Next Article in Journal
The Effect of Modifying the C9 Position of Fluorene with N-Donor Substituents on Selected Physicochemical Properties
Next Article in Special Issue
Impact of Photoselective Nets on Phenolic Composition and Antioxidant Capacity in Different Apple Cultivars Under the Same Edaphoclimatic Conditions
Previous Article in Journal
A Comprehensive Review of the Phytochemistry and Therapeutic Efficacy of Viola yedoensis Makino
Previous Article in Special Issue
Phytochemical Profile, Antioxidant Capacity and Anticancer Potential of Water Extracts from In Vitro Cultivated Salvia aethiopis
 
 
Font Type:
Arial Georgia Verdana
Font Size:
Aa Aa Aa
Line Spacing:
Column Width:
Background:
Article

Dynamic Variation of Secondary Metabolites from Polygonatum cyrtonema Hua Rhizomes During Repeated Steaming–Drying Processes

by
Shuzhen Wang
1,2,†,
Feng He
1,2,†,
Ruibin Hu
1,
Xuchun Wan
1,
Wei Wu
1,
Lei Zhang
1,
Chi-Tang Ho
3 and
Shiming Li
1,3,*
1
Lishizhen College of Traditional Chinese Medicine, Huanggang Normal University, Huanggang 438000, China
2
Hubei Key Laboratory of Germplasm Improvement and Utilization of Genuine Medicinal Materials in Dabie Mountains, Huanggang 438000, China
3
Department of Food Science, Rutgers University, New Brunswick, NJ 08901, USA
*
Author to whom correspondence should be addressed.
These authors contributed equally to this paper.
Molecules 2025, 30(9), 1923; https://doi.org/10.3390/molecules30091923
Submission received: 6 March 2025 / Revised: 11 April 2025 / Accepted: 12 April 2025 / Published: 25 April 2025

Abstract

Polygonati Rhizoma, widely used as a traditional functional food and herbal medicine, is well known for its health-promoting activities after the process of “nine cycles of steaming-drying”. Based on UPLC-MS/MS, 1369 secondary metabolites were identified in P. cyrtonema rhizomes, mainly alkaloids, amino acids and derivatives, flavonoids, organic acids, phenolic acids, and saccharides. The P. cyrtonema rhizomes were rich in xylose, arabinose, glucose, sorbose, mannose, galactose, rhamnose, inositol, fucose, sedoheptulose, phosphorylated monosaccharides, sugar acid, and sugar alcohols. Particularly, 23 types of modifications were detected for amino acids, while the most frequent modifications were acetylation, methylation (nono-, di-, and tri-), cyclo-, homo-, and hydroxylation. Based on the metabolic profile, samples from the third cycle (Tre-3) and the sixth cycle (Tre-6) were firstly clustered together due to similar metabolites and then grouped with samples from the ninth cycle (Tre-9). Differentially accumulated metabolites were mainly enriched in “Metabolic pathways”, “Biosynthesis of cofactors”, “Biosynthesis of secondary metabolites”, “Flavonoid biosynthesis”, “Purine metabolism”, “ABC transporters”, “Biosynthesis of amino acids”, and “Nucleotide metabolism” pathways. During repeated steaming–drying processes, 39 metabolites occurred, including alkaloids, amino acids and derivatives, flavonoids, lignans and coumarins, lipids, nucleotides and derivatives, organic acids, phenolic acids, and terpenoids. This research will provide a critical scientific basis for postharvest processing of P. cyrtonema rhizomes.

1. Introduction

Polygonati Rhizoma, prepared from rhizomes of Polygonatum cyrtonema Hua, P. kingianum Coll. et Hemsl, and P. sibiricum Redoute through the process of “nine cycles of steaming-drying process”, has been widely used for thousands of years in China and Southeast Asia [1,2,3]. An example of medicine and food homology, Polygonati Rhizoma is effective in treating diabetes mellitus, influenza, fevers, backache, sexual dysfunction, inappetence, indigestion, mastitis, fatigue, feebleness, dizziness, and lung trouble [4,5]. After repeated steaming–drying processes, Polygonati Rhizoma is broadly used as a main component in functional food and the pharmaceutical industry due to its health-promoting activity, sweet fragrance, and excellent taste [6,7,8]. In particular, Rhizoma Polygonati is often processed into functional wines, teas, and botanical beverages, as well as medicinal diets [9,10].
P. cyrtonema, a typical member of the genus Polygonatum (Asparagaceae) and a rhizome propagating herb, is endemic to China, especially the central and eastern regions [4]. Compared with P. sibiricum and P. kingianum, the dried roots of P. cyrtonema are optimal in quality and yield [11]. The first monograph book on pharmacology in China, Shennong Bencao Jing, classified P. cyrtonema as a top-grade herb [9]. According to growing characteristics, the perennial P. cyrtonema is often growing and cultivated under forest cover [12]. The Dabie Mountains of central China are the main natural distribution and artificial cultivation base for P. cyrtonema. In previous studies, various flavonoids, saponins, polysaccharides, and alkaloids with health-promoting properties have been isolated from P. cyrtonema rhizomes [13,14,15]. Particularly, the flavonoids and other secondary metabolites exhibit remarkable antioxidant, anti-tumor, and immunomodulatory effects [16]. Based on RNA-seq from fruits, leaves, roots, stems, and rhizomes of three-year-old P. cyrtonema plants, 379 differentially expressed genes (DEGs) were obtained, while transcripts of flavonoid-biosynthesis-related DEGs were principally enriched in rhizomes [16]. Transcription factor families MYB, WRKY, and AP2/ERF are positively correlated with rhizome flavonoid accumulation, while the differentially expressed genes of BZIP1, C3H31, ERF114, and DREB21 also accompany the development of P. cyrtonema rhizomes [16]. Flavonoids and polysaccharides are the main medicinal ingredients of P. cyrtonema rhizomes and serve as important indicators of the quality of P. cyrtonema rhizomes [17].
However, the dynamic variation of secondary metabolites in P. cyrtonema rhizomes during repeated steaming–drying processes has not been systematic studied. Furthermore, the necessity of nine cycles should also be confirmed. Metabolomics, the global analysis of large numbers of certain cellular metabolites, shows great potential in elucidating the dynamic variation of secondary metabolites [18,19,20]. In this study, the dynamic changes of P. cyrtonema rhizome metabolites processed through different periods of steaming and drying were deeply analyzed through UPLC-MS/MS, aiming to supply a critical scientific basis for postharvest processing.

