Long oligodeoxynucleotides: chemical synthesis, isolation via catching-by-polymerization, verification via sequencing, and gene expression demonstration

• Yipeng Yin,
• Reed Arneson,
• Alexander Apostle,
• Adikari M. D. N. Eriyagama,
• Komal Chillar,
• Emma Burke,
• Martina Jahfetson,
• Yinan Yuan and
• Shiyue Fang

Beilstein J. Org. Chem. 2023, 19, 1957–1965, doi:10.3762/bjoc.19.146

• monomers N,N-dimethylacrylamide and sodium acrylate, and the cross-linking agent N,N'-methylenebisacrylamide were added, and the polymerization was initiated with ammonium persulfate and N,N,N',N'-tetramethylethylenediamine (TMEDA). The full-length sequence 3 was co-polymerized into the polymer 5, and

Radical chemistry in polymer science: an overview and recent advances

• Zixiao Wang,
• Feichen Cui,
• Yang Sui and
• Jiajun Yan

Beilstein J. Org. Chem. 2023, 19, 1580–1603, doi:10.3762/bjoc.19.116

• high refractive-index polymers. A common approach is to incorporate atoms or groups with high polarizability and sulfur is a typical constituent with high molar refractivity and is widely used in optical polymers. For example, Bhagat et al. [84] produced polymers with high cross-linking density and

• subsequent cross-linking. Scheme 1 redrawn from [3]. (A) Structure of typical urushiol in Chinese lacquer, and (B) schematic process of laccase-catalyzed oxidation polymerization of Chinese lacquer and autoxidation reaction on the long aliphatic unsaturated side chain. Scheme 2 redrawn from [9]. A) Primary

Microelectrode arrays, electrosynthesis, and the optimization of signaling on an inert, stable surface

• Kendra Drayton-White,
• Siyue Liu,
• Yu-Chia Chang,
• Sakashi Uppal and
• Kevin D. Moeller

Beilstein J. Org. Chem. 2022, 18, 1488–1498, doi:10.3762/bjoc.18.156

• other block is used to provide a site for cross-linking the polymer in order to render the surface more stable once it is coated onto an array (the cinnamate block is used to make a polymer network through photochemical cross-linking). The use of the borate ester surface provides a tunable surface that

Peptide stapling by late-stage Suzuki–Miyaura cross-coupling

• Hendrik Gruß,
• Rebecca C. Feiner,
• Ridhiwan Mseya,
• David C. Schröder,
• Michał Jewgiński,
• Kristian M. Müller,
• Rafał Latajka,
• Antoine Marion and
• Norbert Sewald

Beilstein J. Org. Chem. 2022, 18, 1–12, doi:10.3762/bjoc.18.1

• permeability [1][2][3]. Hence, peptide-based drugs became of high interest because of their high selectivity combined with low toxicity. Cross-linking of side chain residues results in constrained conformations and can be used to stabilise α-helical secondary structures. This technique is called peptide

• + 7 for two helix turns, respectively, followed by Ru-catalysed cross-linking [7]. By this robust and reliable approach, a library of stapled peptides was generated influencing diverse α-helical dominated protein–protein interactions (PPI) spanning pathways involved in cancer, infectious diseases

• by side chain cross-linking of bromotryptophan and an organoboron moiety. Bromotryptophans are accessible by enzymatic bromination utilising cross-linked enzyme aggregates (combiCLEAs) containing an FAD-dependent tryptophan halogenase, a flavin reductase and an alcohol dehydrogenase [73][74]. For

Cryogels: recent applications in 3D-bioprinting, injectable cryogels, drug delivery, and wound healing

• Luke O. Jones,
• Leah Williams,
• Tasmin Boam,
• Martin Kalmet,
• Chidubem Oguike and
• Fiona L. Hatton

Beilstein J. Org. Chem. 2021, 17, 2553–2569, doi:10.3762/bjoc.17.171

• hydrogel network formation via chemical cross-linking of starPEG and heparin at 4 °C and pH 8. The initial tests were reported to be a success with rapid and efficient transport of nutrients and therapeutic bsAbs via the interconnected macropores, however, more testing is required on its effects on long

