Comprehensive Chemical Profiling in the Ethanol Extract of Pluchea indica Aerial Parts by Liquid Chromatography/Mass Spectrometry Analysis of Its Silica Gel Column Chromatography Fractions

Abstract

Pluchea indica Less. is a medicine and food dual-use plant, which belongs to the Pluchea genus, Asteraceae family. Its main constituents are quinic acids, flavonoids, thiophenes, phenolic acids, as well as sesquiterpenes. In order to provide a comprehensive chemical profiling of P. indica, an orthogonal chromatography combining reverse-phase chromatography BEHC18 column with a normal-phase chromatography silica column as the separation system and a ESI-Q-Orbitrap MS as the detector in both positive and negative ion modes were used. According to the retention time (t_R) and the exact mass-to-charge ratio (m/z), 67 compounds were unambiguously identified by comparing to the standard references. Moreover, 47 compounds were tentatively speculated on the basis of the rules of MS/MS fragmentation pattern and chromatographic elution order generalized from the above-mentioned reference standards. Among them, 10 of them were potentially novel.

1. Introduction

Pluchea indica Less. belongs to the Asteraceae family, and is a kind of medicine and food dual-use plant which mainly distributes in the tropical and subtropical regions. As a kind of amphibious woody semi-mangrove plant, it not only survives in the intertidal zone and becomes a dominant species on the beach, but also naturally breeds in the terrestrial environment. P. indica plays a significant role in maintaining ecological balance of coastal areas in the southeast of Asia. Its outstanding effect in softening hardness and dissipating binds has been discovered and utilized by people of the Zhuang nationality in Guangxi for several decades [1]. In vitro cytotoxicity test results indicated that the ethanol extract of P. indica leaf exhibited wound healing activity, owing to its ability to improve the cell viability of oral mucosal cell line and accelerate wound closure [2], which suggested that P. indica has no toxicity. Next, P. indica is not only one of the most famous food ingredients in China [3] but also used as a table salad in Malaysia [4].

Meanwhile, it was also reported that P. indica ethanol extract possessed significant inhibitory effects on not only adipocytes lipids and carbohydrate accumulation but also pancreatic lipase activity, which provided evidence for its antiobesity activity [5]. Chemical investigation results suggested the main constituents in this plant are quinic acids, thiophenes, flavonoids, and other phenolic acids [6,7,8]. Among them, quinic acids are the most common dietary polyphenolic compounds, which are widely found in tea, coffee and other foods. It has been reported to exhibit multiple bioactivities such as anti-inflammation and hepatoprotection [4]. What is more, owing to its high content of phenolic compounds, its free radical scavenging activity has been investigated and certified yet, which suggested that P. indica displayed antioxidation effect [9,10]. Various thiophenes have been considered to be “generally recognized as safe” (GRAS) by the Flavor and Extract Manufacturers Association (FEMA), and re-evaluated to be safe as a kind of food flavor ingredient according to scientific data [11]. What is more, the usage of the phenolic acids in dietary has also been popularized all over the world [12].

The application of P. indica in food additives is more and more extensive. However, during the chemical researches in our lab, we found a large amount of pigment existed in the plant made it difficult to accomplish the comprehensive characterization of chemical composition. Meanwhile, the analysis directly acomplished by LC-MS usually limited the characterization fewer than 50 compounds [13,14]. A strategy that could improve the chromatographic peak capacity should be considered [15]. As we known, the constituents in P. Indica are varieties, and ideal separation effect is often hardly obtained by conventional reversed-phase chromatography [16]. Then, preliminary fractionation for its crude extracts by normal-phase silica gel column was utilized before reversed-phase chromatography analysis.

According to our previous study [7,8], the main constituents in P. indica are known to be quinic acids, flavonoids, thiophenes, phenolic acids, and sesquiterpenes. And in the process of LC-MS analysis, we found that in the negative ion mode, fragments from [M – H]^– ions could provide more comprehensive information for quinic acids, flavonoids, and phenolic acids, while thiophenes and sesquiterpenes were more inclined to be detected by positive ion mode. Thus, in this study, the ESI-Q-Orbitrap MS was used as the detector in both positive and negative ion modes.

This paper aimed to use a LC-MS analysis method by an orthogonal chromatography (OC) integrating reversed-phase chromatography BEHC18 column with normal-phase chromatography silica column to achieve the characterization and identification of P. indica comprehensively. Six fractions of 95% eluates of the aerial parts of P. indica (PIE1–PIE6) were subsequently analyzed by LC-MS on an ESI-Q-Orbitrap MS in both negative and positive ion modes. According to the retention time (t_R) and the exact mass-to-charge ratio (m/z), 67 compounds were unambiguously identified by comparing to the standard references. Meanwhile, the rules of MS/MS fragmentation pattern and chromatographic elution order have been generalized by using the reference standards, 47 compounds were tentatively speculated, and 10 of them were potential new ones.

2. Experimental

2.1. Materials

The aerial parts of P. indica were collected from Hepu City, Guangxi Province, China, and identified by Dr. Songji Wei (Zhuang Medical College of Guangxi University of Chinese Medicine, Nanning, China). The voucher specimen was deposited at the institute of traditional Chinese Medicine of Tianjin University of TCM.

Sixty-seven compounds, including 20 quinic acids (Figure S1), 19 phenolic acids (Figure S2), 4 thiophenes (Figure S3), 13 flavonoids (Figure S4), and 11 others (Figure S5), were used for reference standards. Their purities were >98%. Among them, 60 (listed following) were prepared by ourselves, and 7 were purchased.

Among the 20 quinic acids, neochlorogenic acid (5-caffeoylquinic acid), methyl 3-O-caffeoyl quinate, and 1,5-di-O-caffeoyl quinic acid were purchased from Must Company (Chengdu, China); and 17 of them, chlorogenic acid (3-caffeoylquinic acid), 4-caffeoylquinic acid, 1,3-di-O-caffeoyl quinic acid, 1,4-di-O-caffeoyl quinic acid, 3,4-di-O-caffeoyl quinic acid, 3,5-di-O-caffeoyl quinic acid, 4,5-di-O-caffeoyl quinic acid, methyl 3,4-di-O-caffeoyl quinate, methyl 3,5-di-O-caffeoyl quinate, methyl 4,5-di-O-caffeoyl quinate, ethyl 3,4-di-O-caffeoyl quinate, ethyl 3,5-di-O-caffeoyl quinate, 1,3,4-tri-O-caffeoyl quinic acid, 1,3,5-tri-O-caffeoyl quinic acid, 3,4,5-tri-O-caffeoyl quinic acid, methyl 3,4,5-tri-O-caffeoyl quinate, and 1,3,4,5-tetra-O-caffeoyl quinic acid were isolated from the aerial parts of P. indica and Chrysanthemum morifolium [17].