2. Results

2.1. Metabolite Identification in P. cyrtonema Rhizomes

In order to ensure stability, 12 libraries for 4 groups of samples were constructed, including Tre-0, Tre-3, Tre-6, and Tre-9, which were subjected to zero, three, six, and nine cycles of steaming–drying, respectively (Figure 1). Based on UPLC-ESI-MS/MS analysis, a list of 1369 secondary metabolites were successfully identified, including 149 alkaloids, 167 flavonoids, 46 lignans and coumarins, 158 lipids, 14 quinones, 19 steroids, 37 terpenoids, 248 amino acids and derivatives, 71 nucleotide compounds, 115 organic acids, and 181 phenolic acids, as well as 164 other compounds including alcohols, aldehydes, chromones, ketones, saccharides, and vitamins (Table 1 and Table S1, Figure 2).
Alkaloids, flavonoids, lignans, and coumarins have been reported to exhibit monoamine oxidase inhibitory activity, antioxidative activity, and antifungal activity, which enable hosts to resist adverse environments [20,21]. In relation to Polygonati Rhizoma, alkaloids, phenolamines, plumeranes, quinoline alkaloids, pyridine alkaloids, pyrrole alkaloids, piperidine alkaloids, isoquinoline alkaloids, tropan alkaloids, and benzylphenylethylamine alkaloids were found to constitute the alkaloids type, which might play important roles in health-promoting activities (Table 1). Furthermore, flavones, flavanones, flavonols, chalcones, isoflavones, flavanols, and flavanonols were found to be the main types of flavonoids, and 11 coumarins and 35 lignans were found to exist in Polygonati Rhizoma. In addition, 80 free fatty acids, 10 glycerol esters, 29 lysophosphatidylcholines (LPC), 31 lysophosphatidylethanolamines (LPE), 1 phosphocholines (PC), and 7 sphingolipids were screened for the lipids class. Regarding the steroids class, 6 steroids and 13 steroidal saponins were found. The terpenoids class consisted of 15 ditepenoids, 10 monoterpenoids, 4 sesquiterpenoids, 7 triterpenoids, and 1 triterpene saponin (Table 1 and Table S1).
The 20 natural amino acids, including Ala, Asn, Asp, Arg, Cys, Gly, Glu, Gln, His, Ile, Leu, Lys, Met, Phe, Pro, Ser, Thr, Tyr, Trp, and Val, were all present in P. cyrtonema rhizomes (Table S1). In addition, a number of non-protein amino acids were also found, such as D-Leu, allysine, jasmonoyl-L-isoleucine, omega-aminoarginine, pyroglutamic acid, palmitoylglycine, L-Homocitrulline, and (3-(carboxyamino)-2-methylpropanoyl) phenylalanine. In total, 22 types of modifications in amino acids were detected, especially acetylation, cyclo-, hydroxylation, methylation (nono-, di-, and tri-), and homo-modification (Table 2). Furthermore, Tyr, Pro, and Gly all had six types of modification, followed by Arg and Cys with five types each. Besides cyclization, Tyr could be modified by acetyl-, hydroxyl-, oxo-, nitro-, and phosphorylation. Regarding Pro, the six types of modifications were cyclization, hydroxylation, monomethylation, homo-, oxo-, and propylation.
In total, nine vitamins and corresponding derivatives were obtained, including both fat-soluble vitamins (vitamin E and vitamin K) and water-soluble vitamins (vitamin C and vitamin B family) (Table S2). Both vitamin K1 and vitamin K2 were present in P. cyrtonema rhizomes. Regarding the vitamin B family, five members were found, including vitamins B2, B3, B5, B6, and B13. A total of four and five derivatives were identified for vitamin B3 and vitamin B5, respectively. However, vitamin B2, vitamin B5, and vitamin B13 all had one derivative.
Among saccharides, 46 monosaccharides, 14 disaccharides, 9 trisaccharides, 4 tetrasaccharides, and 1 pentasaccharide were found (Table 3). In regard to monosaccharides, the carbon numbers ranged from 3 to 7. The P. cyrtonema rhizomes were rich in xylose, arabinose, glucose, sorbose, mannose, galactose, rhamnose, inositol, fucose, and sedoheptulose. In particular, 11 phosphorylated monosaccharides were identified, especially six-carbon monosaccharides. Moreover, 8 monosaccharides were oxidized to sugar acid, while 9 monosaccharides were deoxidized to sugar alcohols. In addition, 3 monosaccharides had lactonization modification. For 1,5-anhydro-d-glucitol and 1,6-anhydro-β-d-glucose, dehydration occurred. Amination took part in both D-glucosamine and N-acetyl-d-galactosamine. The glucopyranose was esterified by 6-hydroxydecanoate. In related to disaccharides, phosphorylated derivatives were found.

2.2. Variation Trends of Metabolites During Repeated Cycles of Steaming and Drying

The majority of secondary metabolites were present in all four groups of samples, while the contents for each metabolite varied in different samples. According to the variation trends of the contents, the 1369 metabolites could be divided into 6 types, including ‘Type I’ (the contents gradually decreased during steaming–drying processes), ‘Type II’ (the contents firstly decreased then increased during steaming–drying processes), ‘Type III’ (the contents firstly decreased, then increased, and finally decreased during steaming–drying processes), ‘Type IV’ (the contents gradually increased during steaming–drying processes), ‘Type V’ (the contents firstly increased then decreased during steaming–drying processes), and ‘Type VI’ (the contents firstly increased, then decreased, and finally increased during steaming–drying processes) (Tables S3 and S4). All the 186 metabolites of ‘Type I’ had the highest contents in Tre-0 samples, but gradually degraded during repeated processing, represented by gluconic acid, (+)-7-iso-jasmonic acid, sorbose, homogentisic acid, verbascose, 4-methylbenzaldehyde, L-citramalic acid, 3-hydroxyglutaric acid, pentadecanoic acid, palmitic amide, cajanin, 2-phenylethylamine, cinnamoyltyramine, and polygonatoside D (Table S4). In relation to ‘Type II’, 86 metabolites were screened, with the lowest values in Tre-3/Tre-6 samples and the highest values in Tre-9 samples (narirutin, citric acid glucoside, isoleucylleucine, riboprine, Gly-Pro-Glu, cis-aconitic acid, and Trp-Pro-Asp). In addition, the variation trends of 109 metabolites were defined as ‘Type III’, with the highest values in Tre-0/Tre-6 and lowest values in Tre-3/Tre-9 samples (benzoylformic acid, nicotinamide, glucosyloxybenzoic acid, β-sitosterol, roseoside, eriodictyol, and 6-hydroxyhexanoic acid). ‘Type IV’ contained 171 metabolites, mainly 8-hydroxyquinoline, D-mannitol, 3-aminosalicylic acid, L-valine, agmatine, and δ-tocopherol. The majority of the metabolites belonged to ‘Type V’ (708), with the highest values in Tre-3 or Tre-6 samples, mainly represented by hexadecanedioic acid, 4-hydroxysphinganine, majoroside, LysoPC 16:0, pimaric acid, and narcissin. For the 109 metabolites belonging to ‘Type VI’, the highest values were found in Tre-3 or Tre-9 samples, mainly comprising phylloquinone, disporopsin, eucommiol, 4-oxopentanoic acid, and p-coumaric acid.
Compared with the treated Rhizoma Polygonati samples (‘Tre-3’, ‘Tre-6’, and ‘Tre-9’), 39 secondary metabolites could not be detected in ‘Tre-0’ sample, including alkaloids (2), amino acids and derivatives (6), flavonoids (7), lignans and coumarins (2), lipids (6), nucleotides and derivatives (3), organic acids (2), others (5), phenolic acids (5), and terpenoid (1) (Table S5). In particular, the representative substances were 1,14-tetradecanedioic acid, 1-α-linolenoyl-glycerol, ricinoleic acid, 8-hydroxyquinoline, 5-O-p-coumaroylquinic acid O-glucoside, D-mannitol, vitamin B2, citric acid-1-O-diglucoside, kaurenoic acid, 6,7,8-tetrahydroxy-5-methoxyflavone, LysoPC 16:0, methoxyapigenin, agmatine, LysoPC 18:3, maltotriose, methylophiopogonanone B, 6-aminocaproic acid, Phe-Ala-Gly, chrysoeriol-7-O-glucoside, N-cis-feruloyl-3′-O-methyldopamine, and narcissin. Furthermore, 4 secondary metabolites could not be detected in Tre-3 samples, including 1 flavone (α-hydroxycinnamic acid), 1 flavonol (4-[3-(4,8-dimethylnona-3,7-dienyl)-3-methyloxiran-2-yl]butan-2-one), 1 organic acid (riboprine), and azetidine-2-carboxylic acid. Additionally, 5 secondary metabolites were totally destroyed in Tre-6 samples, including 1 calyxanthone, α-hydroxycinnamic acid, 4-O-β-d-glucopyranosylferulic acid, and 2 organic acids. For Tre-9 samples, 9 secondary metabolites were destroyed, including 1 alkaloid, 4 flavonoids, 1 azetidine-2-carboxylic acid, and 3 phenolic acids.
Among the 1,369 metabolites, 314 (22.9%), 352 (25.7%), 418 (30.5%), and 285 (20.8%) compounds had the highest contents in the ‘Tre-0’ (Table S6A), ‘Tre-3’ (Table S6B), ‘Tre-6’ (Table S6C), and ‘Tre-9’ samples (Table S6D), respectively. In particular, alkaloids and phenolamine with the highest contents were mainly found in ‘Tre-0’ or ‘Tre-3’ samples (Table 4). Amino acids and derivatives with the highest contents were almost evenly distributed among four Rhizoma Polygonati samples. Among the 63 flavones, 44 were concentrated in ‘Tre-6’ (19) and ‘Tre-9’ (25) samples.
Furthermore, free fatty acids, glycerol ester, LPC, and LPE with the highest contents were mainly found in ‘Tre-3’ and ‘Tre-6’ samples. In addition, nucleotides and phenolic acids with the highest contents were mainly found in ‘Tre-3’ samples. Anthraquinone and ditepenoids with the highest contents were mainly present in ‘Tre-6’ samples. α-hydroxycinnamic acid and 4-[3-(4,8-dimethylnona-3,7-dienyl)-3-methyloxiran-2-yl]butan-2-one were present only in ‘Tre-0’ samples; they were destroyed through repeated steaming–drying processes and could not be detected in ‘Tre-3’, ‘Tre-6’, and ‘Tre-9’ samples. Azetidine-2-carboxylic acid was mainly present in ‘Tre-0’ samples, but was destroyed after three cycles of steaming and drying. The contents of 4-hydroxysphinganine were the highest in ‘Tre-3’ samples, but could not be detected in ‘Tre-9’ samples. In particular, O-β-d-glucopyranosylferulic acid was mainly found in ‘Tre-0’ samples.

