Yonarolide A, an unprecedented furanobutenolide-containing norcembranoid derivative formed by photoinduced intramolecular [2+2] cycloaddition

Yeqing Du Ligong Yao Xuwen Li Yuewei Guo

Citation:  Yeqing Du, Ligong Yao, Xuwen Li, Yuewei Guo. Yonarolide A, an unprecedented furanobutenolide-containing norcembranoid derivative formed by photoinduced intramolecular [2+2] cycloaddition[J]. Chinese Chemical Letters, 2023, 34(2): 107512. doi: 10.1016/j.cclet.2022.05.026 shu

Yonarolide A, an unprecedented furanobutenolide-containing norcembranoid derivative formed by photoinduced intramolecular [2+2] cycloaddition

English

  • Polycyclic furanobutenolide-containing norcembranoids are a rare group of natural products, which are found exclusively in soft corals of the genus Sinularia, especially S. leptoclados, S. inelegans, and S. lochmodes [1-3]. These metabolites have captured the attention of chemists and biologists due to their complex structures featured by a 5/6/7 tricyclic or 5/7/6 tricyclic skeleton, and their wide spread biological activities, such as anti-inflammatory, anti-osteoporotic, and cytotoxic effects [4, 5]. Particularly, the first total synthesis of scabrolide A has been accomplished by Stoltz and co-workers in 2020 owning to its potential as an anti-inflammatory agent [6]. However, due to the polycyclic nature and complex stereochemistry of these norditerpenoids, their structure elucidation was challenging, which also limited their further biological study [4, 7, 8]. In order to explore the chemical diversity of these intriguing furanobutenolide-containing norcembranoids and further confirm their stereochemistry, soft corals from the genus Sinularia were collected off the coast of Ximao island and chemically investigated.

    Small molecule accurate recognition technology (SMART) is an artificial intelligence-based tool to generate structure hypotheses from HSQC data. It can rapidly recognize the structure types of natural product from crude extracts or fractions of the sample [9]. Gerwick and co-workers used NMR-based SMART for the discovery and rapid classification of several new peptides from a marine cyanobacterium in 2017 [10]. The NMR-based SMART and MS2-based molecular networking led to the isolation and rapid identification of the macrolide and cyclic peptides in 2020 by Reher et al. [11]. This technology is being widely recognized, which inspired us to apply it for the discovery and rapid classification of polycyclic furanobutenolide-containing norcembranoids. The crude extract of species unidentified soft coral Sinularia sp. collected off the coast of Ximao Island in the South China Sea, was separated by a rapid silica gel column chromatography to yield five fractions (Fr. A to Fr. E). The cross-peaks obtained from HSQC spectra of crude fractions Fr. A−Fr. E were settled in tables saved as CSV files, which were then uploaded to the SMART system (http://smart.ucsd.edu/classic). The result of Fr. E showed that 5 out of top 8 compounds ordered by cosine similarity score were polycyclic furanobutenolide-containing norcembranoids (Fig. 1). Based on the results of the SMART positioning, Fr. E could be rich in polycyclic furanobutenolide-containing norcembranoids and was thus systematically further investigated for its chemical constituents.

    Figure 1

    Figure 1.  SMART-guided isolation. (A) Isolated compounds from soft coral Sinularia sp.; (B) Digitized HSQC spectrum of Fr. E, which was generated by the SMART system through uploading the files containing the signals in experimental HSQC spectrum of crude extract; (C) The spectra were mapped into a 180-dimensional embedding space (nodes representing natural products trained on the basis of their 1H–13C-HSQC spectra); (D) SMART 2.0 results (top 8 structures based on cosine similarity score) of Fr. E suggests that it contains norcembranoids.

    With the help of SMART, eight polycyclic furanobutenolide-containing norcembranoids (18) were rapidly isolated from Sinularia sp. Interestingly, yonarolide A (1a), featuring an unprecedented 5/6/4/4/7 pentacyclic carbon skeleton, was obtained as a transformed product by leaving compound 1 in methanol/water under indoor natural light, and further synthesized from 1 by photoreaction. With the aid of X-ray diffraction analysis, the structure of scabrolide B (2) was revised as 2a with the rare inelegane skeleton featured by the highly oxygenated 5/7/6 tricyclic carbocycle. Detailed isolation, structure elucidation of the norcembranoids, and the chemical transformation towards the novel compound 1a were reported herein.

    The acetone extract of the soft coral Sinularia sp. was partitioned between Et2O and n-BuOH. The Et2O-soluble portion was subjected to chromatography to yield five fractions (Fr. A to Fr. E), and the SMART method (Fig. 1, see Supporting information for details) was used to rapidly afford eight pure norcembranoids 18 (Fig. 2).

    Figure 2

    Figure 2.  The structures of compounds 18, 1a and 2a.

