Rare Carbon-Bridged Citrinin Dimers from the Starfish-Derived Symbiotic Fungus Penicillium sp. GGF16-1-2

Abstract

Four novel, rare carbon-bridged citrinin dimers, namely dicitrinones G–J (1–4), and five known analogs (5–9) were isolated from the starfish-derived fungus Penicillium sp. GGF 16-1-2. Their structures were elucidated by extensive spectroscopic analysis and quantum chemical calculations. Compounds 1–9 exhibited strong antifungal activities against Colletotrichum gloeosporioides with LD₅₀ values from 0.61 μg/mL to 16.14 μg/mL. Meanwhile, all compounds were evaluated for their cytotoxic activities against human pancreatic cancer BXPC-3 and PANC-1 cell lines; as a result, compound 1 showed more significant cytotoxicities than the positive control against both cell lines. In addition, based on the analyses of the protein-protein interaction (PPI) network and Western blot, 1 could induce apoptosis by activating caspase 3 proteins (CASP3).

1. Introduction

Dimeric natural products are a group of structurally diverse, biologically active, and biosynthetically complex metabolites. Among them, the methylene-bridged ones are a small but unique class that tend to be formed through the dimerization of two monomeric units with a methylene [1]. To date, approximately 131 natural dimers with a methylene linker were reported, including dimeric xanthones, dimeric steroids, and dimeric bioflavonoids [2,3]. Citrinin dimers are formed by the reaction of two citrinins or its analogues, including Diels-Alder-type dimers, 7, 7′ carbon-bridged citrinin dimers, and others. Among them, only seven 7, 7′ carbon-bridged-type dimers have been reported [4,5,6]. As is known to us, citrinin was one of the well-known mycotoxins [7], while citrinin dimers showed significant bioactivities compared to citrinin monomer derivatives due to their special carbon bridged skeleton, such as anti-fungi, cytotoxicity, and enzyme inhibitory activities [8,9,10].

As part of our continuing exploration of the novel and bioactive secondary metabolites from marine microorganisms [11,12,13], a chemical investigation of starfish-derived fungal Penicillium sp. GGF 16-1-2 led to the isolation and identification of four rare carbon-bridged citrinin dimers, dicitrinones G–J (1–4), known analogs Dicitrinone B (5) [14], Dictrinone C (6) [14], and known citrinin Diels-Alder-type dimers Citrinin H1 (7) [15,16], Penidicitrinin B (8) [17], and Penicitrinone A (9) [18,19,20] (Figure 1). We further studied their antifungal bioactivities against Colletotrichum gloeosporioides and antitumor activities against human pancreatic cancer cells BXPC-3 and PANC-1. The mechanism of cytotoxic activities was proposed via a protein-protein interaction network and Western blot.

2. Results

2.1. Structural Identification of New Compounds

Dicitrinone G (1) was isolated as orange-yellow amorphous powder with a molecular formula of C₂₅H₂₈O₇, determined by its HR-ESI-MS m/z 441.1906 [M + H]⁺ (calculated: 441.1913), indicating 12 degrees of unsaturation. The absorption wavelengths in the UV spectrum peaked at 202 nm, 280 nm, and 320 nm. The IR spectra suggested hydroxyl (3280 cm⁻¹), carbonyl (1639 cm⁻¹), and benzene ring (1511 cm⁻¹ and 1477 cm⁻¹) groups. ¹H and ¹³C NMR spectra showed one conjugated ketone carbonyl group (δ_C 187.3, C), one ester carbonyl group (δ_C 168.8, s), one tri-substituted double bond [δ_H 8.09 (s, 1H) and δ_C 107.3 (C), 157.7 (CH)], two tetra-substituted double bonds [δ_C 113.0 (C), 126.6 (C), 135.3 (C), 161.9 (C)], one fully substituted benzene ring [δ_C 98.0 (C), 111.7 (C), 115.7 (C), 140.7 (C), 157.7 (C), 161.9 (C)], two oxygenated methines [δ_H 4.71 (dq, 6.6, 13.4 1H), 4.74 (dq, 6.6, 13.4 1H) and δ_C 80.1 (CH), 80.1 (CH)], six methyl signals [δ_H 1.07 (d, 6.6, 3H), 1.17 (d, 6.6, 3H), 1.20 (d, 7.2, 3H), 1.21 (d, 7.2, 3H), 1.90 (s, 3H), 2.04 (s, 3H) and δ_C 10.0 (CH₃), 10.3 (CH₃), 17.6 (CH₃), 18.4 (CH₃), 19.5 (CH₃), 19.6 (CH₃)], only one methylene signal [δ_H 3.61 (d, 8.6, 1H), 3.67 (d, 8.6, 1H) and δ_C 17.2 (CH₂)], and one active proton signal (δ_H 12.39). (Supplementary Materials Figures S4 and S5).

