Mining raw plant transcriptomic data for new cyclopeptide alkaloids

• Draco Kriger,
• Michael A. Pasquale,
• Brigitte G. Ampolini and
• Jonathan R. Chekan

Beilstein J. Org. Chem. 2024, 20, 1548–1559, doi:10.3762/bjoc.20.138

• ; transcriptome mining; Introduction Plants are prolific producers of cyclic peptide natural products, making 1000s of different molecules [1]. While the orbitide [2] and cyclotide [3] classes of peptides are well known, it has been recently discovered that a new class of molecules called burpitides are also

• chair) produced more than 20. Analysis of the predicted core sequence seemed to suggest moroidin-like molecules (Figure 3), but no cyclic peptides have been isolated from any member of this family. Unfortunately, sourcing members of this small family proved challenging and we were unable to evaluate

• burpitide natural products from plants. Phylogenetic visualization of the potential precursor peptides validated families known to make these cyclic peptides, but also suggested new producers. Finally, metabolomic analyses supported the predicted new sources of burpitides, aiding in our understanding of the

Benzylic C(sp³)–H fluorination

• Alexander P. Atkins,
• Alice C. Dean and
• Alastair J. J. Lennox

Beilstein J. Org. Chem. 2024, 20, 1527–1547, doi:10.3762/bjoc.20.137

• ·2HF proved to be the best of the HF·amine reagents screened. The reaction was conducted under constant potential conditions, using cyclic voltammetry prior to electrolysis to determine the appropriate oxidation potential required for each substrate. Under these conditions, yields of up to 65% were

Tetrabutylammonium iodide-catalyzed oxidative α-azidation of β-ketocarbonyl compounds using sodium azide

• Christopher Mairhofer,
• David Naderer and
• Mario Waser

Beilstein J. Org. Chem. 2024, 20, 1510–1517, doi:10.3762/bjoc.20.135

• peroxide catalyzed by tetrabutylammonium iodide (TBAI). By utilizing these readily available bulk chemicals a variety of cyclic β-ketocarbonyl derivatives can be efficiently α-azidated under operationally simple conditions. Control experiments support a mechanistic scenario involving in situ formation of

• reagent/catalyst system allows indeed for high yielding direct α-azidations of different (cyclic) β-ketocarbonyl derivatives (Scheme 1C), thus resulting in an operationally simple protocol to access α-azidated carbonyl derivatives. In addition, we have also carried out some test reactions using NaNO2

• powerful approaches to access valuable organic azides. In this contribution we report the direct α-azidation of cyclic β-ketocarbonyl compounds using NaN3. This coupling of two inherently nucleophilic species is possible by carrying out the reaction under oxidative conditions using dibenzoyl peroxide in

Towards an asymmetric β-selective addition of azlactones to allenoates

• Behzad Nasiri,
• Ghaffar Pasdar,
• Paul Zebrowski,
• Katharina Röser,
• David Naderer and
• Mario Waser

Beilstein J. Org. Chem. 2024, 20, 1504–1509, doi:10.3762/bjoc.20.134

• using Maruoka’s spirocyclic binaphthyl-based quaternary ammonium salts B as catalysts this transformation can be achieved with enantioselectivities up to 83:17 er. Furthermore, the herein accessed cyclic products 5 could be successfully engaged in ring-opening reactions with different amines, thus

Electrophotochemical metal-catalyzed synthesis of alkylnitriles from simple aliphatic carboxylic acids

• Yukang Wang,
• Yan Yao and
• Niankai Fu

Beilstein J. Org. Chem. 2024, 20, 1497–1503, doi:10.3762/bjoc.20.133

• radicals are more challenging substrates. To our delight, both cyclic and acyclic secondary carboxylic acids performed well in our catalytic system, albeit with slightly reduced reaction efficiency (19–24). We also attempted simple primary carboxylic acids and got promising results. As outlined at the

Synthesis of 2-benzyl N-substituted anilines via imine condensation–isoaromatization of (E)-2-arylidene-3-cyclohexenones and primary amines

• Lu Li,
• Na Li,
• Xiao-Tian Mo,
• Ming-Wei Yuan,
• Lin Jiang and
• Ming-Long Yuan

Beilstein J. Org. Chem. 2024, 20, 1468–1475, doi:10.3762/bjoc.20.130

• reacted nicely to afford 4aq–as in 60–74% yields. This method was equally valid for β-phenylethylamine to provide 4at in 53% yield. Notably, not only linear but also cyclic primary amines were applicable for the established transformation, and targeted products 4au–ax and 4py were synthesized in 44–72