2.3. Screening of Differentially Accumulated Metabolites

2.3.1. ‘Tre-0’ Sample vs. ‘Tre-3’ Sample

Compared with ‘Tre-0’ samples, 825 metabolites were differentially accumulated in ‘Tre-3’ samples, including 662 upregulated and 163 downregulated metabolites. These differentially accumulated metabolites included alkaloids, amino acids and derivatives, flavonoids, lignans and coumarins, lipids, nucleotides and derivatives, organic acids, phenolic acids, quinones, steroids, terpenoids, and others (Tables S7 and S8). Among all these differentially accumulated metabolites, 355 metabolites could be enriched into 92 different KEGG pathways (Table S9A). The main differently accumulated metabolites were 2-hydroxycinnamic acid, α-hydroxycinnamic acid, Asp-Tyr-Met, DMelezitose O-rhamnoside, and kaempferol-3-O-glucoside (Figure 3A). “Metabolic pathways” (ko01100), “Biosynthesis of cofactors” (ko01240), “Biosynthesis of secondary metabolites” (ko01110), “ABC transporters” (ko02010), “Biosynthesis of amino acids” (ko01230), and “Nucleotide metabolism” (ko01232) were the main enriched KEGG pathways. In particular, “Linoleic acid metabolism”, “Nucleotide metabolism”, “Purine metabolism”, and “Pyrimidine metabolism” were the main enriched metabolism pathways (Figure S1A).

2.3.2. ‘Tre-0’ Sample vs. ‘Tre-6’ Sample

Compared with ‘Tre-0’ samples, a list of 862 metabolites was differentially accumulated in ‘Tre-6’ samples, containing 674 upregulated and 188 downregulated metabolites (Tables S7 and S8). These differentially accumulated metabolites could be divided into 12 classes, including alkaloids, amino acids and derivatives, flavonoids, lignans and coumarins, lipids (only 126 upregulated), nucleotides and derivatives, organic acids, phenolic acids, quinones, steroids, terpenoids, and others. The main differently accumulated metabolites were α-hydroxycinnamic acid, 2-hydroxycinnamic acid, Asp-Tyr-Met, D-Melezitose O-rhamnoside, and Luteolin-7-O-glucoside (Figure 3B). For these differentially accumulated metabolites, 206 metabolites could be enriched into 91 different KEGG pathways (Table S9B). The typical KEGG pathways were “Metabolic pathways” (ko01100), “Biosynthesis of cofactors” (ko01240), “ABC transporters” (ko02010), and “Nucleotide metabolism” (ko01232), while the numbers of significantly enriched metabolites were 157, 72, 30, 21, and 19, respectively. “Biosynthesis of cofactors”, “Linoleic acid metabolism”, and “Nucleotide metabolism” were the main enriched metabolism pathways (Figure S1B).

2.3.3. ‘Tre-0’ Sample vs. ‘Tre-9’ Sample

Compared with ‘Tre-0’ samples, 916 metabolites were differentially accumulated in ‘Tre-9’ samples, consisting of 645 upregulated and 271 downregulated metabolites (Tables S7 and S8). These differentially accumulated metabolites included alkaloids, amino acids and derivatives, flavonoids, lignans and coumarins, lipids, nucleotides and derivatives, organic acids, phenolic acids, quinones, steroids, terpenoids, and others. For the terpenoids class, all five subclasses were upregulated, while only the contents of monoterpenoids and terpene were downregulated. Among all differentially accumulated metabolites, 221 significantly differently accumulated metabolites could be enriched into 93 different KEGG pathways (Table S9C). The main differently accumulated metabolites were α-hydroxycinnamic acid, 2-hydroxycinnamic acid, Asp-Tyr-Met, and 3-hydroxycinnamic acid (Figure 3C). The typical KEGG pathways were “Metabolic pathways” (ko01100), “Biosynthesis of cofactors” (ko01240), “ABC transporters” (ko02010), and “Biosynthesis of amino acids” (ko01230), while the numbers of significantly enriched metabolites were 173, 36, 31, and 26, respectively. “Biosynthesis of cofactors”, “ABC transporters”, and “2-Oxocarboxylic acid metabolism” were the main enriched metabolism pathways (Figure S1C).

2.3.4. ‘Tre-3’ Sample vs. ‘Tre-6’ Sample

Compared with ‘Tre-3’ samples, 255 metabolites were differentially accumulated in ‘Tre-6’ samples, including 124 upregulated and 131 downregulated metabolites (Tables S7 and S8). These differentially accumulated metabolites could be divided into 12 classes, mainly including alkaloids, amino acids and derivatives, flavonoids, lignans and coumarins, lipids, nucleotides and derivatives, organic acids, phenolic acids, quinones (only 4 downregulated), steroids (only 5 downregulated), and others. For the lipids class, 2 upregulated subclasses were detected, namely LPC and PC, while only the LPE subclass was downregulated. For the terpenoids class, the upregulated subclass was ditepenoids, while the downregulated subclass was monoterpenoids. The main differently accumulated metabolites were D-melezitose O-rhamnoside, kaempferol-3-O-glucoside, 2-aminoheptanedioic acid, and Pro-Ala-Phe (Figure 3D). Among differentially accumulated metabolites, 353 metabolites could be enriched into 60 different KEGG pathways (Table S9D). In particular, 55 metabolites were significantly enriched. The typical KEGG pathways were “Metabolic pathways” (ko01100), “Biosynthesis of cofactors” (ko01240), “Flavonoid biosynthesis” (ko00941), and “ABC transporters” (ko02010), while the numbers of significantly enriched metabolites were 41, 20, 8, and 7, respectively. Furthermore, “Flavonoid biosynthesis”, “Arginine biosynthesis”, “Purine metabolism”, and “Ascorbate and aldarate metabolism” were the main enriched metabolism pathways (Figure S1D).

2.3.5. ‘Tre-3’ Sample vs. ‘Tre-9’ Sample

Compared with ‘Tre-3’ samples, 532 metabolites were differentially accumulated in ‘Tre-9’ samples, including 170 upregulated and 362 downregulated metabolites (Tables S7 and S8). For the lipids class, only the subclass PC was upregulated, while 4 subclasses were downregulated, namely free fatty acids, LPC, LPE, and sphingolipids. For the terpenoids class, the upregulated subclasses were ditepenoids and monoterpenoids, while the downregulated subclasses were monoterpenoids and terpene. A list of 105 metabolites were significantly enriched, mainly in “Metabolic pathways” (ko01100), “Biosynthesis of secondary metabolites” (ko01110), “Purine metabolism” (ko00230), “ABC transporters” (ko02010), and “Biosynthesis of cofactors” (ko01240) (Table S9E). In particular, “Biosynthesis of secondary metabolites” and “Nucleotide metabolism” were the main enriched metabolism pathways, with the main differently accumulated metabolites being 2-methyl-3-oxosuccinic acid, triglylglycine, and 3-hydroxycinnamic acid (Figure 3E and Figure S1E).

2.3.6. ‘Tre-6’ Sample vs. ‘Tre-9’ Sample

Compared with ‘Tre-6’ samples, 420 metabolites were differentially accumulated in ‘Tre-9’ samples, including 121 upregulated and 299 downregulated metabolites (Tables S7 and S8). These differentially accumulated metabolites could be divided into 12 classes, including alkaloids, amino acids and derivatives, flavonoids, lignans and coumarins, lipids, nucleotides and derivatives, organic acids, phenolic acids, quinones, steroids (9 downregulated), terpenoids, and others. For the alkaloids class, only one alkaloid and one plumerane were upregulated. For the flavonoids class, 3 subclasses were upregulated, namely flavones, flavonols, and isoflavones. For the lipids class, 5 subclasses were detected, namely free fatty acids, glycerol ester, LPC, LPE, and sphingolipids. For the terpenoids class, the upregulated subclasses were ditepenoids and monoterpenoids, while the downregulated subclasses were ditepenoids, monoterpenoids, and terpene. In total, 64 KEGG pathways were enriched (Table S9F). The typical KEGG pathways were “Metabolic pathways” (ko01100), “Biosynthesis of secondary metabolites” (ko01110), “ABC transporters” (ko02010), and “Biosynthesis of cofactors” (ko01240), while the numbers of significantly enriched metabolites were 64, 36, 14, and 12, respectively. “Biosynthesis of secondary metabolites”, “ABC transporters”, “Purine metabolism”, and “Galactose metabolism” were the typical pathways, with the main differently accumulated metabolites being 2-aminoheptanedioic acid, Pro-Ala-Phe, and 3-hydroxycinnamic acid (Figure 3F and Figure S1F).