HSQC assigned attribution to their NMR data (

Table 1. ¹H NMR data (400 MHz) and ¹³C NMR data (100 MHz) of 1–4 (δ in ppm, J in Hz) in DMSO-d₆.

No.	1		2		3		4
	δH, Mult, J	δC, Mult	δH, Mult, J	δC, Mult	δH, Mult, J	δC, Mult	δH, Mult, J	δC, Mult
1	8.09, s	157.7, CH	8.07, s	158.7, CH	8.00, s	157.7, CH	8.00, s/8.01, s	158.0/158.2, CH
3	4.74, dq (6.6, 13.4)	80.1, CH	4.69, dq (6.4, 12.9)	79.8, CH	4.70, dq (6.6, 13.1)	79.9, CH	4.72, m/4.72, m	79.8/80.0, CH
4	3.03, dq (7.2, 13.4)	33.6, CH	2.99, dq (7.1, 12.9)	33.5, CH	2.99, dq (7.2, 13.1)	33.5, CH	2.99, m/2.99, m	33.5, CH
4a		135.5, C		136.2, C		136.0, C		136.2/136.3, C
5		126.6, C		126.6, C		124.4, C		124.2/124.6, C
6		187.3, C		187.8, C		184.5, C		186.1/186.3, C
7		113.0, C		117.1, C		112.8, C		116.1/116.2, C
8		161.9, C		160.6, C		161.5, C		163.4/164.0, C
8a		107.3, C		107.0, C		106.9, C		106.8/106.9, C
9	1.17, d (6.6)	19.5, CH3	1.22, d (6.4)	19.4, CH3	1.18, d (6.6)	17.6, CH3	1.22, d (6.6)/1.22, d (6.6)	17.5/17.5, CH3
10	1.20, d (7.2)	17.6, CH3	1.16, d (7.1)	17.6 CH3	1.06, d (7.2)	18.3, CH3	1.11, d (7.1)/1.11, d (7.1)	18.2/18.3, CH3
11	1.90, s	10.0, CH3	1.88, s	9.9, CH3	1.89, s	10.0, CH3	1.87, s/1.87, s	9.7/9.8, CH3
1′		168.8, C		168.9, C	4.49, s	59.0, CH2	8.03, s/8.04, s	158.8/159.0, CH
3′	4.71, dq (6.6, 13.4)	80.1, CH	4.72, dq (6.5, 12.9)	79.8, CH	3.77, m	73.3, CH	4.73, m/4.73, m	80.1/80.1, CH
4′	3.08, dq (7.2, 13.4)	33.6, CH	3.05, dq (7.1, 12.9)	33.5, CH	2.50, m	34.5, CH	2.99, m/2.99, m	33.5, CH
4a′		140.7, C		140.2, C		135.1, C		136.9/136.9, C
5′		115.7, C		117.1, C		114.1, C		125.0/125.3, C
6′		161.9, C		162.7, C		150.5, C		186.6/186.6, C
7′		111.7, C		115.7, C		113.8, C		116.3/116.6, C
8′		157.7, C		158.7, C		147.9, C		163.8/163.8, C
8a′		98.0, C		97.6, C		114.6, C		107.2/107.4, C
9′	1.07, d (6.6)	18.4, CH3	1.09, d (6.5)	18.4, CH3	1.08, d (6.6)	17.8, CH3	1.15, d (6.6)/1.15, d (6.6)	17.7/17.7, CH3
10′	1.21, d (7.2)	19.6, CH3	1.17, d (7.1)	19.6, CH3	1.09, d (7.2)	20.5, CH3	1.04, d (7.1)/1.04, d (7.1)	18.5/18.5, CH3
11′	2.04, s	10.3, CH3	2.02, s	10.4, CH3	2.02, s	11.0, CH3	1.87, s/1.87, s	10.1/10.1, CH3
1″	a 3.61, d (8.6) b 3.67, d (8.6)	17.2, CH2	4.89, q (7.5)	24.1, CH	3.57, br s	18.1, CH2	4.29, t (7.2)/4.32, t (7.2)	30.5/30.4, CH
2″			1.55, d (7.4)	16.4, CH3			2.36, m/2.36, m	23.6/23.9, CH2
3″							2.04, m/2.04, m	32.7, CH2
4″								174.0/174.1, C
8-OH							13.15, s
6′-OH	12.39, s		12.90, s
8′-OH							13.33, s