Predicting bond dissociation energies of cyclic hypervalent halogen reagents using DFT calculations and graph attention network model

• Yingbo Shao,
• Zhiyuan Ren,
• Zhihui Han,
• Li Chen,
• Yao Li and
• Xiao-Song Xue

Beilstein J. Org. Chem. 2024, 20, 1444–1452, doi:10.3762/bjoc.20.127

• both homolytic and heterolytic bond dissociation energies (BDEs) critical for assessing the chemical stability and functional group transfer capability of cyclic hypervalent halogen compounds using density functional theory (DFT) analysis. A moderate linear correlation was observed between the

• homolytic BDEs across different halogen centers, while a strong linear correlation was noted among the heterolytic BDEs across these centers. Furthermore, we developed a predictive model for both homolytic and heterolytic BDEs of cyclic hypervalent halogen compounds using machine learning algorithms. The

• results of this study could aid in estimating the chemical stability and functional group transfer capabilities of hypervalent bromine(III) and chlorine(III) reagents, thereby facilitating their development. Keywords: BDE; cyclic hypervalent halogen reagents; DFT calculation; graph attention network

Rapid construction of tricyclic tetrahydrocyclopenta[4,5]pyrrolo[2,3-b]pyridine via isocyanide-based multicomponent reaction

• Xiu-Yu Chen,
• Ying Han,
• Jing Sun and
• Chao-Guo Yan

Beilstein J. Org. Chem. 2024, 20, 1436–1443, doi:10.3762/bjoc.20.126

• -deficient alkynes [59][60][61][62][63]. The in situ generated cyclic intermediate C has a resonance hybrid C’. Then, the further nucleophilic addition of the electron-rich enamino unit to 5-(alkylimino)cyclopenta-1,3-diene intermediate C gave intermediate D. At last, the coupling of the iminium cation with

Synthesis of cyclic β-1,6-oligosaccharides from glucosamine monomers by electrochemical polyglycosylation

• Md Azadur Rahman,
• Hirofumi Endo,
• Takashi Yamamoto,
• Shoma Okushiba,
• Norihiko Sasaki and
• Toshiki Nokami

Beilstein J. Org. Chem. 2024, 20, 1421–1427, doi:10.3762/bjoc.20.124

• , Tottori University, 4-101 Koyamacho-minami, Tottori city, 680-8552 Tottori, Japan 10.3762/bjoc.20.124 Abstract The synthesis of protected precursors of cyclic β-1,6-oligoglucosamines from thioglycosides as monomers is performed by electrochemical polyglycosylation. The monomer with a 2,3-oxazolidinone

• protecting group afforded the cyclic disaccharide exclusively. Cyclic oligosaccharides up to the trisaccharide were obtained using the monomer with a 2-azido-2-deoxy group. Keywords: cyclic oligosaccharide; electrochemical glycosylation; glucosamine; polyglycosylation; Introduction Electrochemical

• reactions. Therefore, electrochemical polymerizations can be utilized for selective synthesis. Cyclic oligosaccharides are an important class of host molecules, and some natural cyclic oligosaccharides are produced by enzymatic processes. However, the corresponding chemical syntheses are still primitive [6

Challenge N- versus O-six-membered annulation: FeCl₃-catalyzed synthesis of heterocyclic N,O-aminals

• Giacomo Mari,
• Lucia De Crescentini,
• Gianfranco Favi,
• Fabio Mantellini,
• Diego Olivieri and
• Stefania Santeusanio

Beilstein J. Org. Chem. 2024, 20, 1412–1420, doi:10.3762/bjoc.20.123

• a new example of cyclic N,O-aminals and carbinolamine derivatives, an interesting class of organic compounds that are common structural motifs embedded within diverse biologically important natural products and pharmaceuticals [32][33][34][35][36][37]. On the other hand, the N,O-aminals are stable

Generation of alkyl and acyl radicals by visible-light photoredox catalysis: direct activation of C–O bonds in organic transformations

• Mithu Roy,
• Bitan Sardar,
• Itu Mallick and
• Dipankar Srimani

Beilstein J. Org. Chem. 2024, 20, 1348–1375, doi:10.3762/bjoc.20.119

• optimized or slightly modified conditions, cyclic secondary, and tertiary alkyl carboxylic acids were smoothly coupled with 1,1-diphenylethylene to give 3i–m. α,α′-Diarylated ketones serve as crucial building blocks in the construction of both natural and synthetic compounds with significant biological

