Article
Chemistry, Multidisciplinary
Hermann Neitz, Claudia Hoebartner
Summary: We report the application of a fluorescent nucleoside called ToldU as a photoresponsive crosslinker in three different DNA architectures, resulting in enhanced fluorescence emission. The fluorogenic ToldU crosslinking reaction allows for the assembly of DNA polymers through a hybridization chain reaction, enabling the concentration-dependent detection of a specific DNA sequence. A new photoinduced fluorogenic interstrand crosslinking reaction is demonstrated in three different DNA architectures using the hydrophobic tolane-containing nucleoside, ToldU.
CHEMICAL COMMUNICATIONS
(2023)
Article
Chemistry, Multidisciplinary
Jasper W. Dittmar, Michelle H. Teplensky, Michael Evangelopoulos, Lei Qin, Bin Zhang, Chad A. Mirkin
Summary: The stability of the liposome core is crucial for the effectiveness of liposome-based drugs. This study explores the impact of anchor chemistry on immunotherapeutic function and demonstrates that a stable anchor can enhance immune stimulation and improve therapeutic efficacy.
Article
Biophysics
Xinxin Ke, Yangjing Ou, Yu Lin, Tao Hu
Summary: This study presents the first CRISPR/Cas12a-based chemiluminescence enhancement biosensor using HCR amplifying strategy for nucleic acids detection, showing high sensitivity and specificity, low-cost, and visual imaging advantages. The platform exhibits excellent sensitivity in detecting synthetic DNA targets, and achieves superior sensitivity and specificity in the practical application with HPV clinical samples.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Biophysics
Xinxin Ke, Yangjing Ou, Yu Lin, Tao Hu
Summary: In this study, a chemiluminescence enhancement biosensor based on CRISPR/Cas12a with HCR amplifying strategy was developed for nucleic acids detection. The biosensor showed high sensitivity and specificity, low cost, and visual imaging. The detection limit for synthetic DNA target was 3 pM. The biosensor also exhibited excellent sensitivity and specificity when applied to HPV clinical samples.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Biochemistry & Molecular Biology
Ivana Domljanovic, Alessandro Ianiro, Curzio Ruegg, Michael Mayer, Maria Taskova
Summary: This study investigated the strand exchange kinetics of different nucleic acid sequences in the presence of various molecular additives and macromolecular crowders, revealing the significant impact of these factors on the displacement kinetics of duplex strands.
Article
Chemistry, Multidisciplinary
Odelia Tepper, Hongchao Zheng, Daniel H. Appella, Eylon Yavin
Summary: The cpFIT-PNA probes are highly emissive RNA sensors with improved mismatch discrimination compared to FIT-PNAs.
CHEMICAL COMMUNICATIONS
(2021)
Article
Biophysics
Jingjing Zhang, Chunyuan Song, Yunfeng Zhu, Hongyu Gan, Xinyue Fang, Qian Peng, Jingrong Xiong, Chen Dong, Caiqin Han, Lianhui Wang
Summary: In this study, a novel one-pot cascade signal amplification strategy integrating the CRISPR/Cas13a system and branched hybridization chain reaction (bHCR) was proposed for highly sensitive and specific SERS assay of disease-related nucleic acids. The method showed low detection limit, good linear calibration curve, and demonstrated good practicality in clinical samples.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Chemistry, Analytical
Dongliu Xiang, Hui Wen, Hongmei Fang, Yuan Zhou, Lei Luo, Qing Wang, Xueting Yan, Jin Huang, Jianbo Liu, Xiaohai Yang, Kemin Wang
Summary: A versatile detection technique was developed using magnetic beads, barcoded DNA strands released from gold nanoparticles, and exonuclease III cyclic cleavage-assisted signal amplification. This technique was integrated into a microfluidic chip with multiple chambers and the mixing was achieved by acoustic vibration from a portable sonic toothbrush. The detection limits of three different targets were successfully demonstrated, and this platform is expected to be developed into an automatic sample-to-answer device.
ANALYTICAL CHEMISTRY
(2023)
Article
Biochemical Research Methods
Elliot A. Hershberg, Conor K. Camplisson, Jennie L. Close, Sahar Attar, Ryan Chern, Yuzhen Liu, Shreeram Akilesh, Philip R. Nicovich, Brian J. Beliveau
Summary: Paint server and homology optimization pipeline (PaintSHOP) is an interactive platform designed for oligo FISH experiments, enabling researchers to efficiently identify probes, generate library design files, and democratize and standardize the process of designing complex probe sets for the oligo FISH community.
Review
Chemistry, Multidisciplinary
Agnieszka Tomaszewska-Antczak, Piotr Guga
Summary: This review summarizes the synthetic efforts on acyclic analogs of nucleic acids and evaluates their synthetic methods, thermal stability, and applications in biological and biochemical research as well as nanotechnology.
