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Ofer Stempler et al.
Nature communications, 8(1), 315-315 (2017-08-23)
Bacteria have developed various mechanisms by which they sense, interact, and kill other bacteria, in an attempt to outcompete one another and survive. Here we show that Bacillus subtilis can kill and prey on Bacillus megaterium. We find that Bacillus
Nazaret Reverón-Gómez et al.
Molecular cell, 72(2), 239-249 (2018-08-28)
Chromatin organization is disrupted genome-wide during DNA replication. On newly synthesized DNA, nucleosomes are assembled from new naive histones and old modified histones. It remains unknown whether the landscape of histone post-translational modifications (PTMs) is faithfully copied during DNA replication
Zoe Pillidge et al.
EMBO reports, 20(5) (2019-03-28)
Notch signaling plays a key role in many cell fate decisions during development by directing different gene expression programs via the transcription factor CSL, known as Su(H) in Drosophila Which target genes are responsive to Notch signaling is influenced by
Srinivasa R Tala et al.
ACS chemical neuroscience, 9(5), 1001-1013 (2017-12-20)
The melanocortin system is involved in the regulation of complex physiological functions, including energy and weight homeostasis, feeding behavior, inflammation, sexual function, pigmentation, and exocrine gland function. The five melanocortin receptors that belong to the superfamily of G protein-coupled receptors
Elliot D Mock et al.
Nature chemical biology, 16(6), 667-675 (2020-05-13)
N-acylethanolamines (NAEs), which include the endocannabinoid anandamide, represent an important family of signaling lipids in the brain. The lack of chemical probes that modulate NAE biosynthesis in living systems hamper the understanding of the biological role of these lipids. Using
Weichao Li et al.
Molecular pharmaceutics, 15(8), 3252-3259 (2018-07-12)
LRRK2-IN-1, one of the first selective inhibitors of leucine-rich repeat kinase 2 (LRRK2), was serendipitously found to exhibit potent antiproliferative activity in several types of human cancer cells. In this study, we employed a chemoproteomic strategy utilizing a photoaffinity probe
Louvy Lynn Punzalan et al.
Cell chemical biology, 27(6), 708-718 (2020-05-14)
Pharmacophore-focused chemical libraries are continuously being created in drug discovery programs, yet screening assays to maximize the usage of such libraries are not fully explored. Here, we report a chemical proteomics approach to reutilizing a focused chemical library of 1,800
Yibing Wang et al.
Nature communications, 9(1), 2041-2041 (2018-05-26)
Innate behaviors are genetically encoded, but their underlying molecular mechanisms remain largely unknown. Predator odor 2,4,5-trimethyl-3-thiazoline (TMT) and its potent analog 2-methyl-2-thiazoline (2MT) are believed to activate specific odorant receptors to elicit innate fear/defensive behaviors in naive mice. Here, we
Tasnim Abukar et al.
Carbohydrate research, 500, 108249-108249 (2021-02-06)
Glycans on proteins and cell surfaces are useful biomarkers for determining functional interactions with glycan binding proteins, potential disease states, or indeed level of differentiation. The ability to rapidly and sensitively detect or tag specific glycans on proteins provides a
Katelyn Arnold et al.
Scientific reports, 10(1), 17187-17187 (2020-10-16)
Heparan sulfate (HS) is a sulfated glycosaminoglycan abundant on the cell surface and in the extracellular matrix and has several biological activities including anticoagulation and anti-inflammation. Liver ischemia reperfusion injury is associated with coagulation and inflammatory responses. Here, we synthesized
Tingbi Zhao et al.
Nanoscale, 9(28), 9841-9847 (2017-05-10)
A large amount of proteins are post-translationally modified with a sialic acid terminal oligosaccharide, and sialylation directly affects the function of glycoproteins and adjusts relevant biological processes. Herein, we developed a method for imaging analysis of protein-specific sialylation on the
J Daniel Griffin et al.
Biomacromolecules, 20(5), 2115-2122 (2019-04-19)
Antigen valency plays a fundamental role in directing the nature of an immune response to be stimulatory or tolerogenic. Soluble antigen arrays (SAgAs) are an antigen-specific immunotherapy that combats autoimmunity through the multivalent display of autoantigen. Although mechanistic studies have
Harita Rao et al.
Nature protocols, 7(6), 1097-1112 (2012-05-12)
This protocol describes the detailed experimental procedure for the synthesis of an azide-modified uridine triphosphate analog and its effective incorporation into an oligoribonucleotide by in vitro transcription reactions. Furthermore, procedures for labeling azide-modified oligoribonucleotides post-transcriptionally with biophysical probes by copper(I)-catalyzed
Vu Hong et al.
Bioconjugate chemistry, 21(10), 1912-1916 (2010-10-05)
The copper-catalyzed azide-alkyne cycloaddition (CuAAC) reaction, optimized for biological molecules in aqueous buffers, has been shown to rapidly label mammalian cells in culture with no loss in cell viability. Metabolic uptake and display of the azide derivative of N-acetylmannosamine developed
Tong Liu et al.
Molecular pharmaceutics, 16(7), 2872-2883 (2019-06-01)
Although the prognosis of patients with breast cancer continues to improve, breast cancer metastasis to bones remains high in incidence and challenging to manage. Here, we report the development of bone-homing alendronate (ALN)-anchored biodegradable polymeric micelles for the targeted treatment
Kathleen R Stewart-Morgan et al.