The phenolic acids, 3,4-dihydroxy benzoic acid, 3-methoxy-4-hydroxybenzoic acid, p-hydroxybenzoic acid, and trans-ferulic acid were purchased from Must Company (Chengdu, China). Other 15 ones, 3,4-dihydroxy benzaldehyde, vanillin, 3,4-dihydroxy-5-methoxybenzaldehyde, syringicaldehyde, dibutylphthalate, ethyl caffeate, 2,3-dihydroxy-1-(4-hydroxy-3-methoxyphenyl)-propan-1-one, trans-coniferyl aldehyde, esculetin, threo-2,3-bis(4-hydroxy-3-methoxyphenyl)-3-ethoxypropan-1-ol, erythro-2,3-bis-(4-hydroxy-3-methoxyphenyl)-3-ethoxypropan-1-ol, (+)-isolariciresinol, (–)-(7S,7'S,8R,8'R)-4,4'-dihydroxy-3,3',5,5'-pentamethoxy-7,9':7',9-diepoxylignane, (+)-9'-isovaleryllariciresinol, and trans-caffeic acid were obtained from the aerial parts of P. indica [7], C. morifolium [18], D. hypoglauca, and L. japonicas.

The thiophenes, (3''R)-pluthiophenol, (3''R)-pluthiophenol-4''-acetate, 3''-ethoxyl-(3''S)-pluthiophenol, and 3''-ethoxyl-(3''S)-pluthiophenol-4''-acetate (Figure S3) were isolated from the aerial parts of P. indica [7].

Thirteen flavonoids (Figure S4) including quercetin, quercetin-3-O-β-d-glucopyranoside, quercetin-3-O-β-d-galactopyranoside, isorhamnetin, 5,6,4'-trihydroxy-3,7-dimethoxyflavone, centaureidin, chrysosplenol C, casticin, cynaroside, luteolin, kaempferol 3-O-β-d-glucopyranoside (astragalin), 5,7,3',4'-tetrahydroxy-3-methoxyflavonol-3'-O-β-d-glucopyranoside, and kaempferol were isolated from the aerial parts of P. indica [8], C. morifolium [17], and L. leontopodioides by us.

Eleven other compounds (Figure S5), caryolane-1,9β-diol, (8R,9R)-isocaryolane-8,9-diol, clovane-2α,9β-diol, valenc-1(10)-ene-8,11-diol, fraxinellone, stigmasterol, methyl 10-oxoundecanoate, triethyl citrate, 9,12,13-trihydroxyoctadeca-10(E),15(Z)-dienoic acid, and pinellic acid together with adenosine were obtained from P. indica aerial parts [7].

HPLC grade Acetonitrile (Thermo-fisher, Waltham, MA, USA) and ultrapure water prepared with a Milli-Q purification system (Merck Millipore, Darmstadt, Hesse-Darmstadt, Germany) were used for LC-MS analysis. Analytical-grade ethanol (EtOH), chloroform (CHCl₃), and methanol (MeOH) (Haiguang Chemical Reagent Factory, Tianjin, China), as well as silica gel (48–75 µm, Haiyang Chemical Reagent Factory, Qingdao, China) were used for the preparation of P. indica 70% EtOH extract (PI) and silica gel fractionation of 95% EtOH eluate (PIEs) test solutions.

2.2. Sample Preparation

2.2.1. Preparation of Standard Solutions

Standard test solutions of above mentioned standard references were prepared in MeOH at a final concentration of ~100 ng/mL. All stock solutions were stored at 4 °C in darkness and brought to room temperature before use.

2.2.2. Preparation of P. indica 70% EtOH Extract Test Solutions

An aliquot of 100 g dried aerial parts of P. indica was extracted under reflux in 800, 600, and 600 mL 70% ethanol (v/v) for 3, 2, and 2 h, respectively. The combined extracts were filtered with 0.22 µm microporous membrane to obtained PI stock solutions. PI stock solutions were stored at 4 °C in darkness and brought to room temperature before use.

2.2.3. Preparation of Silica Gel Fractionation of 95% EtOH Eluate of P. indica Test Solutions

The above-mentioned PI stock solutions were evaporated to dryness under reduced pressure to obtain PI extract (20.55 g). The PI extract was dissolved in 800 mL of water and separated by D101 macroporous adsorption resin column (H₂O → 95% EtOH) to obtain H₂O eluate (15.45 g) and 95% EtOH eluate (PIE, 5.0 g), respectively. PIE (5.0 g) were subjected to normal-phase silica gel (50.0 g) column (CHCl₃-MeOH (100:1 → 100:5, v/v) → CHCl₃-MeOH-H₂O (10:3:1 → 7:3:1 → 6:4:1 → 5:5:1, v/v/v, lower layer) → MeOH), six fractions (PIE1–PIE6) were obtained. PIE1–PIE6 were evaporated to dryness under reduced pressure, and then dissolved with MeOH to get six test stock solutions at a final concentration of 10 mg/mL. PIEs stock solutions were stored at 4 °C in darkness and brought to room temperature before use.

2.3. UHPLC

A Thermo UltiMate 3000 UHPLC instrument (Thermo, Waltham, MA, USA) equipped with a quaternary pump and an autosampler were used to accomplish the analysis. Samples were separated on a Waters ACQUITY UPLC® BEH C18 (2.1 × 100 mm, 1.7 μm, Milford, MA, USA) using a mobile phase composed of H₂O (A) and CH₃CN with 0.1% CH₃COOH (B) in the following gradient program; 0–4 min, 1–4% B; 4–18 min, 4% B; 18–20 min, 4–13% B; 20–24 min, 13% B; 24–35 min, 13–15% B; 35–37 min, 15–24% B; 37–45 min, 24–30% B; 45–46 min, 30–55% B; 46–52 min, 55% B; 52–53 min, 55–95% B; 53–58 min, 95% B. An equilibration of 3 min was used between successive injections. The flow rate was 0.4 mL/min, and column temperature was 35 °C. An aliquot of 3 μL of each sample was injected for analysis.

2.4. ESI-Q-Orbitrap MS and Automatic Components Extraction

For tandem mass spectrometry analysis, a Thermo ESI-Q-Orbitrap MS mass spectrometer was connected to the UltiMate 3000 UHPLC instrument via ESI interface. Ultrahigh purity nitrogen (N₂) was used as the collision gas and the sheath/auxiliary gas. The ESI source parameters were set as follows: ion spray voltage 3.2 kV, capillary temperature 350 °C, ion source heater temperature 300 °C, sheath gas (N₂) 40 arbitrary units, auxiliary gas (N₂) 10 arbitrary units, and a normalized collision energy (NCE) of 35 V was used. The Orbitrap analyzer scanned the mass range from m/z 100 to 1500. Monitoring time was 0–58 min. Detection was obtained by full mass-dd mass mode. The MS data were recorded in both profile and centroid formats. Data recording and processing were performed using the Xcalibur 4.0 software (Thermo Fisher Scientific, Inc., Waltham, MA, USA). The accuracy error threshold was fixed at 5 ppm.

Software-aided, automatic background subtraction and components extraction techniques were used to generate a peak list containing all the components profiled from the aerial part of P. indica. Sieve v2.2 SP2 (Thermo Fisher Scientific) was used for the automatic components extraction: time range: 1–58 min; BP minimum count: 10,000; BP minimum scans: 5; Background SN: 3; MZ Step: 10; and Frame, >1.

3. Results and Discussion

OC-MS technology integrated the large peak capacity of OC with the high detected sensitivity of MS, which could accomplish more comprehensive chemical profiling. Through comparing the separation effects of four kinds of high performance liquid chromatography columns (HSS C18, T3, CSH FP, and BEH C18 columns) with different separation mechanisms for PI, BEH C18 column was found to have better separation ability for most of the peaks in PI (Figure S6). Then, it was chosen to carry out the composition analysis of P. indica. The comprehensive and accurate chemical composition profiling of P. indica was further accomplished by the OC-MS combined normal-phase silica gel column with reverse-phase BEH C18 column (Figure 1 and Figure 2). As a result, the peak capacity and detection sensitivity were improved significantly, which is discussed in detail as follows.