APPLIED SCIENCES-BASEL
(2021)
Article
Chemistry, Multidisciplinary
Juraj Konc, Libby Brown, Daniel R. Whiten, Yukun Zuo, Peter Ravn, David Klenerman, Goncalo J. L. Bernardes
Summary: A new bioconjugation platform has been developed for the preparation of DNA-antibody bioconjugates using a simple reagent, resulting in improved homogeneity of the prepared conjugates suitable for fluorescence or super-resolution microscopy cell imaging experiments.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Article
Multidisciplinary Sciences
Serife Ustuner, Mark A. Lindsay, Pedro Estrela
Summary: A promising electrochemical detection method has been developed for detecting miRNAs in diluted serum with a detection limit of 0.38 fM. The accuracy and reliability of the sensors are further improved by using locked nucleic acids-modified magnetic beads. Interferences from other nucleotides or biomolecules in the sample are eliminated effectively in this approach.
SCIENTIFIC REPORTS
(2021)
Article
Chemistry, Multidisciplinary
Sitao Xie, Zhimin Wang, Ting Fu, Liyan Zheng, Hui Wu, Lei He, Huidong Huang, Cai Yang, Ruowen Wang, Xu Qian, Liping Qiu, Weihong Tan
Summary: Aptamers are a promising tool in cancer-targeted theranostics, but their in vivo stability has been a critical issue. To address this, researchers developed an environment-responsive stabilization strategy for enhancing the stability of aptamers in the tumor microenvironment.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2022)
Article
Chemistry, Physical
Aderik Voorspoels, Jocelyne Vreede, Enrico Carlon
Summary: All-atom simulations are accurate but computationally expensive for studying nucleic acids. The RBB-NA algorithm controls rigid base parameters and allows for exploration of the high deformation regime, providing insights into the structure and dynamics of locally strongly deformed nucleic acids.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION
(2023)
Article
Chemistry, Multidisciplinary
Brendan R. Deal, Rong Ma, Steven Narum, Hiroaki Ogasawara, Yuxin Duan, James T. Kindt, Khalid Salaita
Summary: Detecting genetic mutations, such as single nucleotide polymorphisms (SNPs), is essential for disease diagnostics but can be difficult using homomultivalent DNA hybridization-based approaches. Now, heteromultivalent hybridization is used to fine-tune binding specificity for the detection of one or two SNPs in a single target, enabling straightforward discrimination between adjacent and distant mutations and different viral strains.
Article
Chemistry, Medicinal
Caroline W. Karanja, Kofi S. Yeboah, Herman O. Sintim
Summary: Immune cells respond to bacterial and host-derived molecules to produce an immune response, while some pathogens can weaken host response through specific enzymes. Researchers have identified compounds that inhibit MTB CDN PDE, but there remains a lack of such specific inhibitors.
ACS INFECTIOUS DISEASES
(2021)
Article
Biochemistry & Molecular Biology
George A. Naclerio, Nader S. Abutaleb, Marwa Alhashimi, Mohamed N. Seleem, Herman O. Sintim
Summary: New N-(1,3,4-oxadiazol-2-yl)benzamides (HSGN-237 and HSGN-238) have been discovered as highly potent compounds against Neisseria gonorrhoeae, as well as clinically important Gram-positive bacteria, with outstanding tolerability to human cell lines.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Chemistry, Medicinal
George A. Naclerio, Herman O. Sintim
Summary: HP-29, a newly developed halogenated phenazine, exhibits potent antimicrobial activity with a remarkable minimum inhibitory concentration of 0.08 mu M against methicillin-resistant Staphylococcus aureus (MRSA). In addition to eradicating preformed biofilm through iron starvation, HP-29 is also non-toxic to mammalian cell lines and efficacious in wound infection models.
JOURNAL OF MEDICINAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Modi Wang, Riddhi Chaudhuri, Wilson W. S. Ong, Herman O. Sintim
Summary: This study investigated the promotion of COX-2 expression by bacterial derived cyclic dinucleotides, revealing that c-di-GMP, but not c-di-AMP or 2',3'-cGAMP, can induce COX-2 expression. The research showed that CDNs affect inflammation through proinflammatory pathways, which is independent of the STING-TBK1-IRF3 axis.
ACS CHEMICAL BIOLOGY
(2021)
Article
Microbiology
Kenneth Onyedibe, Samira Elmanfi, Uma K. Aryal, Eija Kononen, Ulvi Kahraman Gursoy, Herman O. Sintim
Summary: This study reveals that cyclic dinucleotides (CDNs) derived from bacteria not only regulate cytokine production via STING, but also broadly affect many critical processes in human cells, including interferon signaling pathways and other not fully characterized pathways. This highlights the importance of understanding the response of human gingival fibroblasts to bacterial-derived CDNs.