Exfoliated black phosphorous-mediated CuAAC chemistry for organic and macromolecular synthesis under white LED and near-IR irradiation

• Azra Kocaarslan,
• Zafer Eroglu,
• Önder Metin and
• Yusuf Yagci

Beilstein J. Org. Chem. 2021, 17, 2477–2487, doi:10.3762/bjoc.17.164

• chain-end functionalization, block copolymer formation of structurally different polymers and cross-linking polymerization can successfully be achieved by using suitably selected click components. This new method would dramatically extend the applications of photoinduced CuAAC reactions, particularly

Highly regio- and stereoselective phosphinylphosphination of terminal alkynes with tetraphenyldiphosphine monoxide under radical conditions

• Dat Phuc Tran,
• Yuki Sato,
• Yuki Yamamoto,
• Shin-ichi Kawaguchi,
• Shintaro Kodama,
• Akihiro Nomoto and
• Akiya Ogawa

Beilstein J. Org. Chem. 2021, 17, 866–872, doi:10.3762/bjoc.17.72

• as a monodentate ligand for mononuclear complexes, but it is highly attractive because a hierarchical structure can be constructed by cross-linking between two metals [24][25][26]. Considering the characteristics of the coordination form between the (E)- and (Z)-isomers, the development of a

Molecular basis for protein–protein interactions

• Brandon Charles Seychell and
• Tobias Beck

Beilstein J. Org. Chem. 2021, 17, 1–10, doi:10.3762/bjoc.17.1

• determine the amino acid sequences at the PPIs site. Examples include protein painting [22] and chemical cross-linking [23], hydrogen–deuterium exchange mass spectrometry (HDXMS) [24], and fast photochemical oxidation of proteins [25]. In protein painting, small-molecular dyes are introduced to protein

Heterogeneous photocatalysis in flow chemical reactors

• Christopher G. Thomson,
• Ai-Lan Lee and
• Filipe Vilela

Beilstein J. Org. Chem. 2020, 16, 1495–1549, doi:10.3762/bjoc.16.125

• from our own group include the synthesis of a polystyrene gel with a photocatalytic cross-linking monomer, 4,7-bis(4-vinylphenyl)benzo[c][1,2,5]thiadiazole (St-BTZ) [47]. Additionally, we showed the direct synthesis of a BODIPY photocatalyst as a postsynthetic modification to an aldehyde-functionalised

Carbazole-functionalized hyper-cross-linked polymers for CO₂ uptake based on Friedel–Crafts polymerization on 9-phenylcarbazole

• Dandan Fang,
• Xiaodong Li,
• Meishuai Zou,
• Xiaoyan Guo and
• Aijuan Zhang

Beilstein J. Org. Chem. 2019, 15, 2856–2863, doi:10.3762/bjoc.15.279

• , 0.6 cm3 g−1) [20][33]. This may be the result of that excessive temperature caused excessive crosslink at the beginning of the reaction, the plethora network cocooned a part of the reaction center, and prevented it from further cross-linking (micropores), hence it formed macropores. All that indicated

Chemical tuning of photoswitchable azobenzenes: a photopharmacological case study using nicotinic transmission

• Lorenzo Sansalone,
• Jun Zhao,
• Matthew T. Richers and
• Graham C. R. Ellis-Davies

Beilstein J. Org. Chem. 2019, 15, 2812–2821, doi:10.3762/bjoc.15.274

• activation with cycles of violet and green light. Due to the very long-lived metastable cis configuration, 4FAB in vivo use could be of great promise for long term biological studies. Further chemical functionalization of this 4FAB probe with a maleimide functionality allowed clean cross-linking with

Reversible end-to-end assembly of selectively functionalized gold nanorods by light-responsive arylazopyrazole–cyclodextrin interaction

• Maximilian Niehues,
• Patricia Tegeder and
• Bart Jan Ravoo

Beilstein J. Org. Chem. 2019, 15, 1407–1415, doi:10.3762/bjoc.15.140

• ). Even upon addition of rather high concentrations of mAAP (100 µM) no strong shift can be observed by UV–vis spectroscopy, indicating that supramolecular cross-linking is essential for end-to-end assembly of the AuNR. Conclusion In summary, we reported a supramolecular system based on the reversible