• iodide leads to the formation of 23, which further undergoes 5-endo-trig cyclization, followed by fragmentation to produce an alkyl radical and a cyclic thiocarbonate 25. These alkyl radicals then interact with B2cat2 (19) to produce a variety of structurally intricate boronic esters. The reaction occurs

• final reductive elimination gives the desired alkene and Ni(I). The two catalytic cycles are finally completed by single-electron reduction of [Ni(I)] by [Ir(II)], which regenerates [Ni(0)] and ground-state [Ir(III)]. Cyclic oxalates readily form the corresponding alkyl radicals under iridium

Diameter-selective extraction of single-walled carbon nanotubes by interlocking with Cu-tethered square nanobrackets

• Guoqing Cheng and
• Naoki Komatsu

Beilstein J. Org. Chem. 2024, 20, 1298–1307, doi:10.3762/bjoc.20.113

• ) acetylacetonate, the nanobracket 4b and HiPco SWNTs were bath-sonicated for 9 h in 2-propanol. Meanwhile, 4b is assumed to form complexes with SWNTs. After copper(II) acetylacetonate was added to the mixture, the cyclic Cu-nanobrackets 1b would be formed to interlock SWNTs with appropriate diameters during

• mechanically interlocking cyclic molecules are reported not to be removed with washing [11][22][23][24]. In addition, these Raman signals of 1b shift to higher frequencies at e- and i-SWNTs, similarly to our previous report [11], probably due to the structural change of Cu-nanobrackets 1b, or the energy

• transfer between the interlocked SWNTs and the cyclic Cu-nanobrackets. After thorough removal of the host molecules with DTT, weak signals are remained at p-SWNTs, known as intermediate frequency modes (IFM) of SWNTs [25]. The IFM signals are also observed in e- and i-SWNTs, showing the coexistence of both

Phenotellurazine redox catalysts: elements of design for radical cross-dehydrogenative coupling reactions

• Alina Paffen,
• Christopher Cremer and
• Frederic W. Patureau

Beilstein J. Org. Chem. 2024, 20, 1292–1297, doi:10.3762/bjoc.20.112

• this reaction: PTeZ1 (3aa, 73% after 3 h). In other words, the cyclic phenotellurazine character of the catalyst does not seem to be essential in the context of this particular reaction, as opposed to the ortho/para substitution pattern of Te- and N-atoms. Nevertheless, all results considered, we

• elected at this point to keep the cyclic phenotellurazine structure of the catalyst in the hope of increased catalytic robustness, especially in view of further increasing substitution. Next, we therefore tested methoxy-substituted PTeZ2, a successful catalyst structure which we recently developed for the

Synthesis of indano[60]fullerene thioketone and its application in organic solar cells

• Yong-Chang Zhai,
• Shimon Oiwa,
• Shinobu Aoyagi,
• Shohei Ohno,
• Tsubasa Mikie,
• Jun-Zhuo Wang,
• Hirofumi Amada,
• Koki Yamanaka,
• Kazuhira Miwa,
• Naoyuki Imai,
• Takeshi Igarashi,
• Itaru Osaka and
• Yutaka Matsuo

Beilstein J. Org. Chem. 2024, 20, 1270–1277, doi:10.3762/bjoc.20.109

• molecular orbital (LUMO). To understand the electron affinity of t-Bu-FIDS, cyclic voltammetry was conducted. The cyclic voltammogram of t-Bu-FIDS in o-DCB showed reversible reduction waves at E1/2 = −1.14 V and −1.51 V (vs Fc/Fc+), as shown in Figure 3. Both the first and second reduction potentials of t

• -Bu-FIDS (black) and of toluene used to rinse the evaporated film of t-Bu-FIDS (red). Single-crystal structure of t-Bu-FIDS. (a) The π–π distance between two molecules. (b) Crystal packing. Cyclic voltammograms of fullerene derivatives in o-DCB solution containing Bu4N+(CF3SO2)2N− (0.1 M) as

Competing electrophilic substitution and oxidative polymerization of arylamines with selenium dioxide

• Vishnu Selladurai and
• Selvakumar Karuthapandi

Beilstein J. Org. Chem. 2024, 20, 1221–1235, doi:10.3762/bjoc.20.105

• , Supporting Information File 1). It allowed the molecule to self-align in a repeating cyclic ring pattern in one dimension. The molecular structure of the diorganyl monoselenide 12 is shown in Figure 6. It crystallized in an orthorhombic crystal system in the space group P21212. The C–Se–C bond angle was