JOURNAL OF ORAL MICROBIOLOGY
(2022)
Article
Chemistry, Medicinal
George A. Naclerio, Kenneth Onyedibe, Caroline W. Karanja, Uma K. Aryal, Herman O. Sintim
Summary: Drug-resistant bacterial pathogens continue to cause high mortality rates, necessitating new chemical modalities for treatment. Halogenated N-(1,3,4-oxadiazol-2-yl)benzamides are an interesting class of antimicrobial agents with multiple modes of action and low propensity for MRSA resistance development.
ACS INFECTIOUS DISEASES
(2022)
Article
Chemistry, Medicinal
Neetu Dayal, Kenneth I. Onyedibe, Whitney M. Gribble, Herman O. Sintim
Summary: According to the National Institute of Health (NIH), the majority of human microbial infections are caused by bacterial biofilms and are resistant to FDA approved drugs. Therefore, there is a need for the development of antibiotics that can target biofilms. Researchers have synthesized pentafluorosulfanyl (SF5)-containing compounds and expanded the compounds in the library to discover potential therapeutics. The results showed that these compounds can effectively kill bacteria in biofilms without toxic effects on human cells.
EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Article
Chemistry, Medicinal
Kenneth I. Onyedibe, Ansley M. Nemeth, Neetu Dayal, Richard D. Smith, Jones Lamptey, Robert K. Ernst, Roberta J. Melander, Christian Melander, Herman O. Sintim
Summary: Researchers have discovered a compound called HSD1624 that enhances the effectiveness of the antibiotic colistin against resistant bacteria in multiple strains.
ACS INFECTIOUS DISEASES
(2023)
Editorial Material
Chemistry, Multidisciplinary
Christopher Vennard, Herman O. Sintim
ACS CENTRAL SCIENCE
(2022)
Article
Oncology
Ujjwol Khatri, Neetu Dayal, Xueqing Hu, Elizabeth Larocque, Nimishetti Naganna, Tao Shen, Xuan Liu, Frederick W. Holtsberg, M. Javad Aman, Herman O. Sintim, Jie Wu
Summary: Selpercatinib and pralsetinib are approved RET kinase inhibitors for treating RET-altered cancers, but resistance mutations have been identified. This study investigates the sensitivities of different G810 mutants to these inhibitors and identifies new compounds for inhibiting resistant mutations.
MOLECULAR CANCER THERAPEUTICS
(2023)
Editorial Material
Chemistry, Medicinal
Christopher Vennard, Temitope Oropo, Herman O. Sintim
Summary: Vancomycin-like drugs target peptidoglycan by binding to the C-terminal d-Ala-d-Ala dipeptide. An engineered vancomycin with enhanced affinity for the peptidoglycan stem peptide, possibly through interactions with meso-diaminopimelic acid, displays increased killing of mycobacteria.
JOURNAL OF MEDICINAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Allison L. Kempen, Nickolas R. Brauer, Herman O. Sintim
Summary: The study describes the synthesis of a newly discovered 3H-pyrazolo[4,3-f]quinoline core through a multi-component Doebner-Povarov reaction, which has the ability to selectively inhibit cancer-associated kinases FLT3 and haspin. The researchers report the discovery of a potent dual FLT3/haspin inhibitor, HSK205, which shows remarkable activity against FLT3-driven AML cell lines.
RSC MEDICINAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Wilson W. S. Ong, Neetu Dayal, Riddhi Chaudhuri, Jones Lamptey, Herman O. O. Sintim
Summary: The cGAS-STING axis is important in protecting higher organisms against pathogens or cancer. However, overactivation of this pathway can lead to inflammation, which is harmful to the host. STING antagonists, such as HSD1077, have been discovered and shown to inhibit STING binding, suppressing interferon expression and potentially managing various inflammatory diseases.
RSC MEDICINAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Desmond Akwata, Allison L. Kempen, Jones Lamptey, Neetu Dayal, Nickolas R. Brauer, Herman O. Sintim
Summary: Current treatment options for multiple myeloma patients are limited, and there is a need for effective targeted therapies. Recent studies have shown that the transforming growth factor-beta activated kinase (TAK1) is overexpressed in multiple myeloma, providing hope for the discovery of TAK1 inhibitors.
RSC MEDICINAL CHEMISTRY
(2023)
Article
Chemistry, Medicinal
Desmond Akwata, Allison L. Kempen, Neetu Dayal, Nickolas R. Brauer, Herman O. Sintim
Summary: FLT3 is expressed in immune and cancer cells and has potential applications in the treatment of acute myeloid leukemia and chronic pain. However, current FLT3 inhibitors also inhibit other important kinases, which limits their use in non-oncology applications.