Mechanochemical synthesis of hyper-crosslinked polymers: influences on their pore structure and adsorption behaviour for organic vapors

• Sven Grätz,
• Sebastian Zink,
• Hanna Kraffczyk,
• Marcus Rose and
• Lars Borchardt

Beilstein J. Org. Chem. 2019, 15, 1154–1161, doi:10.3762/bjoc.15.112

• is shifted to 885 cm−1 hinting towards one isolated hydrogen atom which further confirms the cross-linking between the monomers. The creation of these aliphatic connections is also evident based on the appearance of vibrations around 1400 cm−1 [43]. As reported in the literature for the solvent-based

• contents below the limit of detection (Supporting Information File 1, Figure S3). Scattering electron microscopy also revealed an agglomerated morphology of the samples (Supporting Information File 1, Figure S4). After successfully establishing the occurrence of the cross-linking reaction and investigating

Stereo- and regioselective hydroboration of 1-exo-methylene pyranoses: discovery of aryltriazolylmethyl C-galactopyranosides as selective galectin-1 inhibitors

• Alexander Dahlqvist,
• Axel Furevi,
• Niklas Warlin,
• Hakon Leffler and
• Ulf J. Nilsson

Beilstein J. Org. Chem. 2019, 15, 1046–1060, doi:10.3762/bjoc.15.102

• ]. Galectin-1 has a marked preference for binding N-linked glycans, while galectin-3 binds both O-linked and N-linked glycans [5]. Galectins play many biological roles in the body and one important and well-understood function is the cross-linking of cell-surface glycoproteins through binding to O and N

Diaminoterephthalate–α-lipoic acid conjugates with fluorinated residues

• Leon Buschbeck,
• Aleksandra Markovic,
• Gunther Wittstock and
• Jens Christoffers

Beilstein J. Org. Chem. 2019, 15, 981–991, doi:10.3762/bjoc.15.96

• example for an application in biochemistry, Figure 1 shows a compound with cyclooctyne and maleimide as functional units. It was used as a "turn-on" fluorescence probe for cross-linking proteins [13]. The highly reactive cyclooctyne residue undergoes 1,3-dipolar cycloadditions with organoazides (copper

Synthesis of polydicyclopentadiene using the Cp₂TiCl₂/Et₂AlCl catalytic system and thin-layer oxidation of the polymer in air

• Zhargolma B. Bazarova,
• Ludmila S. Soroka,
• Alex A. Lyapkov,
• Мekhman S. Yusubov and
• Francis Verpoort

Beilstein J. Org. Chem. 2019, 15, 733–745, doi:10.3762/bjoc.15.69

• and can be determined by the increase of carbonyl and hydroxyl adsorption bands in infrared spectra. Along with oxidation, cross-linking processes occur in polymers, which lead to a change in physical parameters of the layers, and more precisely to a decrease in the permeability of atmospheric oxygen

Aqueous olefin metathesis: recent developments and applications

• Valerio Sabatino and
• Thomas R. Ward

Beilstein J. Org. Chem. 2019, 15, 445–468, doi:10.3762/bjoc.15.39

• (e.g., 105, 106) [93]. The cross-linking of the two amino acids by metathesis results in a more rigid and stabilized alpha helix (products 107 and 108, Scheme 23). Although the reaction cannot be classified as aqueous metathesis (the reaction is carried out in CHCl3 and the peptide remains attached to

Targeting the Pseudomonas quinolone signal quorum sensing system for the discovery of novel anti-infective pathoblockers

• Christian Schütz and
• Martin Empting

Beilstein J. Org. Chem. 2018, 14, 2627–2645, doi:10.3762/bjoc.14.241

• mutation experiments [79]. Moreover an in vivo cross-linking assay of full-length PqsR and a corresponding I68F mutant was carried out leading to the suggestion that upon binding of M64 the protein stability might be increased. Based on these results it was proposed that M64 induces a change in

Nucleoside macrocycles formed by intramolecular click reaction: efficient cyclization of pyrimidine nucleosides decorated with 5'-azido residues and 5-octadiynyl side chains