2.4. Cluster Analysis of Different Polygonati Rhizoma Samples

In relation to four groups of Polygonati Rhizoma samples undergoing different steaming–drying processes, metabolite compositions differed, with 1330, 1365, 1363, and 1360 metabolites in ‘Tre-0’, ‘Tre-3’, ‘Tre-6’, and ‘Tre-9’ samples, respectively (Table S1). Based on the metabolic profiles, samples ‘Tre-3’ and ‘Tre-6’ were firstly clustered together and then grouped with ‘Tre-9’ samples, while ‘Tre-0’ was clustered alone (Figure 4). In particular, the accumulation of secondary metabolites displayed clear phenotypic variation in different Rhizoma Polygonati samples. Positive correlation existed between signal intensities produced from mass spectrum and abundance of metabolites. According to the sample-specific accumulation patterns, metabolites could be clearly grouped into three main clusters with four sub-clusters. Multivariate statistics was carried out to explore the differential accumulation of metabolites in different Rhizoma Polygonati samples (Figure S2). According to the Pearson correlation coefficients among different samples, biological replicates in each Rhizoma Polygonati sample had high correlation, as the values ranged from 0.38 (‘Tre-0’ vs. ‘Tre-9’) to 0.92 (‘Tre-3’ vs. ‘Tre-6’).

3. Discussion

P. cyrtonema, a perennial edible plant widely distributed in China, has being served as a food and traditional Chinese medicine for over 2000 years [22]. Flavonoids, saponins, polysaccharides, and alkaloids have all been isolated from P. cyrtonema rhizomes [23,24]. The processing methods, such as steaming, drying, and alcohol evaporation, can change the chemical composition of P. cyrtonema medicinal section [25]. Compounds in Polygonati Rhizome exhibit diverse pharmacological effects, including anti-aging, anti-fatigue, anti-inflammatory, antioxidant, and sleep-enhancing effects, as well as therapeutic potential for osteoporosis and age-related diseases [26]. In this research, alkaloids, flavonoids, lignans, coumarins, lipids, quinones, steroids, terpenoids, amino acids, vitamins, saccharides, nucleotides, organic acids, and phenolic acids, as well as chromone, were all detected based on UPLC-ESI-MS/MS, and might exert health-promoting activities through comprehensive regulation.
Compared with non-processed Polygonati Rhizome, the processed samples were darker, softer, and sweeter; for this reason, they are usually used in traditional medicine and the food industry without causing throat irritation and other side effects [8]. During the repeated steaming–drying processes, the contents of metabolites in Polygonati Rhizome varied, including alkaloids, amino acids and derivatives, flavones, flavonols, glycerol ester, LPE, nucleotides, organic acids, and phenolic acids, which were mainly enriched into pathways of “Metabolic pathways”, “Biosynthesis of cofactors”, “Biosynthesis of secondary metabolites”, “ABC transporters”, “Biosynthesis of amino acids”, “Nucleotide metabolism”, “Flavonoid biosynthesis”, and “Purine metabolism”. In particular, 39 metabolites newly occurred during repeated steaming–drying, mainly alkaloids, amino acid derivatives, flavonoids, lignans and coumarins, short-chain fatty acids, nucleotide derivatives, organic acids, phenolic acids, and terpenoids, which might account for a lot of the variations in the appearance and potential medicinal properties of Polygonati Rhizome.
Flavonoids, widespread plant secondary metabolites, are vital for pigmentation, pharmaceuticals activities, mediating plant–microbe interactions, enhancing plant resistance to pests and diseases, improving plant responses to environmental stresses, and protecting plants from ultraviolet-B damage [27,28,29,30]. Up to now, 20 bioactive flavonoids, including homoisoflavones, isoflavones, chalcones, dihydroflavones, rosandalanes, and flavones, have been isolated from Polygonati Rhizoma [23,31]. In particular, chalcones, dihydroflavones, and rosandalane have been extracted from P. kingianum; homoisoflavones and flavones have been mainly isolated from P. sibiricum [32,33]. In this research, 167 flavonoids were identified from P. cyrtonema rhizomes, mainly including chalcones, flavanols, flavanonols, flavones, flavonols, and isoflavones, while the contents were upregulated during repeated steaming and drying. As an example, quercetin possesses significant antioxidant, anti-inflammatory, anti-amyloid, anti-aging, anticancer, antioxidant, and antimicrobial properties [34,35]. In particular, quercetin could inhibit the production of IL-6, IL-1β, and TNF-α to improve pathological changes of tissue [36,37,38]. In relation to Polygonati Rhizome’s remarkable anti-inflammatory and immune-enhancing activity, five derivatives of quercetin, including 3,4′-dimethylquercetin, quercetin-7-O-glucoside, quercetin-3-O-rutinoside, 6-C-methylquercetin-3-O-rutinoside, and quercetin-3-O-robinobioside, were detected in both treated and untreated samples. All these flavonoids need to be further isolated for bioactive analysis.
P. cyrtonema polysaccharides, 8.5 × 103–42,400 × 103 Da in triple-helical structures, mainly included glucose, mannose, galactose, arabinose, fructose, rhamnose, ribose, xylose, glucuronic acid, and galacturonic acid, as well as branched homogalactan and galactomannans [39,40]. Besides the β-d-fructofuranosyl, α-d-galactopyranose, α-d-glucopyranose, and O-acetyl group, P. cyrtonema polysaccharides also contain branched fructan cores with (2→6)-linked-D-Fruf residues every three (2→1)-linked-D-Fruf residues [40]. The surface of the polysaccharides became much tighter during the repeated steaming–drying process [41]. The amount of Rhizoma Polygonati polysaccharides was positively correlated with the expression of β-fructofuranosidase, fructokinase, mannose-1-phosphate guanylyltransferase, and UDP-glucose 6-dehydrogenase genes, which were assigned to a starch and sucrose metabolism pathway [1]. To our discovery, monosaccharide, disaccharide, trisaccharide, tetrasaccharide, and pentasaccharide were all present in Polygonati Rhizome. In particular, phosphorylated derivatives, sugar acid, and sugar alcohols were the main modification forms, which might endow Polygonati Rhizome with significant biological activity. The “Metabolic pathways” and “Biosynthesis of secondary metabolites” were typical pathways for our Rhizoma Polygonati samples.
In total, 77 steroidal saponins, possessing hypoglycemic, anti-inflammatory, immunoregulation, and anti-diabetic properties, have been isolated from the ethanol and methanol extracts of Rhizoma Polygonati [42,43,44]. A list of 12 triterpenoid saponins have been successfully isolated from both ethanol and methanol extracts of rhizoma of P. sbiricum and P. kingianum [43]. Steroidal saponins isolated from Rhizoma Polygonati are commonly bidesmosides, having a sugar chain attached at C-3 position and a D-glucose residue attached at C-26 position [43]. In this research, 13 well-identified steroidal saponins were detected in the untreated rhizome samples, while one triterpenoid saponin (isorhamnetin-3-O-rutinoside) was newly detected in P. cyrtonema rhizoma.
As wild P. cyrtonema plants are on the brink of extinction, industrial-scale cultivation and production of P. cyrtonema has been attempted in recent years. Due to multiple health-promoting activities, the demand for Polygonati Rhizome has increased dramatically year by year. Nowadays, over 365 kinds of commercial food products derived from Polygonati Rhizome are on the market [45,46]. Therefore, our profiles of bioactive metabolites will benefit the manual processing of Polygonati Rhizome. The accumulation of total secondary metabolites displayed a clear compound variation, and samples of ‘Tre-3’ and ‘Tre-6’ were clustered together and then with ‘Tre-9’ samples, inferring similar metabolite composition. A total of 285 compounds had the highest contents in ‘Tre-9’ samples, especially flavones. This research will be greatly helpful in providing a critical scientific basis for genetic improvement and manual processing of Polygonati Rhizome. Further studies are still greatly required to elucidate the full spectrum of cellular mechanisms, which might broaden the application of Rhizoma Polygonati in the functional food field.

4. Materials and Methods

4.1. Material Preparation

Fresh P. cyrtonema rhizomes were collected from the Dabie Mountains (30.215° N, 115.425° E, 350–670 m) (Huanggang, Hebei Province, China) and subjected to a contemporary method involving initial washing to remove soil, subsequent removal of fibrous roots, and air drying until 30% water content. The obtained P. cyrtonema rhizomes were equally divided into four groups. One group served as the control (Tre-0), while the other three groups were subjected to processes of three cycles of steaming–drying (Tre-3), six cycles of steaming–drying (Tre-6), and nine cycles of steaming–drying (Tre-9), respectively (Figure 1). In particular, samples were steamed at 120 °C for 2 h and then dried at 50 °C for 6 h in each cycle of steaming and drying to achieve the desired characteristics. Then, these samples were separately cut into slices and lyophilized with liquid nitrogen.