3.1. Superiority of OC-MS than Directly LC-MS in the Chemical Composition Profiling of P. indica 70% EtOH Extract

3.1.1. Increasing of the Peak Capacity by OC-MS Determination

OC-MS, combing the advantages of the large peak capacity of OC and high sensitivity of mass spectrometry, had a wide range of applications, especially in the systematic chemical composition characterization of Traditional Chinese Medicine [15].

The sieve statistical results indicated that OC-MS possessed much more peaks than directly LC-MS (PI: 234 peaks detected; PIEs: 735 peaks detected).

Taking the ion peak at 40.13 min as an example, when extracting it from the total ion chromatogram of PI, only the ion at m/z 677.15147 corresponding to 3,4,5-tricaffeoyl quinic acid could be observed obviously (Figure S7). However, two ion peaks of belonging to 3,5-dicaffeylquinine ethyl acetate (m/z 543.15136) and 3,4,5-tricaffeoylquinic acid (m/z 677.15126) (Figure S8) were extracted from the ion peak at 40.13 min of PIE4. And both of them appeared with extremely strong intensity. This result suggested that OC-MS technique could increase peak capacity of the chromatography greatly.

3.1.2. Increasing of the Detection Sensitivity by OC-MS Determination

Ion peaks of m/z 677.15119 were extracted from the total ion chromatogram of PI and PIE6 (Figure S9). It was found that the peak area ratios of 1,3,5-tricaffeoyl quinic acid (36.63 min), 1,3,4-tricaffeoylquinic acid (38.13 min), and 1,4,5-tricaffeoylquinic acid (39.86 min) to 3,4,5-tricaffeoylquinic acid (40.11 min) in PIE5 (0.15, 0.11, and 0.09, respectively) were significantly higher than those in PI (0.03, 0.03, and 0.01, respectively). The above-mentioned results indicated that OC-MS technique could improve detection sensitivity.

3.2. Structural Elucidation of Compounds from Silica Gel Fractionation of 95% EtOH Eluate of P. indica by OC-MS

3.2.1. Structural Elucidation of Quinic Acids and Their Derivatives

Quinic acids and their derivatives are one kind of the most characteristic components in Asteraceae family plants [19,20,21]. There are four hydroxyl groups substituted at 1-, 3-, 4-, and 5-position, as well as one carboxyl at 1-position of quinic acid, respectively, which means that the quinic acids derivatives can be formed at any one of above mentioned position or functional group theoretically. In fact, 1-, 3-, 4-, and 5-hydroxyl can dehydrate with caffeic acid, ferulic acid, coumaric acid, and 3,4,5-trihydroxycinnamic acid to form acyl-substituted quinic acids. What is more, the 1-carboxyl is easily to form methyl and ethyl esters.

Structural Elucidation of Mono-acyl Substituted Quinic Acids and Their Derivatives

Peaks 4 (m/z 353.08710 [M − H]^–), 11 (m/z 353.08716 [M – H]^–), and 16 (m/z 353.08699 [M – H]^–) were unambiguously confirmed to be 5-caffeoylquinic acid (5-CQA), 3-CQA, and 4-CQA, respectively, by comparing to the standard references obtained from C. morifolium [17]. As a result, the general MS/MS cleavage pattern of CQAs was summarized, which mainly included ester bond cleavage between caffeoyl and quinic acid groups, quinic acid dehydration, along with caffeoyl decarbonylation. Then, characteristic fragment ions at m/z 179.03389 [caffeoyl − H]⁻, 161.02332 [caffeoyl – H − H₂O]⁻, 135.04406 [caffeoyl – H − CO₂]⁻, 133.02841 [caffeoyl – H − H₂O − CO]⁻ for caffeoyl group and m/z 191.05501 [quinic acid − H]⁻, 173.04445 [quinic acid – H − H₂O]⁻ for quinic acid group were displayed in their mass spectra (Figure 3).

Comparing the MS/MS fragmentation characteristics and relative ion abundance of CQAs, it was found that the fragment ion type and ion intensity had a great correlation with the substitution position of caffeoyl group: in the MS/MS spectrum for 3-CQA, the characteristic fragment ion at m/z 191.05501 derived from quinic acid aglycone was the base peak; however, the ion peaks at m/z 179.03389, 161.02332, 135.04406, and 133.02841 for caffeoyl group and m/z 173.04445 for quinic acid group were very weak; in the MS/MS spectrum for 4-CQA, the ion peaks at m/z 191.05501 and 173.04445 for quinic acid group and 179.03389 and 135.04406 for caffeoyl group were stronger, and the base peak was m/z 173.04445 from quinic acid aglycone; meanwhile, in the MS/MS spectrum for 5-CQA, not only the characteristic fragment ions of m/z 191.05501 for quinic acid nucleus existed as base peak, but also the strong caffeoyl characterization fragment ions at m/z 179.03389 and 135.04406 displayed (Figure S10). This phenomenon has also been observed in the study of chlorogenic acids in Kuding Tea [22]. This feature might be caused by the axial conformation of 5-caffeoyl group, which made it easy for the cleavage of 5-caffeoyl group from the quinic acid nucleus to form relative stable fragmentation ions of both quinic acid and caffeoyl group.

Moreover, the chromatographic elution order [retention time (t_R)] of CQAs in the CH₃CN-H₂O system was denoted as 5-CQA (peak 4, t_R 4.97 min) < 3-CQA (peak 11, t_R 8.20 min) < 4-CQA (peak 16, t_R 10.69 min).

According to the reference [23], the substituted group of quinic acid aglycone could also be feruloyl, and coumaroyl except for caffeoyl; mono-feruloyl quinic acid (FQAs) and mono-coumaroyl quinic acid (CoQAs) were also formed. Moreover, the possibility of 3,4,5-trihydroxycinnamoyl substitution (another kind of caffeoyl derivatives) has also been considered, which could form mono-3,4,5-trihydroxycinnamoyl quinic acid (TQAs). The characteristic ions of caffeoyl, feruloyl, coumaroyl, and 3,4,5-trihydroxycinnamoyl were considered to be at m/z 179.03389 ([caffeoyl − H]⁻), 193.04954 ([feruloyl − H]⁻), 163.03897 ([coumaroyl − H]⁻), and 195.02880 ([3,4,5-trihydroxycinnamoyl − H]⁻), respectively, which could be used to distinguish the type of substituted group.

In the MS/MS fragmentation spectra of peaks 3 (m/z 369.08246 [M – H]^–), 9 (m/z 369.08266 [M – H]^–), and 15 (m/z 369.08233 [M – H]^–) (Figure S11), there were noticeable m/z 195.02880 (C₉H₇O₅⁻) ions, which indicated that they were substituted by 3,4,5-trihydroxycinnamoyl group. The base peak of the MS/MS fragmentation spectra for peaks 3, 9, and 15 was m/z 191.05483, 133.02803, and 173.04421, respectively, and there were relatively strong ion at m/z 133.02803 in that of peak 3. Thus, based on the above rules of MS/MS cleavage patterns and chromatographic elution order generalized by 5-CQA (peak 4), 3-CQA (peak 11), and 4-CQA (peak 16), they were tentatively deduced to be 5-TQA (peak 3), 3-TQA (peak 9), and 4-TQA (peak 15), respectively. They were all possible new ones. Using the same method, peaks 18 (m/z 337.09254 [M – H]^–) and 20 (m/z 337.09268 [M – H]^–) were tentatively identified as 3-CoQA and 4-CoQA, respectively (Figure S12).