Introduction of peripheral nitrogen atoms to cyclo-meta-phenylenes

• Koki Ikemoto and
• Hiroyuki Isobe

Beilstein J. Org. Chem. 2024, 20, 1207–1212, doi:10.3762/bjoc.20.103

• best and afforded cyclic congeners from N3-[6]CMP to N6-[12]CMP (Figure S1, Supporting Information File 1) and isolated N3-[6]CMP (3a) and N4-[8]CMP (3b) in 7% and 3% yields, respectively [14]. Comparisons of the UV–vis spectra of the doped and undoped congeners revealed dopant-induced changes in the

Stability trends in carbocation intermediates stemming from germacrene A and hedycaryol

• Naziha Tarannam,
• Prashant Kumar Gupta,
• Shani Zev and
• Dan Thomas Major

Beilstein J. Org. Chem. 2024, 20, 1189–1197, doi:10.3762/bjoc.20.101

• from germacrene A or hedycaryol are categorized depending upon the formation of (6,6) or (5,7) cyclic rings. Deprotonations of A at the C3 and C15 positions lead to α-selinene [18] and β-selinene [19]. Sesquiterpenes arising through B occur less frequently in nature compared to the A derivatives

Two-fold addition reaction of silylene to C₆₀: structural and electronic properties of a bis-adduct

• Masahiro Kako,
• Masato Kai,
• Masanori Yasui,
• Michio Yamada,
• Yutaka Maeda and
• Takeshi Akasaka

Beilstein J. Org. Chem. 2024, 20, 1179–1188, doi:10.3762/bjoc.20.100

• of 1 with the HOMO of 2a should be considered. Electrochemical measurements of 3 Cyclic voltammetry (CV) and differential pulse voltammetry (DPV) measurements were conducted to evaluate the electronic effects of the silylene addends in 3 (Figure 9). The oxidation processes of 3 were shown to be

• . Reagents were used as purchased unless otherwise specified. The 1H and 13C NMR measurements were conducted on a JEOL ECA-500 spectrometer (JEOL Ltd.). Absorption spectra were measured using a UV-3150 spectrophotometer (Shimadzu Corp.). Cyclic voltammograms and differential pulse voltammograms were recorded

• /ferrocenium couple (Fc/Fc+) as the standard. (n-Bu)4NPF6 (0.1 M) in ODCB was used as the supporting electrolyte solution. The cyclic voltammograms were recorded using a scan rate of 50 mV/s. The differential pulse voltammograms were obtained using a pulse amplitude of 50 mV, a pulse width of 50 ms, a pulse

Manganese-catalyzed C–C and C–N bond formation with alcohols via borrowing hydrogen or hydrogen auto-transfer

• Mohd Farhan Ansari,
• Atul Kumar Maurya,
• Abhishek Kumar and
• Saravanakumar Elangovan

Beilstein J. Org. Chem. 2024, 20, 1111–1166, doi:10.3762/bjoc.20.98

• ]. Symmetrical, unsymmetrical, and cyclic azoarenes were studied with benzyl alcohol using catalyst Mn9 (5 mol %) and t-BuOK (2 equiv) at 130 °C for 24 h in octane, resulting in the corresponding N-alkylated amines with up to 96% yield (Scheme 19). On the other hand, various aromatic and aliphatic primary and

• compound E. Cyclization occurred via dehydrogenation and intramolecular aldol condensation and in the last step hydrogen transfer provided the desired cyclic product H (Scheme 35). In 2020, Maji and Adhikari reported a phosphine-free N,N-amine–manganese complex-catalyzed stereoselective intermolecular and

• -membered ring products. They isolated cyclic five to seven-membered ring products by changing the lengths of the diols. For example, for the formation of cyclopentane products, butane-1,4-diol was used as the alcohol under the same reaction conditions, giving 31 to 70% yield of the desired products. Seven

Light on the sustainable preparation of aryl-cored dibromides

• Fabrizio Roncaglia,
• Alberto Ughetti,
• Nicola Porcelli,
• Biagio Anderlini,
• Andrea Severini and
• Luca Rigamonti

Beilstein J. Org. Chem. 2024, 20, 1076–1087, doi:10.3762/bjoc.20.95

• molecular wires or extended structures – either linear or cyclic – with enhanced functionality. Consequently, they play a crucial role in the fabrication of polymers [4][5][6][7], cyclophanes [8], photoactive materials [9][10][11], membranes [12], and other architectures. The synthetic potential of aryl