). Careful analysis of the NMR data of compound 1 revealed the typical signals to citrinin [21,22], which suggested a similar fragment of citrinin in the structure (fragment A). Further ¹H-¹H COSY correlation information between H-10 (δ_H 1.20, d, 7.2)/H-4 (δ_H 3.03, dq, 7.2, 13.4)/H-3 (δ_H 4.74, dq, 6.6, 13.4)/H-9 (δ_H 1.17, d, 6.6) and HMBC correlations from H₃-11 (δ_H 1.90, C) to C-5 (δ_C 126.6, C), C-6 (δ_C 187.3, C), and C-4a (δ_C 135.5, C); H-4 (δ_H 3.03, dq, 7.2, 13.4) to C-4a (δ_C 135.5, C), C-5 (δ_C 126.6, C), and C-8a (δ_C 107.3, C); H-1 (δ_H 8.09, s) to C-8a (δ_C 107.3, C) and C-4a (δ_C 135.5, C); H-3 (δ_H 4.74, dq, 6.6, 13.4) to C-4a (δ_C 135.5, C) and C-1 (δ_C 157.7, CH) confirmed the presence of fragment A. The remaining NMR signals indicated the existence of the fragment of dihydrocitrinone (fragment B) [23]. The ¹H-¹H COSY correlation information between H-10′ (δ_H 1.21, d, 7.2)/H-4′ (δ_H 3.08, dq, 7.2, 13.4)/H-3′ (δ_H 4.71, dq, 6.6, 13.4)/H-9′ (δ_H 1.07, d, 6.6), together with the HMBC correlations from H₃-11′ (δ_H 2.04, s) to C-5′ (δ_C 115.7, C), C-6′ (δ_C 161.9, C), and C-4a′ (δ_C 140.7, C); H-4′ (δ_H 3.08, dq, 7.2, 13.4) to C-4a′ (δ_C 140.7, C), C-5′ (δ_C 115.7, C), and C-8a′ (δ_C 98.0, C) confirmed the presence of fragment B. The HMBC correlations from H_a-1″ (δ_H 3.61, d, 8.6) and H_b-1″ (δ_H 3.67, d, 8.6) to C-7 (δ_C 113.0, C), C-6 (δ_C 187.3, C), C-8 (δ_C 161.9, C), C-7′ (δ_C 111.7, C), C-6′ (δ_C 161.9, C), and C-8′ (δ_C 157.7, C) (Supplementary Materials Figure S9). established the planar structure of 1 by linking the above two fragments via C-1″ (Figure 2).

Since 1 has two stereoclusters separated by two six-membered rings joined by a methylene group, the relative configuration of each stereocluster was addressed independently. The NOESY correlation of H-4 and H₃-9 indicated these protons were cofacial and situated in the α-orientation randomly, and the NOESY correlation of H-3 and H₃-10 suggested that H-3 and H₃-10 were β-oriented in fragment A (Supplementary Materials Figure S10). Meanwhile, the NOESY correlation of H-4′ and H₃-9′ suggested that H-4′ and H₃-9′ were in the β-orientation, while the H-3′ and H₃-10′ were in the α-orientation in fragment B (Figure 3). Compound 1 represents a rare carbon skeleton because of the two citrinin analogues decarboxylates connected through a unique carbon-bridging center. Biosynthetically, this rare skeleton is proposed to originate from a polyketide pathway [24] and the absolute configurations of C-3, C-4, C-3′, and C-4′ were established as 3R, 4S, 3′R, 4′S [14,18,25]. To verify the absolute configurations of 1, the quantum chemical ECD calculation was performed. By comparing the predicted ECD curves and the experimental curves, the absolute configuration of C-3, C-4, C-3′, and C-4′ of 1 was unambiguously assigned as 3R, 4S, 3′R, 4′S (Figure 4).