Peak 29 (m/z 367.10270 [M – H]^–) was unambiguously identified as 3-CQM by comparing with reference standard. Though the molecular of peaks 21 (m/z 367.10266 [M – H]^–), 22 (m/z 367.10208 [M – H]^–), 24 (m/z 367.10254 [M – H]^–), and 28 (m/z 367.10260 [M – H]^–) were similar with that of peak 29; the appearance of m/z 193.04967 [feruoyl − H]⁻, 193.04965 [feruoyl − H]⁻ and 193.04939 [feruoyl − H]⁻ in the MS/MS spectra of peaks 21, 22, and 24, respectively, indicated that these three compounds were substituted by feruoyl group. According to the chromatographic elution order summarized above, peaks 21, 22, and 24 were tentatively identified as 5-FQA, 3-FQA, and 4-FQA, respectively. In the MS/MS spectrum of peak 28, the ions at m/z 193.04954 [feruoyl − H]⁻ was absent, while m/z 179.03380 [caffeoyl − H]⁻, 161.02313 [caffeoyl – H − H₂O]⁻ appeared, then it was deduced to be CQM. According to the chromatographic elution order of CQAs (t_R: 5-CQA < 3-CQA < 4-CQA), and combining the occurrence probability of 1-CQM and 5-CQM, peak 28 was tentatively deduced to be 5-CQM. And it was found to be a new compound (Figure S13).

Structural Elucidation of Multi-acyl Substituted Quinic Acids and Their Derivatives

Peaks 35 (m/z 515.11761 [M – H]^–), 37 (m/z 515.11694 [M – H]^–), 38 (m/z 515.11797 [M – H]^–), 39 (m/z 515.11713 [M – H]^–), 40 (m/z 515.11950 [M – H]^–), and 45 (m/z 515.11523 [M – H]^–) were definitively identified as 1,4-dicaffeoylquinic acid (1,4-diCQA), 1,5-diCQA, 1,3-diCQA, 4,5-diCQA, 3,5-diCQA, and 3,4-diCQA, respectively, by comparing to the standard references obtained from C. morifolium and P. indica. According to the MS/MS spectra of the six diCQAs, the general MS/MS fragmentation pattern diCQAs was summed up as following: the ion peak at m/z 173.04434 [M – H – 2C₉H₆O₃ – H₂O]^–, 173.04420 [M – H – 2C₉H₆O₃ – H₂O]^–, and 173.04430 [M – H – 2C₉H₆O₃ – H₂O]^– derived from quinic acid aglycone was found to be the base peak in the MS/MS spectra of 35 (1,4-diCQA), 39 (4,5-diCQA), and 45 (3,4-diCQA), respectively (Figure S14); the base peak of 37 (1,5-diCQA) was m/z 135.04356 [M – H – C₉H₆O₃ – C₇H₁₀O₅ – CO₂]^– for caffeoyl group (Figure S14); however, for 38 (1,3-diCQA) and 40 (3,5-diCQA), m/z 191.05495 [M – H – 2C₉H₆O₃]^– and 191.05480 [M – H – 2C₉H₆O₃]^– derived from quinic acid aglycone was the base peak, respectively (Figure S14). The above mentioned rules was similar to those of CQAs, which suggested that when C-4 was substituted by caffeoyl (35, 39, 45), m/z 173.04445 was an indicator ion as its strong intensity (Figure S14).

In addition, the chromatographic elution order of diCQAs in the CH₃CN-H₂O system was showed as 1,4-diCQA (peak 35, t_R 27.11 min) < 1,5-diCQA (peak 37, t_R 27.99 min) < 1,3-diCQA (peak 38, t_R 28.07 min) < 4,5-diCQA (peak 39, t_R 28.68 min) < 3,5-diCQA (peak 40, t_R 28.89 min) < 3,4-diCQA (peak 45, t_R 34.01 min). Meanwhile, comparing with the t_R of CQAs, that of diCQAs was longer significantly. On the other hand, t_R of C-1 substituted diCQAs was shorter than that of other diCQAs.

Using the above-mentioned rules, the peaks 46 (m/z 529.13623 [M – H]^–), 48 (m/z 529.13515 [M – H]^–), 49 (m/z 529.13452 [M – H]^–) were tentatively deduced. The research process was described as following: in the MS/MS spectra of peaks 46, 48, and 49, there were m/z 193.04970 [M – H – C₁₆H₁₆O₈]^–, 193.04991 [M – H – C₁₆H₁₆O₈]^–, and 193.04980 [M – H – C₁₆H₁₆O₈]^– for 46, 48, and 49, respectively, along with 134.03615 [M – H – C₁₆H₁₆O₈ – CH₃ – CO₂]^–, 134.03642 [M – H – C₁₆H₁₆O₈ – CH₃ – CO₂]^–, and 134.03607 [M – H – C₁₆H₁₆O₈ – CH₃ – CO₂]^– for 46, 48, and 49, respectively (characteristic fragment ions for feruloyl group); as well as m/z 179.03404 [M – H − C₁₇H₁₈O₈]⁻, 179.03429 [M – H − C₁₇H₁₈O₈]⁻, and 179.03400 [M – H − C₁₇H₁₈O₈]⁻, respectively (characteristic fragment ion for caffeoyl group). Therefore, it was presumed that they were CFQAs substituted by a mono-caffeoyl group and a mono-feruloyl group in different positions of quinic acid aglycone at the same time. As the characteristic fragment ion m/z 173.04445 was not the base peak ion of their MS/MS spectra, the possibility that caffeoyl or feruloyl linked at C-4 of the quinic acid aglycone was excluded. Combining the chromatographic elution order of diCQAs in the CH₃CN-H₂O system summarized above, peaks 46, 48, and 49 were deduced to be 1-C-5-FQA/5-C-1-FQA, 1-C-3-FQA/3-C-1-FQA, and 3-C-5-FQA/5-C-3-FQA, respectively. Moreover, in the dominant conformation of the six-membered ring quinic acid aglycone, both 1- and 5-OH were at the axial bond, the substitution on C-1 and 5 were more likely to cleavage from the aglycone in the mass spectrometry than they were at other positions. Thus according to the stability of fragment ions (relative abundance) after substituent cleavage, the substitution position could be preliminary identified. For example, in peak 49, the fragment ion intensity of m/z 367.10309 [M – H – C₉H₆O₃]^– (derived from the cleavage of one caffeoyl group 162 Da) was high, which suggested that the caffeoyl group was linked to the C-5 of quinic acid aglycone. Therefore, it was finally determined that the peak 49 was 3-feruloyl-5-caffeoyl-quinic acid. Using a similar method, peak 48 was speculated to be 1-caffeoyl-3-feruloyl-quinic acid (Figure S15).