    Compounds 1 and 38 were rapidly identified by the comparison of their spectroscopic data with those reported in the literature as yonarolide (1) [12], ineleganolide (3) [13], scabrolide D (4) [14], norcembrene 5 (5) [13, 15], sinulin D (6) [16], 10‑epi-gyrosanolide E (7) [15], and sinularcasbane O (8) [17], respectively. It is worth mentioning that the absolute configurations of compounds 1, 4 and 7 were unambiguously established for the first time by X-Ray diffraction analyses (Fig. 3).

    Figure 3

    Figure 3.  Perspective ORTEP drawing of X-ray structures of 1, 4 and 7.

    Interestingly, when we were trying to grow a single crystal for yonarolide (1) in a methanol/water 9:1 solvent system, we found that compound 1 has been transformed into 1a in transparent glass bottle. A semipreparative HPLC (CH3CN/H2O, 1:1, v/v) was utilized to analyze the purity of compound 1. Surprisingly, two principal constituents 1 (tR = 7.3 min) and 1a (tR = 10.6 min) were observed in HPLC analysis, indicating that compound 1 was transformed into 1a in the transparent glass bottle under indoor natural light.

    The molecular formula of 1a was established as C19H20O4 with ten double-bond equivalents (DBEs) by ESIHRMS analysis ([M + H]+ m/z 313.1437, calcd. for C19H21O4, 313.1434). The 1D NMR and HSQC spectra exhibited 19 carbon resonances, including three carbonyls (δC 211.3, 196.8, 175.1), two olefinic carbons (δC 127.4, 156.7), four methines (δC 80.8, 48.0, 42.1, 34.7), five methylenes (δC 43.2, 44.4, 45.3, 29.9, 39.4), two methyl groups (δC 16.9, 19.9), three quaternary carbons (δC 47.7, 43.3, 47.5). Three carbonyl carbons and two olefinic groups accounted for 4 of the 10 DBEs, the remaining degree of unsaturation required the presence of six rings in 1a. 1D NMR data comparison of 1 and 1a suggested that the 5/6/7 tricyclic skeleton and the five-membered lactone ring of 1 was remained. However, the lack of four olefinic carbons (δC 149.1, 146.9, 134.1, 111.1) in 1a suggested that the structural transformation may occur in these carbon positions, probably a [2 + 2] cycloaddition towards two cyclobutane rings. Our hypothesis was further confirmed by HMBC experiment. The clear HMBC correlations from H-17 to C-13/C-15/C-16/C-1 and from H-14 to C-13/C-5/C-15 supported the presence of two cyclobutane rings (Fig. 4), thus constructing a 5/6/4/4/7 pentacyclic ring skeleton in 1a.

    Figure 4

    Figure 4.  Key 1H–1H COSY (thick lines), HMBC (blue arrows, from 1H to 13C) and NOESY (blue dashed lines, from 1H to 1H) correlations of compound 1a.

    It is obvious that compound 1a is the photoinduced [2 + 2] cycloaddition product of 1. To confirm this conversion and to obtain more of 1a for absolute configuration determination, we carried out the photochemical reaction with different conditions as shown in Table 1. To our delight, a smooth [2 + 2] photocycloaddition between Δ5, 13 and Δ15, 16 of 1 led to the desired bicyclo[2.2.0]hexane moiety towards 1a (Table 1, entries 1 and 2). Further, 250 W long arc mercury lamp irradiation either in air or in N2 proved to be better reaction conditions, with an isolated yield of 48% and 57%, respectively. Fortunately, after obtaining the enough amount of 1a, we tried and succeeded in the cultivation of its single crystal, which allowed the unambiguous determination of its absolute configuration and further confirmed its planar structure as 5/6/4/4/7 pentacyclic ring scaffold. It is worth mentioning that the skeleton of 1a has never been discovered in any known diterpenoid.

    Table 1

    Table 1.  Screening of the photochemical reaction of 1.
    DownLoad: CSV

    Compound 2 was readily identified as scabrolide B, a norcembranoid that was previously isolated from the same species but collected off the coast of Kenting, Taiwan, in April 2001 by Sheu and co-workers, based on the overall comparison of its physical and chemical data including NMR spectroscopic data (Table S4 in Supporting information) with those reported in the literature [14]. Since the skeleton of 2 belongs to an extremely rare group of marine natural products, and as far as we known, there are only four members of reported yonarane norditerpenoids, which stimulated our curiosity to double-check the spectroscopic data of 2. Firstly, we carefully analyzed the data reported in Sheu's paper. They have reported the HMBC correlations from H-4 (δH 6.34) to C-5 (δC 150.8), C-3 (δC 202.2), C-6 (δC 202.5), and C-13 (δC 41.6), whereas, the correlations from H-5 (δH 6.33) to C-7 (δC 62.4) and from H-2 (δH 2.59) to C-3 (δC 202.5), C-15 (δC146.4), C-14 (δC 30.5), which can be observed in our HMBC spectrum, have not been mentioned by the authors. These cross-peaks are much more consistent with 2a (C7−C6−C5−C4 linkage), which led to a revision of the planar structure of scabrolide B as possessing a 5/7/6 tricyclic carbocycle.