Dicitrinone H (2) was isolated as orange-yellow amorphous powder with a molecular formula of C₂₆H₃₀O₇, determined by its HR-ESI-MS m/z 455.2062 [M + H]⁺ (calculated: 455.2070), indicating 12 degrees of unsaturation. NMR data of compounds 2 and 1 are extremely similar (see Table 1), indicating the same type of fragment. Compared with 1, 2 showed an additional methyl signal [δ_H 1.55, d, (7.4) and δ_C 16.4 (CH₃)] and methine signal [δ_H 4.89, q (7.5), and δ_C 24.1 (CH)], while the methylene signal [δ_H 3.62, q (8.6) and δ_C 17.2 (CH₂)] in 1 was absent in 2, indicating that 2 is a C-1″-CH₃ derivative of 1 (Supplementary Materials Figures S14 and S15). The ¹H-¹H COSY correlation information between H-1” (δ_H 4.89, q, 7.5)/H-2” (δ_H 1.55, d, 7,4) and the HMBC correlations from H₃-2″ (δ_H 1.55, d, 7.4) to C-1″ (δ_C 24.1, CH), C-7′ (δ_C 115.7, C) and C-7 (δ_C 117.1, C) were further confirmed with the above proposal (Figure 2).

Similarly, the relative configuration of 2 was deduced based on the NOESY correlations and the absolute configuration was established as 3R, 4S, 1″R, 3′R, 4′S according to biological pathways [24] and the quantum chemical ECD calculation.

Dicitrinone I (3) was isolated as orange-yellow colloidal with a molecular formula of C₂₅H₃₀O₆, determined by its HR-ESI-MS m/z 427.2114 [M + H]⁺ (calculated: 427.2121), indicating 11 degrees of unsaturation. Comprehensive analyses of the 1D NMR (Table 1) spectra of 3 with those of 1 suggested 3 was highly similar to 1. The major differences between them were the appearance of an oxygenated methylene signal [δ_H 4.49 (s) and δ_C 59.0 (CH₂)] in 3 instead of a carbonyl carbon signal [δ_C 168.8 (C)] in 1, suggesting that 3 is a hydrogenated analogue of 1. The observed HMBC correlations from H₂-1′ (δ_H 4.49, s) to C-8a′ (δ_C 114.6, C), C-8′ (δ_C 147.9, C), C-4a′ (δ_C 135.1, C), and C-3′ (δ_C 73.3, CH) were further confirmed based on the above assumption.

Similar to 1, based on the NOESY correlations, the relative configuration of 3 was deduced and based on the subsequent analyses of the biological pathways [24] and the quantum chemical ECD calculation, the absolute configuration of 3 was established as 3R, 4S, 3′R, 4′S.

Dicitrinone J (4) was isolated as a yellow-brown amorphous powder with a molecular formula of C₂₈H₃₂O₈, determined by its HR-ESI-MS m/z 497.2165 [M + H]⁺ (calculated: 497.2175), indicating 13 degrees of unsaturation. The ¹H and ¹³C NMR spectra (recorded in DMSO-d₆) revealed a mixture of two atropisomers at a ratio of approximately 1:1 according to the ¹H NMR integration. Comprehensive analyses of the NMR spectra of 4 (Table 1) indicated that 4 was a citrinin dimer with a symmetric structure (Figure 2). The ¹H-¹H COSY correlation information between H-1” (δ_H 4.29/4.32, t, 7.2), H-2” (δ_H 2.36/2.36, m), and H-3” (δ_H 2.04/2.04, m) and the observed HMBC correlations from H-1″ (δ_H 4.29/4.32, t, 7.2) to C-2″ (δ_C 23.6/23.9, CH₂) and C-3″ (δ_C 32.7, CH₂), from H-2″ (δ_H 2.36/2.36, m) to C-1′′ (δ_C 30.5/30.4, CH) and C-4′′ (δ_C 174.0/174.1, C), from H-3″ (δ_H 2.04/2.04, m) to C-1′′ (δ_C 30.5/30.4, CH), C-2″ (δ_C 23.6/23.9, CH₂), and C-4′′ (δ_C 174.0/174.1, C); at the same time, the observed correlations from H-1″ (δ_H 4.29/4.4.32, t, 7.2) to C-6 (δ_C 186.1/186.3, C), C-6′ (δ_C 186.6/186.6, C), C-7 (δ_C 116.1/116.2, C), C-7′ (δ_C 116.3/116.6, C), C-8 (δ_C 163.4/164.0, C), and C-8′ (δ_C 163.8/163.8, C) indicated a butyric acid chain which attached to two citrinin decarboxylates through a C-7, C-1″, and C-7′ bridge. (Figure 2). The butyric acid chain, which increased the molecular asymmetry, could hinder the free rotation of the two citrinin decarboxylate segments through the -C-7/7′-C-1″- single bond. Two atropisomers were stabilized due to restricted rotation and the intramolecular hydrogen bonds between the two segments. This observation was confirmed by the active hydrogen resonances [δ_H 13.33 (OH-8′) and 13.15 (OH-8)] in the ¹H NMR spectrum (Supplementary Materials Figure S34). These combined analyses could explain why the two atropisomers were captured simultaneously by NMR in a 1:1 ratio.