Peaks 51 (m/z 529.13409 [M – H]^–), 55 (m/z 529.13403 [M – H]^–), 61 (m/z 529.13367 [M – H]^–) (Figure S15), 66 (m/z 543.15027 [M – H]^–), and 74 (m/z 543.15080 [M – H]^–) (Figure S16) were identified as methyl 4,5-dicaffeoylquinate (4,5-diCQM), 3,5-diCQM, 3,4-diCQM, ethyl 4,5-dicaffeoylquinate (3,5-diCQE), and 3,4-diCQE, respectively, by comparing with reference standards isolated from P. indica. Their MS/MS fragment patterns were similar to those of CQMs mentioned above. In detail, in the MS/MS spectra of 4,5-diCQM (peak 51), 3,5-diCQM (peak 55), and 3,5-diCQE (peak 66), the base peak ion was m/z 161.02306 [529.13515 – C₉H₆O₃ – C₇H₁₂O₆ – CH₂]^–, 161.02304 [529.13515 – C₉H₆O₃ – C₇H₁₂O₆ – CH₂]^–, and 161.02316 [543.15080 – C₉H₆O₃ – C₇H₁₂O₆ – C₂H₄]^–, respectively. What is more, and the abundance of m/z 135.04356 [529.13515 – C₉H₆O₃ – C₇H₁₀O₅ – CH₂ – CO₂]^– and 133.02808 [543.15080 – C₉H₆O₃ – C₇H₁₂O₆ – C₂H₄ – CO]^– was also strong in the MS/MS spectra of 55 and 66, respectively. While, m/z 135.04364 [M – H – C₉H₆O₃ – C₇H₁₀O₅ – CH₂ – CO₂]^– and 135.04370 [M – H – C₉H₆O₃ – C₇H₁₀O₅ – C₂H₄ – CO₂]^– was the base peak for the MS/MS spectra of 3,4-diCQM (peak 61) and 3,4-diCQE (peak 74), respectively. These indicated when 3- and/or 5-OH of CQMs/CQEs were substituted by caffeoyl; the base peak ion was at m/z 135.04406 or 161.02332. On the other hand, their chromatographic elution order (4,5-diCQM (peak 51, t_R 37.80 min) < 3,5-diCQM (peak 55, t_R 38.39 min) < 3,4-diCQM (peak 61, t_R 39.49 min); 3,5-diCQE (peak 66, t_R 40.16 min) < 3,4-diCQE (peak 74, t_R 41.61 min)) was consistent with that of di-CQAs. As a result, peak 50 (m/z 529.13515 [M – H]^–) was tentatively identified as 1,4-diCQM according to the base peak ions m/z 191.05522 [M – H – 2C₉H₆O₃ – CH₂]^– and its t_R (peak 50, 37.55 min). According to the base peak ions m/z 161.02313 [M – H – C₉H₆O₃ – C₂H₄ – C₇H₁₂O₆]^– and the t_R (peak 62, 39.59 min) (Figure S16), peak 62 (m/z 543.15080 [M – H]^–) was tentatively identified as 1,5-diCQE or 4,5-diCQE.

It was visible from the above derivation processes that CQFAs were confusing with diCQMs as they possessed the same molecular. The key to distinguish them was the presence of characteristic fragment ions at m/z 193.04954 and 134.03623 for the feruloyl group, or not [23].

Peaks 47 (m/z 677.15277 [M – H]^–), 53 (m/z 677.15070 [M – H]^–), and 65 (m/z 677.15270 [M – H]^–) (Figure S17) were unambiguously identified as 1,3,5-tricaffeoyl quinic acid (1,3,5-triCQA), 1,3,4-triCQA, 3,4,5-triCQA, respectively, by comparing with reference standards obtained from P. indica. As we have mentioned above, the quinic acid aglycone could be substituted by multiple acyls at its 1-, 3-, 4-, and 5-hydroxyl, thus the possibilities of triCQAs included 1,3,5-triCQA, 1,3,4-triCQA, 1,4,5-triCQA, and 3,4,5-triCQA. Then, another triCQA (peak 63) should be deduced to be 1,4,5-triCQA.

Peak 76 (m/z 839.18289 [M – H]^–) (Figure S18), was definitely confirmed to be 1,3,4,5-tetracaffeoyl quinic acid (1,3,4,5-tetraCQA) by comparing with reference standards. Peak 92 (m/z 867.21393 [M – H]^–) (Figure S18) was tentatively identified as ethyl 1,3,4,5-tetracaffeoyl quinate (1,3,4,5-tetraCQE), because of the lack of feruloyl group characteristic fragment ions as well as the similarity of its MS/MS spectra with that of 1,3,4,5-tetraCQM (peak 76) (Figure S18). What is more, peak 92 was possible to be a new compound.

Peak 91 (m/z 691.16684 [M – H]^–) (Figure S19) was definitely identified as methyl 3,4,5-tricaffeoyl quinate (3,4,5-triCQM) by comparing with reference standards. In the MS/MS spectrum of peak 80 (m/z 691.16754 [M – H]^–) (Figure S19), feruloyl group characteristic fragment ions m/z 193.04954 and 134.03623 were lacking, while m/z 179.03 [M – H − 2C₉H₆O₃ − C₇H₁₀O₅ − CH₂]⁻ for caffeoyl group was observed, thus it was speculated to be a triCQM. Because of the lack of samples for summary of MS fragment pathway and retention time rules, peak 80 was tentatively deduced to be 1,3,4-triCQM or 1,3,5-triCQM or 1,4,5-triCQM. In addition, owing to the lack of feruloyl group characteristic fragment ions, and its MS/MS spectrum was similar to that of 3,4,5-triCQM (peak 91), peak 98 (m/z 705.18036 [M – H]^–) (Figure S19) was tentatively identified as ethyl 3,4,5-tricaffeoyl quinate (3,4,5-triCQE). Moreover, peak 98 is potentially novel.

Meanwhile using a similar manner mentioned above, the structure types of the remaining 13 acyl-substituted quinic acids and their derivatives were tentatively proposed (

Table 1. The qualitative analysis of compounds 1–114 by ESI-Q-Orbitrap mass spectrometry (MS).