Novel route to enhance the thermo-optical performance of bicyclic diene photoswitches for solar thermal batteries

• Akanksha Ashok Sangolkar,
• Rama Krishna Kadiyam and
• Ravinder Pawar

Beilstein J. Org. Chem. 2024, 20, 1053–1068, doi:10.3762/bjoc.20.93

• solvents on the photoswitching properties has also been investigated for a real-life MOST application. The stability and the reversibility of the photoswitches have also been verified to attain a closed cyclic photoswitching process for practical MOST system. Results and Discussion As can be seen from

Structure–property relationships in dicyanopyrazinoquinoxalines and their hydrogen-bonding-capable dihydropyrazinoquinoxalinedione derivatives

• Tural N. Akhmedov,
• Ajeet Kumar,
• Daken J. Starkenburg,
• Kyle J. Chesney,
• Khalil A. Abboud,
• Novruz G. Akhmedov,
• Jiangeng Xue and
• Ronald K. Castellano

Beilstein J. Org. Chem. 2024, 20, 1037–1052, doi:10.3762/bjoc.20.92

• obtained from absorbance spectra, taken as the photon energy corresponding to the cut-off wavelength (Table 1). Subsequently, preliminary electrochemical studies were performed with selected DCPQs and corresponding DPQD counterparts using cyclic voltammetry (Figure S1, Supporting Information File 1

• ). Cyclic voltammetric measurements of DCPQs, specifically 4a and 6a, and DPQDs 4b and 6b, support the overall trends observed through the electronic structure calculations. X-ray crystallography Single crystal X-ray diffraction data could be obtained for 2b, 5b, and 6b. Figure 6 illustrates the single

Carbonylative synthesis and functionalization of indoles

• Alex De Salvo,
• Raffaella Mancuso and
• Xiao-Feng Wu

Beilstein J. Org. Chem. 2024, 20, 973–1000, doi:10.3762/bjoc.20.87

• in CH3CN (Scheme 11). Another interesting example concerns the synthesis of 1,2-dihydro-4(3H)-carbazolones by a Pd(0)-catalyzed N-heteroannulation of functionalized 2-nitrostyrenes [26]. Pd(dba)2 was able to catalyze the reaction because a five-membered Pd(II)-cyclic species could be formed, favored

• hexaketocyclohexane octahydrate as the CO source again. This cyclic hexaketone is a non-toxic stable solid and therefore, it is simple and safe to use unlike of carbon monoxide. It was used as reagent to obtain indol-α-ketoesters by the Cu-catalyzed direct double-carbonylation of indoles and alcohols [76]. The

Enhancing structural diversity of terpenoids by multisubstrate terpene synthases

• Min Li and
• Hui Tao

Beilstein J. Org. Chem. 2024, 20, 959–972, doi:10.3762/bjoc.20.86

• converted into (poly)cyclic skeletons, including hemiterpenes, monoterpenes, sesquiterpenes, diterpenes, sesterterpenes, and triterpenes, by a large class of enzymes called terpene synthases (TSs) (Figure 1). The reactions of TSs are one of the most important factors contributing to terpene diversity, as

• different subcellular compartments may facilitate the generation of multiple terpenoids in plants. Recently, in addition to linear terpenoid-producing TSs, MSTSs that form cyclic terpenoids have been discovered in plants, further increasing our understanding of chemodiversity and biosynthesis of plant

• terpenoids with diverse cyclic structures and important biological activities, which are of great interest. However, the number of known fungal MSTSs is currently limited, and researchers have focused on the promiscuity of their products rather than substrates [25][26][27]. Unlike plant MSTSs, fungal MSTSs

Enantioselective synthesis of β-aryl-γ-lactam derivatives via Heck–Matsuda desymmetrization of N-protected 2,5-dihydro-1H-pyrroles

• Arnaldo G. de Oliveira Jr.,
• Martí F. Wang,
• Rafaela C. Carmona,
• Danilo M. Lustosa,
• Sergei A. Gorbatov and
• Carlos R. D. Correia

Beilstein J. Org. Chem. 2024, 20, 940–949, doi:10.3762/bjoc.20.84

• complexity in a synthetic route. The palladium-catalyzed coupling of arenediazonium salts with olefins, the Heck–Matsuda reaction, has been instrumental in this strategy involving the desymmetrization of cyclic systems [3], especially five-membered substrates [4][5][6][7]. As we have demonstrated previously