diagnostic tests and drug development.
ACS APPLIED MATERIALS & INTERFACES
(2021)
Article
Multidisciplinary Sciences
Debora Ferreira, Joaquim Barbosa, Diana A. Sousa, Catia Silva, Luis D. R. Melo, Meltem Avci-Adali, Hans P. Wendel, Ligia R. Rodrigues
Summary: This study identified two specific aptamers targeting highly metastatic breast cancer cells, showing potential for clinical applications in the treatment and diagnosis of triple-negative breast cancer.
SCIENTIFIC REPORTS
(2021)
Article
Agriculture, Dairy & Animal Science
Abhishek Parashar, Vanya Bhushan, Nimai Charan Mahanandia, Sudarshan Kumar, Ashok Kumar Mohanty
Summary: The non-systematic evolution of ligands by the exponential enrichment (non-SELEX) method was used to select specific aptamers for detecting BCM-7 peptide in urine samples. The method did not involve aptamer amplification and counterselection, but included a negative selection round. After 5 rounds of selection, a total of 16 aptamers were identified, with sequence ID no. 3 performing the best in detecting BCM-7 peptide. The non-SELEX method is a time-saving process for aptamer selection. These aptamers have potential applications in biosensors for detecting BCM-7 peptide in urine samples of autistic patients.
JOURNAL OF DAIRY SCIENCE
(2022)
Article
Biochemical Research Methods
Rishabh Gandotra, Hung-Bin Wu, Priya Gopinathan, Yi-Cheng Tsai, Feng-Chih Kuo, Mel S. Lee, Gwo-Bin Lee
Summary: Periprosthetic joint infections (PJIs) are serious complications that are difficult to diagnose accurately, but a newly developed HNP 1 aptamer and associated assay may help improve diagnostic accuracy and assess treatment responses for PJI.
Article
Biochemical Research Methods
Linghui Guo, Ying Song, Yanwen Yuan, Jinlei Chen, Haifeng Liang, Fei Guo, Zhi Yu, Pei Liang, Yapei Wang, Pu Wang
Summary: Nucleic acid aptamers were identified through 9 rounds of screening from a length-mixed single-stranded DNA library using SELEX technology, showing improved affinity after the 3rd and 7th rounds, with aptamers from the 7th to 9th rounds demonstrating stronger affinity. Among the 15 selected candidate LDH aptamer sequences, LDH7-1, LDH7-9, LDH8-2, and LDH9-1 exhibited high affinity and specificity for binding to LDH protein.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2021)
Article
Biochemical Research Methods
Guillaume Daufouy, Nathalie Paniel, Thierry Noguer, Lise Barthelmebs
Summary: Anaerobic bacteria, due to their ability to form heat resistant spores, commonly cause food spoilage. This study focuses on the development of a method for the detection and quantification of spore contamination by selecting specific aptamers for Geobacillus stearothermophilus (Gbs) spores. Through multiple selection cycles and high-throughput sequencing analysis, 43 overrepresented sequences were identified, with the A01 aptamer showing the highest enrichment. PCR assay confirmed the affinity and specificity of the top 10 candidates for Gbs spores.
ANALYTICAL BIOCHEMISTRY
(2023)
Article
Chemistry, Analytical
Shuwen Qian, Dingran Chang, Sisi He, Yingfu Li
Summary: This review analyzes SELEX experiments to compare synthetic and natural aptamers, and proposes ideas for improving aptamer performance to address real-world challenges.
ANALYTICA CHIMICA ACTA
(2022)
Article
Food Science & Technology
Nessrin Alomran, Raja Chinnappan, Jaffer Alsolaiss, Nicholas R. Casewell, Mohammed Zourob
Summary: Snakebite is a neglected tropical disease that causes death and disability. This study explores the potential of ssDNA aptamers as toxin-specific inhibitory alternatives to antibodies for treating snakebite. The findings demonstrate that toxin-specific aptamers can exhibit broad in vitro cross-reactivity against different snake venoms and inhibit toxins in relevant models of venom activity. This highlights the potential utility of ssDNA aptamers as novel toxin-inhibiting therapeutics for snakebite envenoming.
Article
Multidisciplinary Sciences
Michael Woolley, Zhilei Chen
Summary: This article introduces an efficient one-pot ligation & elongation method for preparing large synthetic libraries without PCR amplification or any purification steps. Through this method, synthetic libraries with a large number of variants can be rapidly prepared in a short time, accelerating the progress of related experiments.