4.2. Extraction and LC-MS Analysis

The freeze-dried P. cyrtonema rhizomes were ground with a mixer mill (MM 400, Retsch, Haan, Germany) for 1.5 min at 30 Hz. Then, 50 mg mass of powder was extracted overnight with 1.2 mL of 70% aqueous methanol at 4 °C. Following centrifugation (12,000× g, 3 min), extracts were filtered and analyzed with the UPLC-ESI-MS/MS system (Ultra Performance Liquid Chromatography, ExionLC™ AD, http://sciex.com.cn/ accesssed on 20 October 2024; MS, Applied Biosystems 4500 Q TRAP, http://www.appliedbiosystems.com.cn/ accesssed on 20 October 2024). In particular, liquid chromatographic analysis was carried out with an Agilent SB-C18 (1.8 μm, 2.1 mm × 100 mm, Agilent Technologies, Santa Clara, CA, USA) at 40 °C column temperature. A volume of 2 μL aqueous methanol was injected, and the flow rate was set as 0.35 mL/min. The solvent system contained solvent A (water with 0.1% formic acid) and solvent B (acetonitrile with 0.1% formic acid). A gradient program was employed (solvent A/B: 100:0 V/V at 0 min, 5:95 V/V at 10.0 min, 5:95 V/V at 11.0 min, 95:5 V/V at 11.1 min, and finally 95:5 V/V at 14.0 min) [27].
Effluent was connected to an ESI-triple quadrupole-linear ion trap (Q TRAP)-MS. ESI source operation parameters were set as follows: source temperature of 550 °C; ion spray voltage (IS) 5500 V; 50 psi of ion source gas I; 60 psi of gas II; 25 psi of curtain gas; and collision gas being high. QQQ scans were obtained through multiple reaction monitoring (MRM) experiments with collision gas (nitrogen) being set to moderate. The declustering potential and collision energy assessments for individual MRM transitions were performed through optimization. According to the eluted metabolites for each period, a certain set of MRM transitions was monitored. The data record was controlled with Mass Hunter software (Qualitative Analysis B.07.00) (Agilent Technologies, Madrid, Spain). In particular, Analyst 1.6.3 software (AB Sciex, Framingham, MA, USA) was used for data acquisition, peak integration, and calculations.

4.3. Identification and Analysis of Metabolites

Quantification of the metabolites was carried out in MRM mode. In addition, qualitative analysis of the metabolites was carried out according to the MVDB V3.0 Database of Wuhan Metware Biotechnology Co., Ltd. (Wuhan, China). Compounds were identified through comparing accurate m/z values, retention time (RT), and fragmentation patterns with corresponding standards. Regarding metabolites without corresponding standards, fragmentation patterns were used to query the MS2 spectral data or to search the MassBank database. Metabolite data were firstly log2 transformed for improving normality, and then subjected to principal component analysis (PCA) and hierarchical cluster analysis (HCA). In particular, the ‘heatmap.2’ function in ‘gplot’ R-package version 3.2.0 (http://cran.r-project.org/web/packages/gplots/index.html accesssed on 20 October 2024) was utilized. VIP (variable importance in projection) values and FC (fold change) scores were used to identify differentially accumulated metabolites between different samples. The values VIP > 1 and FC ≥ 2 or FC ≤ 0.5 were set as standard. One-way ANOVA (p ≤ 0.05) was also carried out. The SIMCA-P 14.0 software package was used for the orthogonal partial least squares discriminant analysis (OPLS-DA).

Supplementary Materials

The following supporting information can be downloaded at: https://www.mdpi.com/article/10.3390/molecules30091923/s1, Figure S1: KEGG pathway enrichment analysis of differentially accumulated metabolites: (A) ‘Tre-0’ vs. ‘Tre-3’; (B) ‘Tre-0’ vs. ‘Tre-6’; (C) ‘Tre-0’ vs. ‘Tre-9’; (D) ‘Tre-3’ vs. ‘Tre-6’; (E) ‘Tre-3’ vs. ‘Tre-9’; (F) ‘Tre-6’ vs. ‘Tre-9’; Figure S2: composition correlation analysis among different samples based on Pearson’s correlation coefficient; Table S1: Information of metabolites identified in P. cyrtonema rhizomes; Table S2: Vitamins identified in P. cyrtonema rhizomes; Table S3: Trends of metabolite content in four different types of Rhizoma Polygonati; Table S4: Representative metabolites of six types with different variation trends; Table S5: Representative metabolites with very low content in any samples; Table S6: Information of secondary metabolites with highest contents in different samples; Table S7: The differential accumulation metabolites between different samples; Table S8: Statistical information of differentially accumulated metabolites between different sample pairs; Table S9: The enriched KEGG pathways of differentially accumulated metabolites between different samples.

Author Contributions

Conceptualization, S.W. and F.H.; methodology, R.H. and X.W.; software, R.H. and X.W.; validation, W.W. and L.Z.; formal analysis, S.W.; resources, R.H. and X.W.; data curation, W.W.; writing—original draft preparation, S.W. and F.H.; writing—review and editing, S.L. and C.-T.H.; visualization, W.W.; supervision, S.L.; project administration, S.L.; funding acquisition, S.W. All authors have read and agreed to the published version of the manuscript.

Funding

This work was supported by grant from scientific and technical personnels serving enterpise project of Hubei Provincial Department of Science and Technology (2024DJC070), scientific and technological research project and technology innovation platform project of Huibei Provincial Department of Science and Technology (2025AFD345 and 2024CSA071), and High-level Cultivation Project of Huanggang Normal University (202420904).

Institutional Review Board Statement

Not applicable.

Informed Consent Statement

Not applicable.

Data Availability Statement

Data are contained within the article and Supplementary Materials.

Conflicts of Interest

There are no competing interests in relation to papers accepted for publication. There are also no actual or potential conflicts of interest including any financial, personal or other relationships with other people or organizations.

