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Massiliamide, a cyclic tetrapeptide with potent tyrosinase inhibitory properties from the Gram-negative bacterium Massilia albidiflava DSM 17472T

Abstract

A cyclic tetrapeptide, designated massiliamide, was isolated from the liquid culture of the Gram-negative bacterium Massilia albidiflava DSM 17472T. The structure was elucidated through extensive spectroscopic analysis, including HR-MS and 1D and 2D NMR experiments. The absolute configuration was determined using the Marfey´s method. Massiliamide showed potent inhibitory activity towards tyrosinase with an IC50 value of 1.15 µM and no cytotoxicity.

Massilia spp. were first isolated in a human pathogenic context [1, 2] and later recognized also as air, soil, water, or plant-associated bacteria [3]. The genus Massilia is the most species-rich genus of the Oxalobacteraceae [4] and comprises currently 45 validly published species [5]. Preliminary genomic investigations indicated a significant biosynthetic potential [6]. However, despite their abundance in nature and diversity, little is known about their secondary metabolism. Natural products previously detected or isolated from Massilia species include indole acetic acid [7], polyhydroxyalkanoates [8], violacein [9], dimethyl disulfide [10], an agrochelin diastereomer [11], and homoserine lactones [12]. In this study, we analyzed the type strain Massilia albidiflava DSM 17472T, originally isolated from heavy metal polluted soil in Nanjing, Jiangsu Province, China [13], and present the MS-guided isolation, structure elucidation, and biological evaluation of massiliamide (1).

A subset of publicly available Massilia strains was selected (Table S1), and a liquid media screening was performed to identify new metabolites in butanol whole broth extracts by LC/MS. The screening dereplicated a variety of known metabolites, however when grown in a minimal medium, M. albidiflava DSM 17472T produced a protonated unknown molecule at m/z 457 (Table S3). The cultivation was upscaled to 30 l and carried out in 15 5-l Erlenmeyer flasks, each containing 2 l of modified DMB medium (Table S2). The flasks were incubated on an orbital incubator shaker for 48 h at 30 °C and 140 rpm. Subsequently, the cells were separated from the fermentation broth by centrifugation at 4400 rpm for 30 min at 10 °C. The metabolites, secreted into the culture medium were recovered by adsorption onto Diaion HP20 resin (30 g l−1, shaking at 120 rpm for 4 days at 5 °C). The resin was filtered, washed twice with purified H2O and then, the adsorbed compounds were eluted stepwise under vacuum with solvents of decreasing polarity, ranging from a mixture of 10:90 MeOH–H2O to pure methanol, to give five fractions, A–E. Low-resolution LC/MS profiling indicated the third fraction to be of further interest. Separation of fraction C (76.3 mg) by RP-HPLC was performed in gradient elution mode, employing a linear gradient of 10:90 to 100:0 MeCN-H2O (0.1% TFA) over a period of 19 min, followed by isocratic elution at 100:0 for an additional 6 min (Phenomenex Luna Omega Polar column, 4.6 × 250 mm, 5 µm; 0.8 ml min−1 flow rate, UV monitoring at 254 and 280 nm), and provided massiliamide (1) in a semi pure form. The second round of purification was done, applying a linear gradient of 10:80 to 100:0 MeCN-H2O (0.1% TFA) over a period of 8 min, followed by isocratic elution at 100:0 for an additional 8 min (Phenomenex Luna C5 column, 4.6 × 250 mm, 5 μm; 0.5 ml min−1 flow rate; UV monitoring at 254 and 280 nm), and yielded pure 1 (tR 10.5 min, 5.1 mg).

The physico-chemical properties of 1 are summarized as follows: Amorphous, yellow bright opaque powder; [α]\({\,}^{25}_{D}\) − 20 (c 0.040, MeOH); UV (MeOH) λmax nm (ε) 229 (4000), 293 (900); FT-IR (ATR) νmax 3300, 2950, 1660, 1560, 1410, 1360 cm-1; 1H NMR and 13C NMR data, see Table 1; positive HR-ESIMS m/z 457.2443 [M + H]+ (calc. for C24H33N4O5 457.2451, Δ = −1.7 ppm): The molecular formula of C24H32N4O5 was provided by HR-ESIMS and supported by NMR spectroscopic data. The IR spectrum of 1 implied the presence of OH groups, amide bonds, and an aromatic system. The 1H and 13C NMR data (Table 1) suggested that 1 was of peptidic nature due to the presence of two broad exchangeable NH singlets (δH 7.88, 7.98), four α-H multiplets (δH 3.80–4.30), several high field signals (δH 0.80–3.50), and four putative ester/amide carbonyl 13C signals (δC 165.2–170.3). Furthermore, in the 1H NMR spectrum, two mutually coupled aromatic 2H doublets (δH 6.63, 7.04) were observed, indicating a para-disubstituted benzene system. These data suggested that 1 represents a tetrapeptide, containing one aromatic and three aliphatic amino acids. A 1H-13C-HSQC-TOCSY experiment for 1 identified spin systems for one valine and two proline amino acid residues (Fig. 1). Interpretation of the 1H–13C-HSQC, selective gradient 1D-TOCSY, and 1H–15N-HSQC NMR spectra, recorded for 1, allowed the assignment of each proton with its corresponding carbon and nitrogen resonance, respectively (Table 1). The remaining independent spin system of the type X-NH-CH-CH2-X´, together with 1H–13C-HMBC correlations from β-H2 (Tyr) to the γ- and ortho-carbons of the disubstituted benzene and the presence of two other quarternary aromatic carbons (δC 127.0, 155.9), thereof one oxygenated, established the tyrosine unit (Fig. 1). Consideration of the 1H–13C long-range resonances, observed between the β-protons to the corresponding carbonyl group completed the full shift assignment of each amino acid. However, resonances overlap between Tyr/Val carbonyls (δC 165.07, 165.24) and Pro/Val β-carbons (δC 27.66, 27.82, 27.85) were first ambiguous due to insufficient digital resolution, which was overcome by the application of band-selective HMBC experiments focused on these regions (Figs. S12S13).