Molecular cell, 75(2), 284-297 (2019-05-28)
DNA replication is highly disruptive to chromatin, leading to eviction of nucleosomes, RNA polymerase, and regulatory factors. When and how transcription resumes on DNA following DNA replication is unknown. Here we develop a replication-coupled assay for transposase-accessible chromatin (repli-ATAC-seq) to
Ruzanna Mnatsakanyan et al.
Nature communications, 10(1), 2195-2195 (2019-05-18)
Cysteine modifications emerge as important players in cellular signaling and homeostasis. Here, we present a chemical proteomics strategy for quantitative analysis of reversibly modified Cysteines using bioorthogonal cleavable-linker and switch technique (Cys-BOOST). Compared to iodoTMT for total Cysteine analysis, Cys-BOOST
Noah R Sundah et al.
Nature biomedical engineering, 3(9), 684-694 (2019-07-10)
Massively parallel DNA sequencing is established, yet high-throughput protein profiling remains challenging. Here, we report a barcoding approach that leverages the combinatorial sequence content and the configurational programmability of DNA nanostructures for high-throughput multiplexed profiling of the subcellular expression and
Christine Wuebben et al.
Molecules (Basel, Switzerland), 24(24) (2019-12-11)
Ribonucleic acid function is governed by its structure, dynamics, and interaction with other biomolecules and influenced by the local environment. Thus, methods are needed that enable one to study RNA under conditions as natural as possible, possibly within cells. Site-directed
Xueqin Chen et al.
Nature communications, 8(1), 1498-1498 (2017-11-16)
Measuring the localized transient heat generation is critical for developing applications of nanomaterials in areas of photothermal therapy (PTT), drug delivery, optomechanics and biological processes engineering. However, accurate thermometry with high spatiotemporal resolution is still a challenge. Here we develop
Paweł Wityk et al.
Molecules (Basel, Switzerland), 25(16) (2020-08-14)
Radiotherapy, the most common therapy for the treatment of solid tumors, exerts its effects by inducing DNA damage. To fully understand the extent and nature of this damage, DNA models that mimic the in vivo situation should be utilized. In
Chad J Pickens et al.
Molecular pharmaceutics, 16(6), 2452-2461 (2019-05-16)
Multiple sclerosis represents the world's most common cause of neurological disability in young people and is attributed to a loss of immune tolerance toward proteins of the myelin sheath. Typical treatment options for MS patients involve immunomodulatory drugs, which act
Viktoriya Sokolova et al.
Scientific reports, 10(1), 18033-18033 (2020-10-24)
The blood-brain barrier (BBB) is an efficient barrier for molecules and drugs. Multicellular 3D spheroids display reproducible BBB features and functions. The spheroids used here were composed of six brain cell types: Astrocytes, pericytes, endothelial cells, microglia cells, oligodendrocytes, and
Viktoriya Sokolova et al.
Acta biomaterialia, 111, 349-362 (2020-05-16)
The neurovascular unit (NVU) is a complex functional and anatomical structure composed of endothelial cells and their blood-brain barrier (BBB) forming tight junctions. It represents an efficient barrier for molecules and drugs. However, it also prevents a targeted transport for
Esther van Andel et al.
ACS applied materials & interfaces, 9(44), 38211-38221 (2017-10-25)
Micron- and nano-sized particles are extensively used in various biomedical applications. However, their performance is often drastically hampered by the nonspecific adsorption of biomolecules, a process called biofouling, which can cause false-positive and false-negative outcomes in diagnostic tests. Although antifouling
Catherine Su Hui Teo et al.
PLoS pathogens, 14(7), e1007196-e1007196 (2018-07-22)
We used the bioorthogonal protein precursor, homopropargylglycine (HPG) and chemical ligation to fluorescent capture agents, to define spatiotemporal regulation of global translation during herpes simplex virus (HSV) cell-to-cell spread at single cell resolution. Translational activity was spatially stratified during advancing
Josephine Ann Mun Yee Choo et al.
Cell death & disease, 11(7), 538-538 (2020-07-18)
The integrated stress response (ISR) allows cells to rapidly shutdown most of their protein synthesis in response to protein misfolding, amino acid deficiency, or virus infection. These stresses trigger the phosphorylation of the translation initiation factor eIF2alpha, which prevents the
Mirco Junker et al.
Traffic (Copenhagen, Denmark), 16(12), 1306-1317 (2015-09-24)
Mitochondria receive phosphatidylserine (PS) from the endoplasmic reticulum (ER), but how PS is moved from the ER to mitochondria is unclear. Current models postulate a physical link between the organelles, but no involvement of cytosolic proteins. Here, we have reconstituted
Do the P1 and P2 hairpins of the Guanidine-II riboswitch interact?
Wuebben, et al.
Nucleic Acids Research, 48, 10518-10526 (2020)
Patrik Fladischer et al.
Biotechnology journal, 14(3), e1800125-e1800125 (2018-06-05)
The site-specific incorporation of non-canonical amino acids (ncAAs) at amber codons requires an aminoacyl-tRNA synthetase and a cognate amber suppressor tRNA (tRNACUA ). The archaeal tyrosyl-tRNA synthetase from Methanocaldococcus jannaschii and the pyrrolysyl-tRNA synthetase (PylRS) from Methanosarcina mazei have been
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