References

  1. Wang, S.; He, F.; Wu, H.; Xiang, F.; Zheng, H.; Wu, W.; Li, S. Health-promoting activities and associated mechanisms of Polygonati Rhizoma polysaccharides. Molecules 2023, 28, 1350. [Google Scholar] [CrossRef]
  2. Wang, W.X.; Dabu, X.L.T.; He, J.; Yang, H.X.; Yang, S.C.; Chen, J.W.; Fan, W.; Zhang, G.H.; Cai, J.L.; Ai, H.L.; et al. Polygonatone H, a new homoisoflavanone with cytotoxicity from Polygonatum cyrtonema Hua. Nat. Prod. Res. 2019, 33, 1727–1733. [Google Scholar] [CrossRef]
  3. He, Y.; Huang, L.; Jiang, P.; Xu, G.; Sun, T. Immunological regulation of the active fraction from Polygonatum sibiricum F. Delaroche based on improvement of intestinal microflora and activation of RAW264.7 cells. J. Ethnopharmacol. 2022, 293, 115240. [Google Scholar] [CrossRef]
  4. Ahn, M.J.; Kim, C.Y.; Yoon, K.D.; Min, Y.R.; Kim, J. Steroidal saponins from the rhizomes of Polygonatum sibiricum. J. Nat. Prod. 2006, 69, 360–364. [Google Scholar] [CrossRef]
  5. Che, Y.Y.; Qian, Y.; Wu, Y.; Qu, W.; Liang, J.Y. Two new homoisoflavanones from the rhizome of Polygonatum odoratum. Chem. Nat. Compd. 2015, 51, 54–56. [Google Scholar] [CrossRef]
  6. Han, C.; Zhu, Y.; Yang, Z.; Fu, S.; Liu, C. Protective effect of Polygonatum sibiricum against cadmium-induced testicular injury in mice through inhibiting oxidative stress and mitochondria-mediated apoptosis. J. Ethnopharmacol. 2020, 261, 113060. [Google Scholar] [CrossRef]
  7. Ji, R.; Sheng, Y.; Chen, L.; Li, X.; Shao, J. Analysis of the genetic structure and morphology of Polygonatum cyrtonema in Anhui province, eastern China revealed three distinct genetic groups. Nord. J. Bot. 2020, 38, 1–10. [Google Scholar] [CrossRef]
  8. Cheng, X.; Ji, H.; Cheng, X.; Wang, D.; Li, T.; Ren, K.; Qu, S.; Pan, Y.; Liu, X. Characterization, classification, and authentication of Polygonatum sibiricum samples by volatile profiles and flavor properties. Molecules 2021, 27, 25. [Google Scholar] [CrossRef]
  9. Hu, J.; Cheng, H.; Xu, J.; Liu, J.; Xing, L.; Shi, S.; Wang, R.; Wu, Z.; Yu, N.; Peng, D. Determination and analysis of monosaccharides in Polygonatum cyrtonema Hua polysaccharides from different areas by ultra-high-performance liquid chromatography quadrupole trap tandem mass spectrometry. J. Sep. Sci. 2021, 44, 3506–3515. [Google Scholar] [CrossRef]
  10. Chen, J.; Zhu, J.Z.; Li, X.G.; He, A.G.; Zhong, J. Botrytis cinerea causing gray mold of Polygonatum sibiricum (Huang Jing) in China. Crop Prot. 2021, 140, 105424. [Google Scholar] [CrossRef]
  11. An, J.; Liu, J.Z.; Wu, C.F.; Li, J.; Dai, L.; Damme, E.V.; Balzarine, J.; Clercq, E.D.; Chen, F.; Bao, J.K. Anti-HIV I/II activity and molecular cloning of a novel mannose/sialic acid-binding lectin from rhizome of Polygonatum cyrtonema Hua. Acta Biochim. Biophys. Sin. 2006, 38, 70–78. [Google Scholar] [CrossRef]
  12. Zhang, J.; Chen, H.; Luo, L.; Zhou, Z.; Wu, M. Structures of fructan and galactan from polygonatum cyrtonema and their utilization by probiotic bacteria. Carbohyd. Polym. 2021, 267, 118219. [Google Scholar] [CrossRef]
  13. Ma, K.; Huang, X.F.; Kong, L.Y. Steroidal saponins from Polygonatum cyrtonema. Chem. Nat. Compd. 2013, 49, 888–891. [Google Scholar] [CrossRef]
  14. Wang, K.; Yue, Y.D.; Tang, F. Sequential extraction and structural analysis of polysaccharides from Polygonatum cyrtonema Hua. Nat. Prod. Res. Dev. 2014, 26, 364–369. [Google Scholar]
  15. Chen, H.; Feng, S.S.; Sun, Y.J.; Hao, Z.Y.; Feng, W.S.; Zheng, X.K. Advances in studies on chemical constituents of three medicinal plants from Polygonatum mill and their pharmacological activities. Chin. Tradit. Herb. Drugs 2015, 46, 2329–2338. [Google Scholar]
  16. 16 Wan, K.; Ban, J.; Yang, F.; Zhang, X.; Huang, X.; Wang, Y.; Zhang, Z.; Lai, Z.; Chen, Y.; Lin, Y. Transcriptomic analysis reveals the flavonoid biosynthesis pathway involved in rhizome development in Polygonatum cyrtonema Hua. Plants 2024, 13, 1524. [Google Scholar] [CrossRef]
  17. 17 Shen, N.; Wang, T.; Gan, Q.; Liu, S.; Wang, L.; Jin, B. Plant flavonoids: Classification, distribution, biosynthesis, and antioxidant activity. Food Chem. 2022, 383, 132531. [Google Scholar] [CrossRef]
  18. Ritisha, T.; Padma, A.; Rukam, T. Metabolomics of groundnut (Arachis hypogaea L.) genotypes during groundnut-sclerotium rolfsii interaction at different stages of infection. Res. J. Biotechnol. 2021, 16, 101–111. [Google Scholar]
  19. Yang, Z.; Liao, G.; Wan, D.; Kong, W.; Li, C.; Gu, D.; Pu, Y.; Ge, C.; Wang, G. Combined application of high-throughput sequencing and LC-MS/MS-based metabolomics to evaluate the formation of Zn-protoporphyrin in Nuodeng ham. Food Res. Int. 2022, 162 Pt B, 112209. [Google Scholar] [CrossRef]
  20. Kumar, R.; Kumar, D. Comprehensive metabolomics and antioxidant activity of Allium species viz. Allium semenovii, A. sativum and A. cepa: An important spice. Food Res. Int. 2023, 166, 112584. [Google Scholar] [CrossRef]
  21. Shah, S.S.; Ahmed, S.; Zhou, B.; Shi, L. (2024). A review on pharmacological activities and phytochemical constituents of Zanthoxylum armatum DC. Nat. Prod. Res. 2024, 2, 1–20. [Google Scholar] [CrossRef]
  22. Wang, Y.; Liu, X.; Su, H.; Yin, S.; Han, C.; Hao, D.; Dong, X. The regulatory mechanism of chilling-induced dormancy transition from endo-dormancy to non-dormancy in Polygonatum kingianum Coll.et Hemsl rhizome bud. Plant Mol. Biol. 2019, 99, 205–217. [Google Scholar] [CrossRef]
  23. Gan, L.S.; Chen, J.J.; Shi, M.F.; Zhou, C.X. A new homoisoflavanone from the rhizomes of Polygonatum cyrtonema. Nat. Prod. Commun. 2018, 3, 597–598. [Google Scholar] [CrossRef]
  24. Wang, W.X.; Zhang, X.; Dabu, X.L.T.; He, J.; Yang, S.C.; Chen, J.W.; Fan, W.; Zhang, G.H.; Ai, H.L.; Hai, M.R. Analysis of chemical constituents from Polygonatum cyrtonema after “nine-steam-nine-bask”processing. Phytochem. Lett. 2019, 29, 35–40. [Google Scholar] [CrossRef]
  25. Yang, H.J.; Gong, Q.F. Progress in study on processing of Polygonati rhizome in past decade. Chin. J. Exp. Tradit. Med. Formulae 2017, 23, 216–222. [Google Scholar]
  26. Pan, M.; Wu, Y.; Sun, C.; Ma, H.; Ye, X.; Li, X. Polygonati Rhizoma: A review on the extraction, purification, structural characterization, biosynthesis of the main secondary metabolites and anti-aging effects. J. Ethnopharmacol. 2024, 327, 118002. [Google Scholar] [CrossRef]
  27. Wang, S.; Huang, S.; Yang, J.; Li, Z.; Zhang, M.; Fang, Y.; Yang, Q.; Jin, W. Metabolite profiling of violet, white and pink flowers revealing flavonoids composition patterns in Rhododendron pulchrum Sweet. J. Biosci. 2021, 46, 3. [Google Scholar] [CrossRef]
  28. Ramaroson, M.L.; Koutouan, C.; Helesbeux, J.J.; Le Clerc, V.; Hamama, L.; Geoffriau, E.; Briard, M. Role of Phenylpropanoids and Flavonoids in Plant Resistance to Pests and Diseases. Molecules 2022, 27, 8371. [Google Scholar] [CrossRef]
  29. Wang, L.; Chen, M.; Lam, P.Y.; Dini-Andreote, F.; Dai, L.; Wei, Z. Multifaceted roles of flavonoids mediating plant-microbe interactions. Microbiome 2022, 10, 233. [Google Scholar] [CrossRef]
  30. Wu, J.; Lv, S.; Zhao, L.; Gao, T.; Yu, C.; Hu, J.; Ma, F. Advances in the study of the function and mechanism of the action of flavonoids in plants under environmental stresses. Planta 2023, 257, 108. [Google Scholar] [CrossRef]
  31. Liu, S.; Hu, S.T.; Jia, Q.J.; Liang, Z.S. Advances in chemical constituents and pharmacological effects of Polygonati Rhizoma. Nat. Prod. Res. Dev. 2021, 33, 1783–1796. (In Chinese) [Google Scholar]
  32. Li, X.; Lai, G.F.; Wang, Y.F.; Zhang, B.G.; Luo, S.D. Study on the chemical constituents of Polygonatum kingianum (II). Chin. Tradit. Herb. Drugs 2008, 39, 825–828. (In Chinese) [Google Scholar]
  33. Tang, C.; Yu, Y.; Guo, P.; Huo, J.; Tang, S. Chemical constituents of Polygonatum sibiricum. Chem. Nat. Compd. 2019, 55, 331–333. [Google Scholar] [CrossRef]
  34. Wang, S.H.; Tsai, K.L.; Chou, W.C.; Cheng, H.C.; Huang, Y.T.; Ou, H.C.; Chang, Y.C. Quercetin Mitigates cisplatin-induced oxidative damage and apoptosis in cardiomyocytes through Nrf2/HO-1 signaling pathway. Am. J. Chin. Med. 2022, 50, 1281–1298. [Google Scholar] [CrossRef]
  35. Wang, Y.; Wan, R.; Peng, W.; Zhao, X.; Bai, W.; Hu, C. Quercetin alleviates ferroptosis accompanied by reducing M1 macrophage polarization during neutrophilic airway inflammation. Eur. J. Pharmacol. 2023, 938, 175407. [Google Scholar] [CrossRef]
  36. Park, K.H.; Yin, J.; Yoon, K.H.; Hwang, Y.J.; Lee, M.W. Antiproliferative effects of new dimeric ellagitannin from Cornus alba in prostatecancer cells including apoptosis-related s-phase arrest. Molecules 2016, 21, 137. [Google Scholar] [CrossRef]
  37. Jia, L.; Kuang, H.; Yuan, X. Efficacy of Buzhong Yiqi decoction on benign prostatic hyperplasia and its possible mechanism. J. Tradit. Chin. Med. 2023, 43, 533–541. [Google Scholar]
  38. Liu, X.; Tao, T.; Yao, H.; Zheng, H.; Wang, F.; Gao, Y. Mechanism of action of quercetin in rheumatoid arthritis models: Meta-analysis and systematic review of animal studies. Inflammopharmacology 2023, 31, 1629–1645. [Google Scholar] [CrossRef]
  39. Fan, B.; Wei, G.; Gan, X.; Li, T. Study on the varied content of Polygonatum cyrtonema polysaccharides in the processing of steaming and shining for nine times based on HPLC-MS/MS and chemometrics. Microchem. J. 2020, 159, 105352. [Google Scholar] [CrossRef]
  40. Bai, J.B.; Ge, J.C.; Zhang, W.J.; Liu, W.; Luo, J.P.; Xu, F.Q.; Wu, D.L.; Xie, S.Z. Physicochemical, morpho-structural, and biological characterization of polysaccharides from three Polygonatum spp. RSC Adv. 2021, 11, 37952–37965. [Google Scholar] [CrossRef]
  41. Li, Q.; Zeng, J.; Gong, P.; Wu, Y.; Li, H. Effect of steaming process on the structural characteristics and antioxidant activities of polysaccharides from Polygonatum sibiricum rhizomes. Glycoconjugate J. 2021, 38, 561–572. [Google Scholar] [CrossRef]
  42. Hu, C.Y.; Xu, D.P.; Wu, Y.M.; Ou, S.Y. Triterpenoid saponins from the rhizome of Polygonatum sibiricum. J. Asian Nat. Prod. Res. 2010, 12, 801–808. [Google Scholar] [CrossRef] [PubMed]