No.	tR (min)	Compound	Formula	Adduct Ions	Theoretic	Measure	Diff (ppm)	Identification Fragment Ions (m/z) (Intensity)
1	3.17	3,4-Dihydroxy benzoic acid *	C7H6O4	[M − H]−	153.01933	153.01914	−1.24	109.02793 (100)
2	3.51	Adenosine *	C10H13N5O4	[M − H]−	266.08948	266.08969	0.79	134.04578 (100)
3	4.26	5-TQA	C16H18O10	[M − H]−	369.08272	369.08298	0.70	195.02939(16), 191.05483 (100), 133.02803 (82)
4	4.97	5-CQA *	C16H18O9	[M − H]−	353.08781	353.08826	1.27	191.05497 (100), 179.03378 (54), 135.04367 (62)
5	5.27	2,3-Dihydroxy-1-(4-hydroxy-3-methoxyphenyl)-propan-1-one *	C10H12O5	[M − H]−	211.06120	211.06069	−2.41	181.04950 (100), 163.03879 (88)
6	5.28	p-Hydroxybenzoic acid *	C7H6O3	[M − H]−	137.02442	137.02309	−0.23	93.03307 (100)
7	5.54	3,4-Dihydroxybenzaldehyde *	C7H6O3	[M − H]−	137.02442	137.02413	−2.12	109.02798 (14)
8	6.69	Methyl 3,4-dihydroxybenzoate	C8H8O4	[M − H]−	167.03498	167.03418	−4.79	152.01022 (100), 108.02016 (2)
9	7.39	3-TQA	C16H18O10	[M − H]−	369.08272	369.08316	−1.19	195.02869 (60), 133.02803 (100)
10	8.13	3,4-Dihydroxy-5-methoxybenzaldehyde *	C8H8O4	[M − H]−	167.03498	167.03424	−4.43	152.01013 (100), 124.01488 (3)
11	8.20	3-CQA *	C16H18O9	[M − H]−	353.08781	353.08820	1.10	191.05495 (100), 179.03383 (1), 135.04362 (1)
12	8.41	3-Methoxy-4-hydroxybenzoic acid *	C8H8O4	[M − H]−	167.03498	167.03430	−4.07	152.01022 (100), 123.04363 (8), 108.02016 (21)
13	9.30	Esculetin *	C9H6O4	[M − H]−	177.01933	177.01863	−3.95	141.8685 (72), 133.02802 (100)
14	9.41	Caffiec acid *	C9H8O4	[M − H]−	179.03498	179.03427	−3.97	135.04359 (100)
15	10.26	4-TQA	C16H18O10	[M − H]−	369.08272	369.08322	1.35	195.02857 (11), 173.04421 (100)
16	10.69	4-CQA *	C16H18O9	[M − H]−	353.08781	353.08762	−0.54	191.05493 (49), 179.03373 (66), 173.04429 (100), 135.04366 (72)
17	12.03	2-Hydroxybenzoic acid or 3-Hydroxybenzoic acid	C7H6O3	[M − H]−	137.02442	137.02413	−2.12	93.03311 (100)
18	14.27	3-CoQA	C16H18O8	[M − H]−	337.09289	337.09384	2.82	191.05482 (100), 163.03868 (9)
19	17.63	Vanillin *	C8H8O3	[M − H]−	151.04007	151.03996	−0.73	136.01509 (100), 109.02799 (7)
20	18.44	4-CoQA	C16H18O8	[M − H]−	337.09289	337.09351	1.84	173.04419 (100), 163.03868 (19)
21	19.61	5-FQA	C17H20O9	[M − H]−	367.10346	367.10382	0.98	193.04926 (1), 161.02310 (100)
22	19.94	3-FQA	C17H20O9	[M − H]−	367.10346	367.10373	0.74	193.04933 (7), 191.05495 (100)
23	20.82	Syringicaldehyde *	C9H10O4	[M − H]−	181.05063	181.05087	1.59	166.02563 (100), 151.00235 (86)
24	21.24	4-FQA	C17H20O9	[M − H]−	367.10346	367.10376	0.82	193.04939 (17), 173.04428 (100)
25	21.28	Monosulfonyl substituted flavone	C15H10O10S	[M − H]−	380.99219	380.99155	1.68	301.03424 (100), 178.99715 (2), 151.00209 (10)
26	21.73	Monosulfonyl substituted flavone	C15H10O10S	[M − H]−	380.99219	380.99167	−1.36	301.03586 (100), 178.99789 (25), 151.00278 (65)
27	21.80	Disulfonyl substituted flavone	C15H10O13S2	[M − H]−	460.94900	460.94988	1.91	380.99248 (75), 301.03577 (100), 178.99805 (19), 151.00278 (40), 96.95886 (18)
28	22.29	5-CQM	C17H20O9	[M − H]−	367.10346	367.10373	0.74	179.03380 (7), 173.04451 (1), 161.02313 (100), 133.02809 (28)
29	23.12	3-CQM *	C17H20O9	[M − H]−	367.10346	367.10379	0.90	179.03371 (55), 161.02318 (26), 135.04358 (100)
30	23.73	Monosulfonyl substituted flavone	C15H10O10S	[M − H]−	380.99219	380.99255	0.94	301.03479 (100), 178.99739 (21), 151.00240 (53)
31	24.73	Quercetin-3-O-β-d-galactopyranoside *	C21H20O12	[M + H]+	463.08820	463.08654	−3.58	300.02689 (100), 271.02435 (51), 255.02951 (23), 243.02861 (10)
32	25.48	Quercetin-3-O-β-d-glucopyranoside *	C21H20O12	[M + H]+	463.08820	463.08749	−1.53	300.03 (100), 271.02424 (71), 255.02955 (31), 243.02860 (13)
33	26.49	(+)-Isolariciresinol *	C20H24O6	[M − H]−	359.15001	359.14966	−0.97	ND
34	26.87	trans-Ferulic acid *	C10H10O4	[M − H]−	193.05063	193.05017	−2.38	161.02310 (28), 133.02797 (19)
35	27.11	1,4-DiCQA *	C25H24O12	[M − H]−	515.11950	515.11865	−1.65	353.08719 (60), 191.05486 (46), 179.03369 (69), 173.04434 (100), 135.04370 (77)
36	27.63	Kaempferol-O-galactopyranoside	C21H20O11	[M − H]−	447.09328	447.09430	2.28	284.03174 (84), 255.02882 (100), 227.03365 (82)
37	27.99	1,5-DiCQA *	C25H24O12	[M − H]−	515.11950	515.12067	2.27	353.08688 (17), 191.05472 (100), 179.03371 (5), 161.02297 (5), 135.04356 (6)
38	28.22	1,3-DiCQA *	C25H24O12	[M − H]−	515.11950	515.11871	−1.53	353.08694 (12), 191.05495 (100), 179.03365 (4), 161.02303 (5), 135.04370 (6)
39	28.68	4,5-DiCQA *	C25H24O12	[M − H]−	515.11950	515.12006	1.09	353.08713 (59), 191.05493 (53), 179.03375 (84), 173.04420 (100), 161.02312 (37), 155.03355 (14), 135.04362 (85)
40	28.89	3,5-DiCQA *	C25H24O12	[M − H]−	515.11950	515.11888	−1.20	353.08697 (57), 191.05480 (100), 179.03369 (51), 173.04446 (5), 135.04363 (54)
41	29.23	Monosulfonyl substituted methoxyflavone	C16H12O10S	[M − H]−	395.00784	395.00778	−0.15	315.05048 (100), 300.02689 (41), 271.02438 (26), 255.02913 (13), 243.02908 (6)
42	29.63	Kaempferol 3-O-β-d-glucopyranoside *	C21H20O11	[M − H]−	447.09328	447.09423	2.12	284.03159 (79), 255.02875 (100), 227.03368 (87)