Similar to 1, based on the NOESY correlations, the relative configuration of 4 was deduced and based on the subsequent analyses of the biological pathways [24] and the quantum chemical ECD calculation, the absolute configuration of 4 was established as 3R, 4S, 3′R, 4′S. Compounds 5–9 (Figure 1) were identified as the known Dicitrinone B (5) [14], Dictrinone C (6) [14], Citrinin H1 (7) [15,16], Penidicitrinin B (8) [17], and Penicitrinone A (9) [18,19,20], by comparing their NMR data with that reported in the literature.

2.2. Evaluation of Antifungal Activity

Colletotrichum gloeosporioides, an important phytopathogenic fungus, mainly infects tropical fruits and results in serious anthracnose [26]. Compounds 1–9 were tested by mycelial growth rate assay against Colletotrichum gloeosporioides [27]. The results (

Table 2. Antifungal activities of compounds 1–9 (LD₅₀, µg/mL).

Compd.	Colletotrichum gloeosporioides	Compd.	Colletotrichum gloeosporioides
1	16.14	6	0.61
2	10.23	7	5.31
3	9.58	8	7.58
4	9.63	9	4.34
5	8.87	Carbendazim *	49.58

* Carbendazim serves as a positive control.

) showed that 6 had the strongest antifungal activities against Colletotrichum gloeosporioides with LC₅₀ values of 0.61 μg/mL. According to their structural characteristics, citrinin monomers and methylene bridges may be important to the antifungal activities. Their bioactivities decreased when the methylene bridge was replaced by an alkane, or the length of the alkane bridge was increased. Meanwhile, if citrinin was oxidized or reduced, its antifungal activities would be weakened.

2.3. Cytotoxic Assays

As there is no clinically effective drug for pancreatic cancer [28], we selected Doxorubicin hydrochloride as the positive control for the cytotoxic activity test. Based on the cytotoxicity assay [29] (

Table 3. Cytotoxic activities of 1–9 in BXPC-3 and PANC-1 cell lines (IC₅₀, μM).

Compd.	BXPC-3	PANC-1
1	12.25 ± 2.85	24.33 ± 2.10
2	>50	39.54 ± 2.50
3	>50	>50
4	>50	>50
5	>50	>50
6	>50	>50
7	32.25 ± 3.82	49.85 ± 1.11
8	>50	>50
9	>50	>50
Doxorubicin hydrochloride *	18.24 ± 2.84	24.00 ± 3.65

* Doxorubicin hydrochloride serves as a positive control.

), 1 was more significantly cytotoxic against human BXPC-3 cell lines than the Doxorubicin hydrochloride and similar results were obtained against human PANC-1 cell lines with the positive control.

To explore the possible mechanism of the cytotoxic activity of 1, the top 105 potential mechanism genes for 1 have been predicted with the Swiss Target Prediction database [30]; genes related to pancreatic cancer were selected from the GeneCards database to construct the receptor database and 94 overlapping genes were obtained from the Venn diagram. A protein-protein interaction (PPI) network was established by the STRING 11.5 database [31] and Cytoscape 3.9.0 software to screen the critical targets and the size and the color of the symbols represented the degree scores in the network analysis [32]. The analysis results of the PPI indicated that CASP3 has the most degree scores, which means CASP3 could be the essential protein for 1 (Figure 5 A,B). We verified it via a Western blot experiment in vitro and found that 1 could affect CASP3 expression (Figure 5C), which reportedly plays a crucial role in the cell apoptosis pathway [33,34,35]. Therefore, we hypothesized that 1 might promote BXPC-3 apoptosis by affecting the activation of CASP3.