  43. Zhao, P.; Zhao, C.; Li, X.; Gao, Q.; Huang, L.; Xiao, P.; Gao, W. The genus Polygonatum: A review of ethnopharmacology, phytochemistry and pharmacology. J. Ethnopharmacol. 2018, 214, 274–291. [Google Scholar] [CrossRef]
  44. Chen, Z.; Luo, J.; Jia, M.; Chai, Y.; Bao, Y. Polygonatum sibiricum saponin exerts beneficial hypoglycemic effects in type 2 diabetes mice by improving hepatic insulin resistance and glycogen synthesis-related proteins. Nutrients 2022, 14, 5222. [Google Scholar] [CrossRef]
  45. He, Y.; Chen, Z.; Nie, X.; Wang, D.; Zhang, Q.; Peng, T.; Zhang, C.; Wu, D.; Zhang, J. Recent advances in polysaccharides from edible and medicinal Polygonati Rhizoma: From bench to market. Int. J. Biol. Macromol. 2022, 195, 102–116. [Google Scholar] [CrossRef]
  46. Zhu, S.; Liu, P.; Wu, W.; Li, D.; Shang, E.X.; Guo, S.; Qian, D.; Yan, H.; Wang, W.; Duan, J.A. Multi-constituents variation in medicinal crops processing: Investigation of nine cycles of steam-sun drying as the processing method for the rhizome of Polygonatum cyrtonema. J. Pharmaceut. Biomed. 2022, 209, 114497. [Google Scholar] [CrossRef]
Figure 1. P. cyrtonema rhizomes with different steaming–drying processes: (A) 0 cycles; (B) 3 cycles; (C) 6 cycles; and (D) 9 cycles.
Figure 1. P. cyrtonema rhizomes with different steaming–drying processes: (A) 0 cycles; (B) 3 cycles; (C) 6 cycles; and (D) 9 cycles.
Molecules 30 01923 g001
Figure 2. Ring chart of categorization of metabolites identified in P. cyrtonema rhizomes.
Figure 2. Ring chart of categorization of metabolites identified in P. cyrtonema rhizomes.
Molecules 30 01923 g002
Figure 3. Bar chart of metabolites based on difference multiplier, with the X-axis representing log2FC values of metabolites and the Y-axis referring to differentially accumulated metabolites. The red and green colors refer to upregulation and downregulation, respectively. (AF) referred to the ‘Tre-0’ Sample vs. ‘Tre-3’ Sample, ‘Tre-0’ Sample vs. ‘Tre-6’ Sample, ‘Tre-0’ Sample vs. ‘Tre-9’ Sample, ‘Tre-3’ Sample vs. ‘Tre-6’ Sample, ‘Tre-3’ Sample vs. ‘Tre-9’ Sample, and ‘Tre-6’ Sample vs. ‘Tre-6’ Sample, respectively.
Figure 3. Bar chart of metabolites based on difference multiplier, with the X-axis representing log2FC values of metabolites and the Y-axis referring to differentially accumulated metabolites. The red and green colors refer to upregulation and downregulation, respectively. (AF) referred to the ‘Tre-0’ Sample vs. ‘Tre-3’ Sample, ‘Tre-0’ Sample vs. ‘Tre-6’ Sample, ‘Tre-0’ Sample vs. ‘Tre-9’ Sample, ‘Tre-3’ Sample vs. ‘Tre-6’ Sample, ‘Tre-3’ Sample vs. ‘Tre-9’ Sample, and ‘Tre-6’ Sample vs. ‘Tre-6’ Sample, respectively.
Molecules 30 01923 g003
Figure 4. Heatmap visualization of metabolites in four groups of Polygonati Rhizome samples.
Figure 4. Heatmap visualization of metabolites in four groups of Polygonati Rhizome samples.
Molecules 30 01923 g004
Table 1. Metabolite composition in four different Polygonati Rhizoma samples.
Table 1. Metabolite composition in four different Polygonati Rhizoma samples.
Class (Numbers of Metabolites)Sub-ClassNumbers in Different Samples
Tre-0Tre-3Tre-6Tre-9Total
Alkaloids (149)Alkaloids6971717171
Benzylphenylethylamine alkaloids11111
Isoquinoline alkaloids22222
Phenolamine3636363536
Piperidine alkaloids33333
Plumerane2020202020
Pyridine alkaloids44444
Pyrrole alkaloids44444
Quinoline alkaloids66666
Tropan alkaloids22222
Flavonoids (167)Chalcones99989
Flavanols44444
Flavanones1616161616
Flavanonols22222
Flavones5862626263
Flavonols1414141315
Isoflavones99899
Other flavonoids4849494949
Lignans and coumarins (46)Coumarins1111111111
Lignans3335353535
Lipids (158)Free fatty acids7980808080
Glycerol ester710101010
LPC2929292929
LPE2931313131
PC11111
Sphingolipids77777
Phenolic acids (181)Phenolic acids176181181178181
Quinones (14)Anthraquinone99999
Quinones55555
Steroids (19)Steroid66666
Steroidal saponins1313131313
Terpenoids (37)Ditepenoids1515151515
Monoterpenoids1010101010
Terpene44444
Triterpene77777
Triterpene saponin01111
Nucleotides and derivatives (71)Nucleotides and derivatives6871717171
Organic acids (115)Organic acids113114113115115
Amino acids and derivatives (248)Amino acids and derivatives242248247248248
Others (164)Alcohol compounds55555
Aldehyde compounds88888
Chromone22222
Ketone compounds1314141414
Others4144444444
Saccharides7373747374
Vitamin1717171717
Total13301365136313601369
Table 2. Modification of amino acids identified in P. cyrtonema rhizomes.
Table 2. Modification of amino acids identified in P. cyrtonema rhizomes.
No.ModificationCorresponding Amino Acids
1AcetylationArg, Glu, Asp Thr, Gln, Ala, Lys, Phe, Leu, Asp, Tyr, Ser
2Cyclo-Tyr, Ala, Val, Pro, Phe, Leu, Glu, Gly, Ser
3HydroxylationPhe, Tyr, Pro, Glu, Leu, Met, His
4MonomethylationGlu, Pro,Arg, Cys,His, Met
5DimethylationLys, Arg,Gly
6TrimethylationLys
7Homo-Ser, Ala, Pro, Arg, Cys
8Oxo-Pro, Tyr
9GlycosidationAsp, Glu
10AdenosylationMet, Cys
11EsterificationArg
12EthylationGly
13BenzylationSer
14PropylationPro
15RibosylationCys
16PropionylationGly
17PropenylationCys
18AllosterismLeu
19Cyano-Ala
20AcylationGly
21Nitro- Tyr
22PhosphorylationTyr
Table 3. Saccharides identified in P. cyrtonema rhizomes.
Table 3. Saccharides identified in P. cyrtonema rhizomes.
TypesCompoundsMolecular Weight (Da)FormulaModification
monosaccharideDihydroxyacetone phosphate169.998C3H7O6Pphosphorylation
D-threonic acid136.0372C4H8O5oxidation
3-dehydro-L-threonic acid134.0215C4H6O5oxidation
D-erythrose-4-phosphate200.0086C4H9O7Pphosphorylation
D-threose120.0423C4H8O4
D-xylonic acid166.0477C5H10O6oxidation
L-xylose150.0528C5H10O5_
D-arabinose150.0528C5H10O5_
D-arabinono-1,4-lactone148.0372C5H8O5lactonization
D-fructose-1,6-biphosphate339.996C6H14O12P2phosphorylation
D-glucosamine 1-phosphate259.0457C6H14NO8Pphosphorylation
D-fructose 6-phosphate260.0297C6H13O9Pphosphorylation
Gluconic acid196.0583C6H12O7oxidation
D-glucoronic acid194.0427C6H10O7oxidation
D-glucose 6-phosphate260.0297C6H13O9Pphosphorylation
D-glucurono-6,3-lactone176.0321C6H8O6lactonization
D-glucose180.0634C6H12O6_
D-glucose 1,6-bisphosphate339.996C6H14O12P2phosphorylation
D-glucosamine259.0457C6H13NO5amination
Glucose-1-phosphate260.0297C6H13O9Pphosphorylation
D-glucono-1,5-lactone178.0477C6H10O6lactonization
Glucaric acid-1-phosphate290.0039C6H11PO11phosphorylation
1,6-anhydro-β-d-glucose162.0528C6H10O5dehydration
D-sorbitol182.079C6H14O6reduction
sorbose180.0634C6H12O6_
Sorbitol-6-phosphate262.0454C6H15O9Pphosphorylation
D-mannitol182.079C6H14O6reduction
D-mannose180.0634C6H12O6_
1,5-anhydro-d-glucitol164.0685C6H12O5dehydration, reduction
D-fucose164.0685C6H12O5_
L-fucitol166.0841C6H14O5reduction
D-galacturonic acid194.0427C6H10O7oxidation
Dulcitol182.079C6H14O6reduction
D-galactose180.0634C6H12O6_
D-galactaric acid210.0376C6H10O8oxidation
D-saccharic acid210.0376C6H10O8oxidation
Rhamnose164.0685C6H12O5_
L-gulono-1,4-lactone178.0477C6H10O6-
Allitol182.079C6H14O6reduction
Inositol180.0634C6H12O6_
D-sedoheptuiose 7-phosphate290.0403C7H15O10Pphosphorylation
Sedoheptulose210.074C7H14O7_
D-pinitol194.079C7H14O6reduction
N-Acetyl-d-galactosamine221.0899C8H15NO6amination
1-(sn-Glycero-3-phospho)-1D-myo-inositol334.0665C9H19O11Preduction
Glucopyranose 6-hydroxydecanoate350.1941C16H30O8esterification
disaccharideSucrose-6-phosphate422.0825C12H23O14Pphosphorylation
D-sucrose342.1162C12H22O11-
Galactinol342.1162C12H22O11reduction
D-cellobiose342.1162C12H22O11-
D-trehalose342.1162C12H22O11-
Maltitol344.1319C12H24O11-
Isomaltulose342.1162C12H22O11-
D-maltose342.1162C12H22O11-
Lactobiose342.1162C12H22O11-
Digalacturonate370.0747C12H18O13-
Melibiose342.1162C12H22O11-
Rutinose326.1213C12H22O10-
Trehalose 6-phosphate422.0825C12H23O14Pphosphorylation
beta-d-Galp-(1->3)-d-GalpNAc383.1428C14H25NO11
trisaccharidePlanteose504.169C18H32O16-
Maltotriose504.169C18H32O16-
Manninotriose504.169C18H32O16-
D-Panose504.169C18H32O16-
Solatriose488.1741C18H32O15-
Gentianose504.1690C18H32O16-
Raffinose504.169C18H32O16-
D-melezitose504.169C18H32O16-
GalNAc1-4[Fuc1-3]GlcNAcSp639.2599C24H41N5O15-
TetrasaccharideD-maltotetraose666.2219C24H42O21_
Stachyose666.2219C24H42O21-
DMelezitose O-rhamnoside650.2269C24H42O20_
Nystose666.2219C24H42O21-
PentasaccharideVerbascose828.2747C30H52O26-
Table 4. Statistical information of metabolites with the highest contents in different samples.
Table 4. Statistical information of metabolites with the highest contents in different samples.
ClassSub-ClassNumbers of Metabolites with the Highest ContentsTotal
Tre-0Tre-3Tre-6Tre-9
Alkaloids (149)Alkaloids252215971
Benzylphenylethylamine alkaloids10001
Isoquinoline alkaloids20002
Phenolamine16132536
Piperidine alkaloids20103
Plumerane837220
Pyridine alkaloids21104
Pyrrole alkaloids01304
Quinoline alkaloids31206
Tropan alkaloids01102
Amino acids and derivatives (248)Amino acids and derivatives67535870248
Flavonoids (167)Chalcones43209
Flavanols12014
Flavanones295016
Flavanonols20002
Flavones109192563
Flavonols416415
Isoflavones40059
Other Flavonoids22175549
Lignans and coumarins (46)Coumarins236 11
Lignans4917535
Lipids (158)Free fatty acids12251680
Glycerol ester107210
LPC1623029
LPE01911031
PC10001
Sphingolipids42107
Nucleotides and derivatives (71)Nucleotides and derivatives1231141471
Organic acids (115)Organic acids24114634115
Others (164)Alcohol compounds02215
Aldehyde compounds40408
Chromone20002
Ketone compounds545014
Others71619244
Saccharides129193474
Vitamin275317
Phenolic acids (181)Phenolic acids39593944181
Quinones (14)Anthraquinone02529
Quinones21205
Steroids (19)Steroid23016
Steroidal saponins922013
Terpenoids (37)Ditepenoids018615
Monoterpenoids440210
Terpene10304
Triterpene03137
Triterpene saponin00101
Disclaimer/Publisher’s Note: The statements, opinions and data contained in all publications are solely those of the individual author(s) and contributor(s) and not of MDPI and/or the editor(s). MDPI and/or the editor(s) disclaim responsibility for any injury to people or property resulting from any ideas, methods, instructions or products referred to in the content.