Table 1 1H (400 MHz), 13C (100 MHz), and 15N (41 MHz) NMR spectroscopic data for massiliamide (1) in d6-DMSO
Fig. 1
figure1

a Key correlations observed in 1H–1H-COSY / 1H–13C-HSQC-TOCSY (bold lines), 1H–13C-HMBC (red arrows), and 1H–1H-NOESY (dashed blue lines) NMR spectra of 1. b Structure of massiliamide (1). c Structure of an unnamed Lactobacillus-derived cyclotetrapeptide (2)

In the absence of further sp2 carbons and having accounted for 10 of 11 elements of unsaturation, 1 was determined to be monomacrocyclic. The connectivity among the deduced amino acids was elucidated by the 1H–13C long-range couplings between δ-H2 (Pro1)/CO (Val), δ-H2 (Pro2)/CO (Tyr), α-H (Tyr)/CO (Pro1), NH (Tyr)/CO (Pro1) along with NOE correlations of NH (Tyr)/α-H (Pro1), and NH (Val)/α-H (Pro2) (Fig. 1) established the amino acid sequence.

The absolute configuration of the amino acids was clarified by Marfey´s method [14] applied to the acid hydrolysate of 1 in comparison with standard amino acids (Fig. S17) and was found to be 2 × L-Pro, 1 × D-Tyr, and 1 × D-Val (Fig. 1). Since amides attached through a proline nitrogen are known to be capable of existing as equilibrating rotamers, the geometry of the proline peptide bonds required resolution. According to empirical rules, 13C NMR chemical shift differences between proline β and γ carbon resonances are characteristic of cisβγ 8–12 ppm) vs. transβγ 2–6 ppm) rotamers, respectively [15]. Thus, the 13C NMR data indicated that both proline peptide bonds were trans configurated, as shown by the small chemical shift differences of Pro1 Δβγ = 6.0 and Pro2 Δβγ = 5.8, respectively (Table 1).

According to a literature search, 1 possesses the same planar structure as an unnamed cyclotetrapeptide (2) which was isolated from the Gram-positive bacterium Lactobacillus helveticus JCM 1120 [16]. However, the two compounds differed in the absolute configuration of the involved amino acids (Pro1-Tyr-Pro2-Val). While 1 displays a L/D/L/D-configuration, the Lactobacillus-tetrapeptide (2) represents the corresponding all-L-version, also with both proline peptide bonds in trans configuration (Fig. 1). Thus, 1 is a new stereoisomer of 2 and we therefore suggest the trivial name massiliamide for 1.

In standardized antimicrobial assays by broth microdilutions, 1 was inactive up to the highest concentration tested (64 µg ml−1) and showed no cytotoxicity towards the HeLa cell line at 64 µg ml−1 (Table S4). However, in a tyrosinase inhibition assay, 1 proved with an IC50 value of 1.15 µM to be a potent tyrosinase inhibitor which surpassed readily the activities of the positive controls arbutin and kojic acid (Table S5, Figs. S18 and S19).

In summary, we isolated a new tetrapeptide with potent tyrosinase inhibitory activity, which we designated massiliamide (1). Considering the chemical space [17,18,19] of the so far known tyrosinase inhibitors, 1 represents a member of the rather rare class of natural peptide-based tyrosinase inhibitors [17, 20]. The enzyme tyrosinase is involved in melanogenesis and determines the color of skin and hair. Furthermore, unfavorable enzymatic browning of plant-derived food products is also mediated by tyrosinase and causes a significant economic loss. Thus, nontoxic and potent inhibitors such as massiliamide may find application in cosmetics and medical industry as depigmentation agents as well as in food and agricultural industries as antibrowning compounds.

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Acknowledgements

We kindly thank Dr. Wistuba (Mass Spectrometry Department, Institute for Organic Chemistry, University of Tübingen, Germany) for HR-MS measurements and Dr. Luqman (Microbial Genetics Department, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), University of Tübingen, Germany) for technical assistance concerning the tyrosinase assay. AF gratefully acknowledges the Program for Research and Innovation in Science and Technology (RISET-Pro)/World Bank Loan No. 8245 for a granted Ph.D. scholarship. HB-O acknowledges the support of the German Center for Infection Research (DZIF).

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Frediansyah, A., Straetener, J., Brötz-Oesterhelt, H. et al. Massiliamide, a cyclic tetrapeptide with potent tyrosinase inhibitory properties from the Gram-negative bacterium Massilia albidiflava DSM 17472T. J Antibiot 74, 269–272 (2021). https://doi.org/10.1038/s41429-020-00394-y

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