Article
Biophysics
Anjali Anand, Bandhan Chatterjee, Abhijeet Dhiman, Renu Goel, Eshan Khan, Anita Malhotra, Vishal Santra, Nitin Salvi, M. Khadilkar, Ira Bhatnagar, Amit Kumar, Amit Asthana, Tarun Kumar Sharma
Summary: The study successfully developed a panel of highly affine aptamers from Bungarus caeruleus venom using SELEX technology, which specifically recognizes the B. caeruleus venom and distinguishes it from other snake venoms. The aptamer-based paper device can detect very low concentrations of krait venom and has potential for point-of-care venom detection applications.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Chemistry, Multidisciplinary
Jingjing Tian, Xiaoyun He, Xinyue Lan, Xingxing Liang, Zhaobin Zhong, Longjiao Zhu, Keren Chen, Qiaoying Chang, Wentao Xu
Summary: The rapid, simple and low-cost preparation of DNA micro-nano-architectures remains a challenge in biosensing and therapy. To address this, a nanosized baicalin-compressed-aptamer-nanodrug (bcaND) was constructed using polymerase chain reaction (PCR)-driven DNA micro-nano-flowers. The bcaND showed targeted and synergistic anti-obesity effects by combining the anti-obesity activity of tailored Adipo-8 (tAdi-8) overhang in the PCR amplicon and the lipid-lowering, size compression, and thermogenic activation properties of baicalin.
Article
Biochemistry & Molecular Biology
Shilpi Malhotra, Somesh Gupta, Seema Sood
Summary: Neisseria gonorrhoeae is a common sexually transmitted infection with serious health consequences. Infections are often asymptomatic and the symptoms in men and women differ. Rapid diagnosis and prompt treatment are crucial for control of gonorrhoea. Current diagnostic methods are not suitable for resource-limited settings, so there is a need for a point of care test. Aptamers, specifically one aptamer named E8 19, show potential for the development of a rapid diagnostic test for gonorrhoea.
MOLECULAR BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Naveen K. Singh, Yixun Wang, Connie Wen, Brandon Davis, Xuelin Wang, Kyungsene Lee, Yong Wang
Summary: In this article, a simple and fast method for aptamer enrichment and selection is proposed, based on the diffusion-binding process and immobilized target proteins in a non-fouling porous hydrogel. This method allows for rapid release of low-affinity aptamer candidates, while restricting high-affinity candidates due to their strong binding to the immobilized protein targets. Using this approach, an aptamer pool with strong binding to the protein targets can be obtained.
NATURE BIOTECHNOLOGY
(2023)
Article
Chemistry, Analytical
Gharam Ibrahim Mohammed, Hossam Metwally Nassef, Abdulaziz Saleh Bashammakh, Zainab Mohammad Saigl, Mohammad Soror El-Shahawi
Summary: This study presents a low-cost strategy for fast and precise analysis of timolol maleate using differential pulse anodic stripping voltammetry. The developed method shows good accuracy and applicability in various samples, making it a promising alternative for routine quality control.
INTERNATIONAL JOURNAL OF ENVIRONMENTAL ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Analytical
Maha Mohammed Al-Mejmaj, EkramYousef Danish, Mohammad Soror El-Shahawi
Summary: A low-cost and selective solid phase extractor was developed for complete removal of chromium (VI) species from aqueous media. The method involves the formation of chlorochromate [CrClO3](aq)(-) oxyanion in HCl solution and its complete extraction onto a modified solid phase platform. The method demonstrates good adsorption kinetics and high efficiency in chromium ion removal.
INTERNATIONAL JOURNAL OF ENVIRONMENTAL ANALYTICAL CHEMISTRY
(2022)
Review
Biochemical Research Methods
Xhensila Shkembi, Marketa Svobodova, Vasso Skouridou, Abdulaziz S. Bashammakh, Abdulrahman O. Alyoubi, Ciara K. O'Sullivan
Summary: This review discusses the selection of aptamers against mycotoxins and their incorporation into optical and electrochemical aptasensors. The strategies, advantages, and disadvantages of each approach are outlined, along with the different materials used and immobilization methods employed to achieve the highest sensitivity and selectivity.