3. Materials and Methods

3.1. General Experimental Procedures

Details of the instrumentations and materials used in this work are included in the Supplementary Materials.

3.2. Fungal Materials, Extraction, and Fermentation

Penicillium sp. GGF 16-1-2 fungus was isolated from starfish in the South China Sea [36]. The strain was stored in the Laboratory of Marine Natural Medicine, School of Pharmaceutical Sciences, Guangzhou University of Chinese Medicine (No. GGF16-1-2).

The fungus Penicillium sp. GGF 16-1-2 was cultured under static conditions at 28 °C in 1 L Erlenmeyer flasks containing 400 mL of the culture medium comprising 10 g monosodium glutamate, 40 g maltose, 13 g yeast extract, 3 g magnesium sulfate heptahydrate, 5 g monopotassium phosphate, 5 g tryptophan, 1 L pure water, and 50 g sorbitol (in seawater). After 60 days of cultivation, 30 L of whole broth was filtered through cheesecloth to separate the supernatant from the mycelia. The former was extracted three times with EtOAc. The culture was extracted thrice with EtOAc and the pooled organic solvent was evaporated to dryness under vacuum to afford a crude extract (111.9 g).

Soybean culture medium: 50 g (≥24 mesh) soybean grains, 33% sea salt, 85 mL pure water, pH natural. A 5.0 mL seed solution was inoculated into soybean culture medium (50 g/1 L/bottle) and a total of 10 L was cultured. The medium was placed in a room at 28 °C for 45 days. The ethyl acetate extract was soaked with ethyl acetate (500 mL ethyl acetate/bottle, 24 h/time, 3–5 times). The ethyl acetate extract was condensed under reduced pressure to yield 5.8 g of the EtOAc residue.

3.3. Isolation

The EtOAc soluble fraction (111.9 g) was subjected to a silica gel column chromatography (Si CC, 165 kg, 10 cm × 110 cm) and eluted with a gradient of petroleum ether-ethyl acetate (V_PE:V_EtOAc = 100:0 to 0:100, v/v) to afford six fractions [Fr.1 (0.4 g), Fr.2 (4.0 g), Fr.3 (10.0 g), Fr.4 (5.9 g), Fr.5 (40.0 g), and Fr.6 (18.9 g)]. Fr.2 (4.0 g) was separated by Sephadex LH-20 gel column chromatography (Sephadex LH-20, 100 g, 3 cm × 200 cm) and eluted with methyl alcohol to yield five subfractions (Fr.2-1–Fr.2-5). Fr.2-1 (339 mg) was fractionated by SP-HPLC (Kromasil semi-preparative column, 10 mm × 250 mm, 5 µm Akzo Nobel, Sweden), eluting with MeOH:H₂O (V_MeOH:V_H2O = 80:20, 2.0 mL/min) to yield compounds 5 (t_R = 49.14 min, 15.0 mg) and 1 (t_R = 48.9 min, 45.8 mg). Fr.2-4 (1.0 g) was purified by HPLC (flow rate: 1.5 mL/min) with V_MeOH: V_H2O = 80:20 as the mobile phase, yielding compound 2 (t_R = 64.7 min, 35.5 mg). Fr.2-5 (2.5 g) was purified by HPLC (flow rate: 1.5 mL/min) with V_MeOH:V_H2O = 80:20 as the mobile phase, yielding compound 6 (t_R = 66.1 min, 31.9 mg).

Fr.3 (10.0 g) was recrystallized to obtain a red solid by MeOH, namely compound 7 (33 mg). The MeOH soluble fraction was separated by Sephadex LH-20 gel column chromatography (Sephadex LH-20, 100 g, 3 cm × 200 cm) and eluted with MeOH to yield five subfractions (Fr.3-1–Fr.3-5). Fr.3-3 (1.7 g) was purified by HPLC (flow rate: 1.5 mL/min) with MeOH:H₂O = 80:20 as the mobile phase to afford 15 peaks. Peak 4 (t_R =13.2 min, 52.1 mg) was further purified on a SP-HPLC (V_MeOH:V_H2O = 75:25, 4.0 mL/min) to obtain 3 (t_R = 47.3 min, 21.7 mg); peak 5 (t_R =14.1 min, 32.7 mg) was purified again on a SP-HPLC (V_MeOH:V_H2O = 75:25, 2.0 mL/min) to yield 8 (t_R = 38.4 min, 3.3 mg) and, similarly, compound 4 (t_R = 38.4 min, 55.7 mg) was isolated from peak 7 (t_R =18.3 min, 111.8 mg).