Share and Cite

MDPI and ACS Style

Wang, S.; He, F.; Hu, R.; Wan, X.; Wu, W.; Zhang, L.; Ho, C.-T.; Li, S. Dynamic Variation of Secondary Metabolites from Polygonatum cyrtonema Hua Rhizomes During Repeated Steaming–Drying Processes. Molecules 2025, 30, 1923. https://doi.org/10.3390/molecules30091923

AMA Style

Wang S, He F, Hu R, Wan X, Wu W, Zhang L, Ho C-T, Li S. Dynamic Variation of Secondary Metabolites from Polygonatum cyrtonema Hua Rhizomes During Repeated Steaming–Drying Processes. Molecules. 2025; 30(9):1923. https://doi.org/10.3390/molecules30091923

Chicago/Turabian Style

Wang, Shuzhen, Feng He, Ruibin Hu, Xuchun Wan, Wei Wu, Lei Zhang, Chi-Tang Ho, and Shiming Li. 2025. "Dynamic Variation of Secondary Metabolites from Polygonatum cyrtonema Hua Rhizomes During Repeated Steaming–Drying Processes" Molecules 30, no. 9: 1923. https://doi.org/10.3390/molecules30091923

APA Style

Wang, S., He, F., Hu, R., Wan, X., Wu, W., Zhang, L., Ho, C.-T., & Li, S. (2025). Dynamic Variation of Secondary Metabolites from Polygonatum cyrtonema Hua Rhizomes During Repeated Steaming–Drying Processes. Molecules, 30(9), 1923. https://doi.org/10.3390/molecules30091923

Article Metrics

Back to TopTop