ANALYTICAL BIOCHEMISTRY
(2022)
Article
Biophysics
Mayreli Ortiz, Miriam Jauset-Rubio, David Kodr, Anna Simonova, Michal Hocek, Ciara K. O'Sullivan
Summary: This study developed an electrochemical platform for the detection of SNP in the MYH7 gene associated with hypertrophic cardiomyopathies using fingerprick blood samples. The platform uses solid-phase primer elongation and recombinase polymerase amplification to accurately identify SNPs, and only requires a small amount of fingerprick blood for analysis.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Biochemical Research Methods
Xhensila Shkembi, Mary Luz Botero, Vasso Skouridou, Miriam Jauset-Rubio, Marketa Svobodova, Pablo Ballester, Abdulaziz S. Bashammakh, Mohammad S. El-Shahawi, Abdulrahman O. Alyoubi, Ciara K. O. Sullivan
Summary: The illicit use of AAS as performance-enhancing drugs poses a threat to both competitive sports and public health. Current detection methods are limited to laboratory settings and cannot be performed on-site. However, the development of aptamer technology offers the potential for simple and cost-effective on-site analysis. In this study, a label-free colorimetric assay was developed using aptamers to detect the abuse of AAS.
ANALYTICAL BIOCHEMISTRY
(2022)
Article
Chemistry, Analytical
Koena L. Moabelo, Teresa M. Lerga, Miriam Jauset-Rubio, Nicole R. S. Sibuyi, Ciara K. O'Sullivan, Mervin Meyer, Abram M. Madiehe
Summary: This study presents the development of a rapid aptasensor based on gold nanoparticles for the detection of RBP4. The method utilizes the specific binding of aptamers to RBP4 and the color change of gold nanoparticles to achieve rapid detection, with results available within 5 minutes.
Article
Chemistry, Analytical
Miriam Jauset-Rubio, Mayreli Ortiz, Ciara K. O'Sullivan
Summary: Aptamer-based assays and sensors show promise as alternatives to antibodies for their flexibility in assay formats. This study demonstrates the use of a biotin-modified aptamer in enhancing sensitivity and achieving lower detection limits in a colorimetric enzyme-linked oligonucleotide assay and electrochemical detection. The generic nature of this assay format allows for easy and cost-effective application to various aptamers.
Article
Chemistry, Analytical
Daniel Torregrosa, Miriam Jauset-Rubio, Raquel Serrano, Marketa Svobodov, Guillermo Grindlay, Ciara K. O'Sullivan, Juan Mora
Summary: The objective of this study is to evaluate different competitive aptamer assays for the detection of beta-conglutin in flour samples using inductively coupled plasma mass spectrometry (ICP-MS). Two competitive aptamer assay schemes were developed, one using thiolated aptamers on gold nanoparticles and the other using biotinylated aptamers linked to streptavidin-AuNPs. The influence of ICP-MS detection mode on assay performance was explored. The optimized condition achieved a LOD of 2 pM, significantly improving the LOD compared to previous studies.
ANALYTICA CHIMICA ACTA
(2023)
Article
Chemistry, Analytical
Cansu Pinar Yenice, Nassif Chahin, Miriam Jauset-Rubio, Matthew Hall, Phil Biggs, Hans-Peter Dimai, Barbara Obermayer-Pietsch, Mayreli Ortiz, Ciara K. O'Sullivan
Summary: The detection of single nucleotide polymorphisms (SNPs) is increasingly important in various fields. This study presents a semi-automated system for solid-phase electrochemical melting curve analysis (e'MCA) to identify the allele present at a specific SNP site associated with an increased risk of bone fracture and predisposition to osteoporosis.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Mayreli Ortiz, Miriam Jauset-Rubio, Olivia Trummer, Ines Foessl, David Kodr, Josep Lluis Acero, Mary Luz Botero, Phil Biggs, Daniel Lenartowicz, Katerina Trajanoska, Fernando Rivadeneira, Michal Hocek, Barbara Obermayer-Pietsch, Ciara K. O'Sullivan
Summary: A generic platform was developed for cost-effective and rapid electrochemical SNP genotyping from fingerprick blood samples, enabling early diagnosis of osteoporosis. The platform utilizes isothermal solid-phase primer elongation with ferrocene-labeled nucleoside triphosphates, allowing for targeted genotyping of SNPs associated with osteoporosis. The system was validated using real blood samples, with results matching those from Taqman SNP genotyping assays and Sanger sequencing. The platform is highly versatile and has the potential to be deployed in an automated device for targeted SNP genotyping.
ACS CENTRAL SCIENCE
(2023)