43	30.39	Cynaroside *	C21H20O11	[M − H]−	447.09328	447.09406	1.74	ND
44	31.20	5,7,3',4'-Tetrahydroxy-3-methoxy flavonol-3'-O-β-d-glucopyranoside *	C22H22O12	[M − H]−	477.10385	477.10520	2.83	ND
45	33.94	3,4-DiCQA *	C25H24O12	[M − H]−	515.11950	515.12002	1.01	353.08701 (71), 191.05498 (37), 179.03368 (64), 173.04430 (100), 135.04367 (62)
46	36.21	1-C-5-F-QA or 1-F-5-C-QA	C26H26O12	[M − H]−	529.13515	529.13550	0.66	367.10258 (21), 353.08741 (22), 349.09223 (20), 335.07694 (25), 193.04936 (93), 179.03373 (66), 173.04420 (83), 161.02299 (42), 155.03351 (39), 135.04369 (68), 134.03582 (100)
47	36.63	1,3,5-TriCQA *	C34H30O15	[M − H]−	677.15119	677.15155	0.53	515.11898 (5), 497.10879 (10), 353.08703 (50), 335.07655 (13), 191.05478 (100), 179.03362 (70), 173.04419 (11), 161.02305 (23), 135.04358 (64)
48	37.15	1-C-3-FQA	C26H26O12	[M − H]−	529.13515	529.13581	1.25	367.10327 (43), 191.05527 (100), 173.04451 (54), 161.02300 (12), 134.03579 (18)
49	37.30	3-F-5-CQA	C26H26O12	[M − H]−	529.13515	529.13574	1.12	367.10309 (42), 193.04980 (100), 173.04443 (21), 134.03607 (81)
50	37.49	1,4-DiCQM	C26H26O12	[M − H]−	529.13515	529.13416	−1.87	367.10264 (24), 353.08711 (29), 191.05522 (100), 179.03364 (38), 161.02306 (40), 135.04353 (50)
51	37.77	4,5-DiCQM *	C26H26O12	[M − H]−	529.13515	529.13501	−0.26	367.10242 (15), 179.03372 (4), 161.02308 (100), 133.02805 (28)
52	37.91	Ethyl caffeate *	C11H12O4	[M − H]−	207.06628	207.06556	−3.48	179.03377 (27), 159.85886 (41), 135.04372 (44), 127.86897 (35), 103.91862 (14)
53	38.22	1,3,4-TriCQA *	C34H30O15	[M − H]−	677.15119	677.15070	−0.72	515.11847 (34), 497.10794 (18), 353.08694 (19), 335.07701 (10), 191.05501 (46), 179.03377 (100), 173.04422 (83), 161.02305 (78), 135.04367 (83)
54	38.32	Quercetin *	C15H10O7	[M − H]−	301.03538	301.03571	1.10	272.02643 (6), 178.99734 (24), 151.00224 (70), 121.02786 (19), 107.01236 (19)
55	38.39	3,5-DiCQM *	C26H26O12	[M − H]−	529.13515	529.13519	0.08	367.10275 (22), 179.03320 (31), 161.02304 (100), 135.04358 (45)
56	38.45	Triethyl citrate *	C12H20O7	[M − H]−	275.11362	275.11278	−3.05	ND
57	38.49	Luteolin *	C15H10O6	[M − H]−	285.04046	285.04114	2.39	151.00223 (10), 133.02827 (32)
58	38.79	CFQM-1	C27H28O12	[M − H]−	543.15080	543.14954	−2.32	367.10281 (13), 349.09195 (75), 193.04941 (75), 173.04420 (95), 161.02319 (9), 155.03357 (42), 134.03580 (100)
59	39.04	(–)-(7S,7'S,8R,8'R)-4,4'-Dihydroxy-3,3',5,5'-pentamethoxy-7,9':7',9-diepoxylignane *	C22H26O8	[M − H]−	415.15748	415.15757	0.22	ND
60	39.39	CFQM-2	C27H28O12	[M − H]−	543.15080	543.15009	−1.31	367.10251 (25), 349.09210 (18), 193.04941 (100), 161.02301 (49), 134.03583 (18)
61	39.49	3,4-DiCQM *	C26H26O12	[M − H]−	529.13515	529.13562	0.89	367.10202 (17), 179.03372 (69), 161.02311 (63), 135.04359 (100)
62	39.59	1,5-DiCQE/4,5-DiCQE	C27H28O12	[M − H]−	543.15080	543.15125	0.83	381.11993 (12), 161.02313 (100), 133.02809 (28)
63	39.85	1,4,5-TriCQA	C34H30O15	[M − H]−	677.15119	677.15173	0.80	515.11743 (15), 353.08701 (55), 191.05486 (43), 179.03371 (89), 173.04424 (100), 161.02301 (33), 135.043 64(80)
64	39.89	Methyl 9-hydroxynonanoate *	C10H20O3	[M − H]−	187.13397	187.13403	0.32	141.12700 (100)
65	40.13	3,4,5-TriCQA *	C34H30O15	[M − H]−	677.15119	677.15179	0.89	515.11885 (22), 353.08701 (33), 191.05479 (61), 179.03371 (96), 173.04419 (100), 161.02303 (43), 135.04364 (84)
66	40.13	3,5-DiCQE *	C27H28O12	[M − H]−	543.15080	543.15094	0.26	381.11856 (20), 179.03387 (33), 161.02316 (100), 133.02808 (32)
67	40.33	CFQM-3	C27H28O12	[M − H]−	543.15080	543.15118	0.70	367.10272 (23), 349.09177 (33), 193.04958 (34), 179.03358 (60), 173.04431 (17), 161.02312 (80), 135.04375 (100), 134.03601 (39), 133.02805 (26)
68	40.34	5,6,4'-Trihydroxy-3,7-dimethoxyflavone *	C17H14O7	[M − H]−	329.06667	329.06669	0.06	314.04276 (100), 299.01917 (94), 271.02429 (33), 243.02908 (13)
69	40.84	CFQM-4	C27H28O12	[M − H]−	543.15080	543.15088	0.15	193.04944 (13), 161.02306 (100), 134.03596 (20), 133.02803 (34)
70	41.10	TriMethoxyflavone	C18H16O8	[M − H]−	359.07724	359.07785	1.70	344.05280 (97), 329.02954 (100), 314.00613 (7), 301.03461 (12), 286.01123 (27), 258.01624 (16)
71	41.24	Kaempferol *	C15H10O6	[M−H]−	285.04046	285.03998	−1.68	151.00218 (2)
72	41.39	CFQM-5	C27H28O12	[M−H]−	543.15080	543.15106	0.48	349.09198 (52), 193.04942 (70), 179.03371 (23), 161.02310 (100), 135.04375 (40), 134.03590 (91), 133.02800 (26)
73	41.61	3,4-DiCQE *	C27H28O12	[M − H]−	543.15080	543.15094	0.26	381.11804 (16), 161.02304 (75), 179.03371 (68), 135.04361 (100)
74	41.68	threo-2,3-Bis(4-hydroxy-3-methoxyphenyl)-3-ethoxypropan-1-ol *	C19H24O6	[M − H]−	347.15001	347.14891	−3.17	161.02312 (9), 135.04370 (16)
75	41.91	9,12,13-Trihydroxyoctadeca-10(E),15(Z)-dienoic acid *	C18H32O5	[M − H]−	327.21770	327.21742	−0.86	229.14348 (16), 211.13269 (27), 171.10144 (23)
76	41.98	1,3,4,5-TetraCQA *	C43H36O18	[M − H]−	839.18289	839.18365	0.91	659.13635 (6), 515.11799 (20), 353.08657 (10), 335.07645 (8), 191.05495 (41), 179.03377 (100), 173.04430 (73), 161.02301 (61), 135.04375 (91)