• Jiang Liu,
• Peter Leonard,
• Sebastian L. Müller,
• Constantin Daniliuc and
• Frank Seela

Beilstein J. Org. Chem. 2018, 14, 2404–2410, doi:10.3762/bjoc.14.217

• ’-azido-2’,5’-dideoxycytidine 2. Earlier, the nucleoside precursor 1 was used for DNA cross-linking and labelling [36]. The unprotected nucleoside 1 was treated with equimolar amounts of carbon tetrabromide and triphenylphosphine and a five-fold excess of sodium azide to obtain the azide derivative 2 (37

Investigation of the electrophilic reactivity of the biologically active marine sesquiterpenoid onchidal and model compounds

• Melissa M. Cadelis and
• Brent R. Copp

Beilstein J. Org. Chem. 2018, 14, 2229–2235, doi:10.3762/bjoc.14.197

• model protein lysozyme, forming covalent adducts and leading to protein cross-linking. These results provide preliminary evidence supporting the molecular mechanism of biological activity exhibited by onchidal. Keywords: dialdehyde; lysozyme; mollusc; onchidal; pyrrole; Introduction More than 80

An overview of recent advances in duplex DNA recognition by small molecules

• Sayantan Bhaduri,
• Nihar Ranjan and
• Dev P. Arya

Beilstein J. Org. Chem. 2018, 14, 1051–1086, doi:10.3762/bjoc.14.93

• . This review presents the latest findings in the pursuit of novel synthetic DNA binders. This article provides recent coverage of major strategies (such as groove recognition, intercalation and cross-linking) adopted in the duplex DNA recognition by small molecules, with an emphasis on major works of

• all DNA binding agents, this review article intends to provide a substantial coverage of new advancements made in the discovery of major leads in three most visited areas (groove recognition, intercalation and cross linking agents) of DNA recognition. 2. Minor groove binders (MGBs) DNA groove binding

Nanoreactors for green catalysis

• M. Teresa De Martino,
• Loai K. E. A. Abdelmohsen,
• Floris P. J. T. Rutjes and
• Jan C. M. van Hest

Beilstein J. Org. Chem. 2018, 14, 716–733, doi:10.3762/bjoc.14.61

• -aminophenol in water. The activity of these nanoreactors was tuned by varying the Ag NPs loading and the cross-linking density; higher activities were achieved by increasing the amount of Ag NPs loaded and decreasing the degree of polymer cross-linking. Such conditions facilitated the diffusion of water and

Mannich base-connected syntheses mediated by ortho-quinone methides

• Petra Barta,
• Ferenc Fülöp and
• István Szatmári

Beilstein J. Org. Chem. 2018, 14, 560–575, doi:10.3762/bjoc.14.43

• ). Rokita et al. focused on generating o-QMs and used them as cross-linking and DNA alkylating agents. Starting from Mannich base 56 and transforming it by a number of synthetic steps, they were managed to elaborate a process that provides easy access to o-QM precursors containing a broad array of linkers

• phenolic Mannich bases bearing functional groups that are suitable for cross-linking DNA; therefore, their antitumor effects could also be confirmed [96]. The formation of o-QMs and their biological properties were also illustrated by kinetic studies. Rokita et al. using laser flash photolysis showed that

Carbohydrate inhibitors of cholera toxin

• Vajinder Kumar and
• W. Bruce Turnbull

Beilstein J. Org. Chem. 2018, 14, 484–498, doi:10.3762/bjoc.14.34

• , the polymer self-optimised its binding affinity for the protein by increasing the proportion of galactosyl residues in the backbone. In the presence of low concentrations of a dihydrazide cross-linking agent, these polymers can also be used to make crosslinked films on surfaces coated with bacterial

Fluorogenic PNA probes

• Tirayut Vilaivan

Beilstein J. Org. Chem. 2018, 14, 253–281, doi:10.3762/bjoc.14.17

• extended backbone at the ligation site [91]. Examples of the fluorogenic templated ligation of PNA are given in Table 1 which include the simple native chemical ligation of two fluorophore-labeled probes [92], formation of cyanine dyes [93][94], fluorogenic Michael addition [95][96] and cross-linking of