The ethyl acetate extract of soybean extract (5.8 g) was separated by ODS (400 g, 40–60, Φ = 5.5 cm, l = 43/62 cm, column volume 800 mL), eluting with V_MeOH:V_H2O (40:60, 50:50, 60:40, 70:30, 80:20, 90:10, 100:0) to afford eight fractions (Fr.1-Fr.8). Fr.6 (160.3 mg) was purified by HPLC (PFP chromatographic column: ACE 10 C-18-PFP, 250 mm × 10 mm, 4.0 mL/min) with V_MeOH:V_H2O = 70:30 as the mobile phase, yielding compound 9 (t_R = 24.4 min; 33.0 mg).

3.4. Structural Characterizations of the New Compounds 1–4

Dicitrinone G (1): orange-yellow amorphous powder (MeOH), [α${]}_D^{20}$ −35.2 (c 0.10, MeOH); UV (MeOH) λ_max (log ε): 202 (3.74), 280 (3.07), 320 (3.02) nm; IR (neat) ν_max: 3280, 1639, 1511, 1477cm⁻¹; HRESIMS m/z: 441.1906 [M + H]⁺ (calcd for C₂₅H₂₉O₇, 441.1913 [M + H]⁺); ¹H NMR (400 MHz) and ¹³C NMR (100 MHz) data in DMSO-d₆, see Table 1.

Dicitrtinone H (2): orange-yellow amorphous powder (MeOH), [α${]}_D^{20}$ −82.7 (c 0.10, MeOH); UV (MeOH) λ_max (log ε): 202 (2.42) nm, 280 (4.04) nm, 320 (4.26) nm; IR (neat) ν_max: 3259 cm⁻¹, 1718 cm⁻¹, 1646 cm⁻¹, 1509 cm⁻¹, 1452 cm⁻¹; HRESIMS m/z: 455.2062 [M + H]⁺ (calcd for C₂₆H₃₁O₇,455.2070 [M + H]⁺); ¹H NMR (400 MHz) and ¹³C NMR (100 MHz) data in DMSO-d₆, see Table 1.

Dicitrinone I (3): orange-yellow colloidal (MeOH), [α${]}_D^{20}$ −50.9 (c 0.13, MeOH); UV (MeOH) λ_max (log ε): 280 (3.11) nm, 343 (4.44) nm; IR (neat) ν_max: 3288 cm⁻¹, 1644 cm⁻¹, 1544 cm⁻¹; HRESIMS m/z: 427.2114 [M + H]⁺ (calcd for C₂₅H₃₁O₆, 427.2121 [M + H]⁺); ¹H NMR (400 MHz) and ¹³C NMR (100 MHz) data in DMSO-d₆, see Table 1.

Dicitrinone J (4): yellow-brown amorphous powder (MeOH), [α${]}_D^{20}$ −82.7 (c 0.10, MeOH); UV (MeOH) λ_max (log ε): 202 (3.72) nm, 280 (2.63) nm, 340 (3.16) nm; IR (neat) ν_max: 3403 cm⁻¹, 1718 cm⁻¹, 1631 cm⁻¹; HRESIMS m/z: 497.2165 [M + H]⁺(calcd for C₂₈H₃₃O₈, 497.2175 [M + H]⁺); ¹H NMR (400 MHz) and ¹³C NMR (100 MHz) data in DMSO-d₆, see Table 1.

3.5. Antifungal Activity Assay

Initial evaluations of the antifungal activity of the purified compounds were conducted against Colletotrichum gloeosporioides by mycelial growth rate assay. Compound solutions with different concentrations were prepared (three replicates for each concentration) and poured into petri dishes for later use. A PDA medium plate with sterile water was used as a control. The cultured pathogen cakes were taken with a sterile perforator and inoculated into the center of the PDA medium plate. The pathogen cakes were placed in a constant temperature incubator at 28 °C for 3 days. The positive control was carbendazim. The colony diameter was measured by the cross-bonded method and the inhibition rate of mycelium growth was calculated.