    In order to explain the rationality of the 5/7/6 tricyclic carbocycle and further improve the correctness of our speculation, we calculated the chemical shifts of 2a and 2 at the PCM/mPW1PW91/6–31+G**//B3LYP/6–31G* level of theory (using chloroform as the solvent) [18, 19]. We found the calculated chemical shifts of 2a to be in significantly better agreement with the experimental values than those calculated for 2 (Table S5 in Supporting information), as indicated by parameters such as correlation coefficient in regression analysis (R2), mean absolute error (MAE), corrected mean absolute error (CMAE), and maximum absolute error (MaxErr) (Fig. 5). In particular, the remarkably upfield observed chemical shift of C-5 (δC 130.5) was much closer to the calculated value in 2a (δC 131.1) than it was to the calculated value in 2 (δC 136.6). To address this question with quantifiable confidence, the experimental 13C NMR data were compared to the DFT-NMR data generated from the revised structure of 2a and the originally elucidated form through DP4+ probability scores [20]. The DP4+ probability scores, resulted in preferring the revised structure (2a) over its original version (2) with 100% probability (Fig. 5).

    Figure 5

    Figure 5.  Parameters of the calculated chemical shifts of 2 and 2a.

    Fortunately, the suitable crystal was eventually obtained from CH2Cl2-MeOH-H2O (10:20:1) after many failed attempts and was then sent for X-ray crystallographic analysis using Cu Kα radiation with a Flack parameter of –0.01(8). The X-ray result firmly supported our speculation that the correct structure of scabrolide B was 2a (Fig. 6). To the best of our knowledge, 2a is the second compound with the novel inelegane skeleton possessing the highly oxygenated 5/7/6 tricyclic carbocycle in nature [21, 22].

    Figure 6

    Figure 6.  Revised structure and originally structure of scabrolide B.

    In summary, HSQC-based SMART method was applied to guide the isolation of diterpenoids in Sinularia sp. collected off the coast of the Ximao Island in the South China Sea, and led to the discovery of eight polycyclic furanobutenolide-containing norcembranoids with C19 frameworks (18). Their structures were elucidated by extensive spectroscopic analysis, NMR calculation with DP4+ probability analysis, and/or X-ray diffraction analyses. Compound 1 belongs to the yonarane norditerpenoids with only four members of this type norditerpenoids. Compounds 2a and 3 represent the only two examples of inelegane norditerpenoids that have been found in nature. Yonarolide A (1a), featuring an unprecedented 5/6/4/4/7 pentacyclic ring skeleton containing a highly strained bicyclo[2.2.0]hexane moiety, was obtained by a chemical transformation from 1. Compound 1a is probably a natural product in the soft coral, since many similar [2 + 2] natural product has been found in nature and was confirmed by total synthesis, such as nyingchinoid D and eriobrucinol [23, 24]. The discovery of 18, especially the novel compound 1a, has expanded the diversity and complexity of marine diterpenoids. Further study should be conducted for the exploration of the chemistry and biological activities of the novel compound 1a and its related polycyclic furanobutenolide-containing norcembranoids to understand their roles played in the life cycle of the soft coral.

    The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.

    This research work was financially supported by the National Key Research and Development Program of China (No. 2021YFF0502400), the National Natural Science Foundation of China (Nos. 81991521, 82022069 and 42076099), the Shanghai Rising-Star Program (No. 20QA1411100), "Youth Innovation Promotion Association" of Chinese Academy of Sciences (No. Y202065), and the SKLDR/SIMM Project (No. SIMM2103 ZZ-06). We thank Prof. X.-B. Li from Hainan University for the taxonomic identification of the soft coral material.

    Supplementary material associated with this article can be found, in the online version, at doi:10.1016/j.cclet.2022.05.026.


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  • Figure 1  SMART-guided isolation. (A) Isolated compounds from soft coral Sinularia sp.; (B) Digitized HSQC spectrum of Fr. E, which was generated by the SMART system through uploading the files containing the signals in experimental HSQC spectrum of crude extract; (C) The spectra were mapped into a 180-dimensional embedding space (nodes representing natural products trained on the basis of their 1H–13C-HSQC spectra); (D) SMART 2.0 results (top 8 structures based on cosine similarity score) of Fr. E suggests that it contains norcembranoids.

    Figure 2  The structures of compounds 18, 1a and 2a.

    Figure 3  Perspective ORTEP drawing of X-ray structures of 1, 4 and 7.

    Figure 4  Key 1H–1H COSY (thick lines), HMBC (blue arrows, from 1H to 13C) and NOESY (blue dashed lines, from 1H to 1H) correlations of compound 1a.

    Figure 5  Parameters of the calculated chemical shifts of 2 and 2a.

    Figure 6  Revised structure and originally structure of scabrolide B.

    Table 1.  Screening of the photochemical reaction of 1.

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  • 发布日期:  2023-02-15
  • 收稿日期:  2022-02-24
  • 接受日期:  2022-05-11
  • 修回日期:  2022-05-07
  • 网络出版日期:  2022-05-15
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