3.6. Cytotoxic Assays

The toxicity vitalities of 1–9 and doxorubicin hydrochloride were examined by the MTT assays. A 100 μL cell suspension in the culture medium was added into a 96-well plate with a seeding density of 7000 cells per well. The plate was incubated at 37 °C in 5% CO₂ for 12 h. Then the medium was replaced with freshly prepared growth media containing 1–9 at different concentrations of 0 μM, 1 μM, 2 μM, 4 μM, 8 μM, 16 μM, 32 μM, 64 μM, and 128 μM. After 24 h of incubation, 20 μL of 5 mg/mL MTT solution was then added to each well. After 4 h, the MTT medium was removed and 200 μL DMSO was added to each well. After incubating for 10 min, the absorbance at 570 nm was determined with a plate reader.

3.7. Quantum Chemical Calculations

The random conformational searchs of 1–4 were performed by the SYBYL X 2.1.1 program using a MMFF94s molecular force field, with an energy cutoff of 10 kcal mol⁻¹ to the global minima, which afforded 8, 11, 12, and 19 conformers, respectively. All the obtained conformers were subsequently optimized by using Gaussion09 software at B3LYP/6-31+G(d) level in the gas phase, which afforded 6, 4, 4, and 11 stable conformers, respectively. These optimized stable conformers were next subjected for further ECD calculations at the B3LYP/6-31+G(d) level in methanol. The overall ECD spectrums of 1–4 were weighted by Boltzmann distribution and subsequently compared with the experimental ones, respectively. The ECD spectra were produced by SpecDis 1.70.1 software [11,12,13,37,38,39,40,41].

3.8. Targets Prediction

The SMILES format files of compound 1 were uploaded to the Swiss Target Prediction database (http://www.swisstargetprediction.ch/; accessed on 15 May 2022) to predict the target’s information. The GeneCards database (https://www.genecards.org; accessed on 17 May 2022) was used to predict potential targets for pancreatic cancer. The STRING database (https://string-db.org/cgi/input.pl; accessed on 18 May 2022) analyzed the common gene symbols to construct a PPI network. The network analysis was visualized by Cytoscape 3.9.0 software based on the score of the protein interaction.

3.9. Western Blot Assays

BXPC-3 cells were incubated at 37 °C under 5% CO₂ atmosphere. For quantitative Western blot analysis, 70–80% confluent cells were seeded at 2 × 10⁵/per well onto 6-well plates for 12 h, followed by stimulation with 2.5 μM, 3.0 μM 1 for 24 h. The cultured cells were first washed twice with precooled PBS, followed by the addition of a RIPA lysis buffer combined with a mixture of proteases or phosphatase inhibitors to lyse the total protein, and then the protein concentration was quantified by a BCA protein assay kit (Solarbio, Beijing, China) according to the manufacturer’s instructions. Equal amounts of protein extract were separated on a 12% SDS-PAGE gel and electrotransferred to 0.22 mm PVDF membranes using a Bio-Rad wet transfer tank. After blocking with 5% nonfat milk at room temperature for 2 h, membranes were incubated with the specific antibodies targeting caspase 3 (wanlei, 1:1000) and β-actin (Affinity, 1:1000) at 4 °C overnight. After incubating with the appropriate horseradish peroxidase (HRP)-conjugated secondary antibodies (CST), protein bands were detected using an enhanced chemiluminescence kit (Millipore, WBLUR0500) and imaged. Band intensities were quantified using Image J software.

3.10. Statistical Analysis

Statistical analysis was performed using GraphPad Prism and SPSS 22.0 software. Data are expressed as the mean ± standard deviation (SD) and are representative of at least three experiments. p < 0.05 was considered to indicate a statistically significant difference.

4. Conclusions

Four novel, rare carbon-bridged citrinin dimers were discovered from the starfish-derived symbiotic fungus Penicillium sp. GGF16-1-2. Compounds 1–6 were typical 7, 7′carbon-bridged citrinin dimers, likely formed by decarboxylation, dehydration, reduction, and condensation of short-chain fatty acids of carboxyl carbon on two citrinin units C-7 [10,14,20,21]. Because of structural specificity, 6 showed strong antifungal activity against Colletotrichum gloeosporioides, with LC₅₀ values of 0.61 μg/mL. Meanwhile, 1 showed significant cytotoxicity against human pancreatic cancer cell lines BXPC-3 and PANC-1. We further attempted to propose the possible mechanism by network pharmacology and Western blot and it showed that 1 might promote BXPC-3 apoptosis by affecting the activation of CASP3.