77	42.08	Isorhamnetin *	C16H12O7	[M − H]−	315.05103	315.05127	0.76	300.02676 (88), 271.02344 (6), 164.01016 (7), 151.00218 (22)
78	42.10	CFQM-6	C27H28O12	[M − H]−	543.15080	543.15131	0.94	349.09146 (16), 193.04938 (50), 161.02304 (100), 135.04370 (20), 134.03587 (77), 133.02797 (34)
79	42.10	1,3,4-CCFQA	C35H32O15	[M − H]−	691.16684	691.16785	1.46	529.13403 (10), 367.10284 (20), 349.09241 (9), 193.04938 (100), 179.03378 (73), 161.02312 (58), 135.04370 (44), 133.02805 (84)
80	42.32	1,3,4-TriCQM	C35H32O15	[M − H]−	691.16684	691.16760	1.10	529.1361 (17), 515.11920 (22), 353.08786 (42), 367.10275 (10), 335.07806 (8), 191.05534 (77), 179.03372 (89), 173.04465 (100), 161.02309 (47), 155.03362 (17), 135.04393 (85)
81	42.55	erythro-2,3-Bis(4-hydroxy-3-methoxyphenyl)-3-ethoxypropan-1-ol *	C19H24O6	[M − H]−	347.15001	347.14891	−3.17	179.03271 (81), 135.04364 (100)
82	42.61	1,4,5-CCFQA	C35H32O15	[M − H]−	691.16684	691.16772	1.27	529.13336 (25), 367.10263 (25), 335.07651 (5), 193.04953 (16), 179.03380 (20), 173.04433 (100), 161.02312 (22), 155.03381 (11), 135.04378 (21), 133.02805 (15)
83	43.13	Pinellic acid *	C18H34O5	[M − H]−	329.23335	329.23300	−1.06	229.14352 (8), 211.13301 (17), 171.10135 (32)
84	43.58	Trihydroxy-dimethoxyflavone	C17H14O7	[M − H]−	329.06667	329.06705	1.15	ND
85	43.87	Caryolane-1,9β-diol *	C15H26O2	[M − H2O + H]+	221.18999	221.18954	−2.03	ND
86	44.19	Chrysosplenol C *	C18H16O8	[M − H]−	359.07724	359.07773	1.36	344.05292 (94), 329.02963 (100), 286.01129 (71)
87	44.30	Centaureidin *	C18H16O8	[M − H]−	359.07724	359.07791	1.87	344.05289 (89), 329.02954 (89), 344.05289 (89), 329.02954 (89), 314.00644 (40), 301.03482 (17), 286.01126 (97)
88	44.40	CCCFQA-1	C44H38O18	[M − H]−	853.19854	853.19971	1.37	645.15802 (10), 529.13397 (78), 335.07648 (15), 193.04938 (94), 179.03372 (86), 173.04422 (75), 161.02307 (100), 155.03362 (34), 135.04372 (94)
89	44.46	CCFFQA-1	C45H40O18	[M − H]−	867.21419	867.21277	−1.64	193.04977 (5), 161.02315 (100), 135.04369 (11), 133.02803 (47)
90	44.77	CCCFQA-2	C44H38O18	[M − H]−	853.19854	853.19946	1.08	645.16498 (3), 529.13361 (29), 367.10287 (9), 193.04933 (20), 179.03880 (21), 173.04419 (100), 161.02298 (27), 135.04361 (26)
91	44.93	3,4,5-TriCQM *	C35H32O15	[M − H]−	691.16684	691.16754	1.01	179.03409 (29), 161.02346 (100), 135.04391 (45), 133.02799 (31)
92	45.68	1,3,4,5-TetraCQE	C45H40O18	[M − H]−	867.21419	867.21356	−0.73	355.08116 (26), 179.03372 (23), 161.02294 (100), 135.04371 (47), 133.02806 (43)
93	45.88	Fraxinellone *	C14H16O3	[M + H]+	233.11722	233.11784	2.66	215.10712 (100), 187.11209 (92)
94	46.07	valenc-1(10)-ene-8,11-diol *	C15H26O2	[M − H2O + H]+	221.18999	221.18974	−1.13	203.17982 (100), 161.13272 (21), 147.11707 (45), 133.10150 (30), 119.08596 (81), 109.10172 (35), 107.08604 (35), 95.08617 (56)
95	46.39	Trihydroxy-dimethoxyflavone	C17H14O7	[M − H]−	329.06667	329.06699	0.97	ND
96	46.12	CCFFQA-2	C45H40O18	[M − H]−	867.21419	867.21252	−1.93	161.02298 (44), 135.04358 (17), 133.02797 (15)
97	46.55	3''-Ethoxyl-(3''R)-pluthiophenol	C15H14O2S	[M + H]+	259.07873	259.07944	2.74	213.03680 (100), 199.02121 (55), 185.04228 (53), 173.00558 (78)
98	46.57	3,4,5-TriCQE	C36H34O15	[M − H]−	705.18249	705.18292	0.61	543.15044 (8), 367.10269 (2), 349.09255 (4), 179.03368 (47), 161.02313 (100), 135.04359 (80)
99	46.82	(3''R)-pluthiophenol *	C13H10O2S	[M + H]+	231.04743	231.04755	0.52	213.04740 (36), 200.02346 (17), 199.02358 (53)
100	46.89	Clovane-2α,9β-diol *	C15H26O2	[M − H2O + H]+	221.18999	221.19037	1.72	203.17920 (100), 161.13242 (11), 147.11676 (33), 121.10132 (20), 109.10140 (31), 107.08585 (31), 95.08591 (58)
101	47.08	Casticin *	C19H18O8	[M − H]−	373.09289	373.09366	2.06	358.06879 (77), 343.04517 (100), 328.02164 (18), 312.99838 (13), 300.02676 (33), 285.00342 (34), 257.00858 (33)
102	47.17	(8R,9R)-Isocaryolane-8,9-diol *	C15H26O2	[M − H2O + H]+	221.18999	221.18962	−1.67	ND
103	47.53	Sesquiterpene	C15H26O2	[M − H2O + H]+	221.18999	221.18941	−2.62	ND
104	47.62	3''-Ethoxyl-(3''R)-pluthiophenol-4''-acetate	C17H16O3S	[M + H]+	301.08929	301.08945	0.53	ND
105	47.96	(3''R)-Pluthiophenol-4''-acetate *	C15H12O3S	[M + H]+	273.05799	273.05813	0.51	231.04753 (40), 213.03694 (76), 184.03423 (100)
106	48.73	(3''S)-pluthiophenol	C13H10O2S	[M + H]+	231.04743	231.04758	0.65	ND
107	49.42	3''-Ethoxyl-(3''S)-pluthiophenol *	C15H14O2S	[M + H]+	259.07873	259.07918	1.74	213.03680 (100), 199.02121 (42), 185.04228 (43), 173.00558 (73)
108	49.62	Sesquiterpene	C15H26O2	[M − H2O + H]+	221.18999	221.18947	−2.35	ND
109	53.00	Dibutylphthalate *	C16H22O4	[M − H]−	277.15899	277.15901	0.07	ND
110	53.13	(3''S)-Pluthiophenol-4''-acetate	C15H12O3S	[M + H]+	273.05799	273.05838	1.43	231.04761 (40), 213.03699 (75), 184.03421 (100)
111	53.28	3''-Ethoxyl-(3''S)-pluthiophenol-4''-acetate *	C17H16O3S	[M + H]+	301.08929	301.08917	−0.40	213.03697 (100), 185.04243 (45), 184.03429 (48), 173.00571 (8)
112	54.98	trans-Coniferyl aldehyde *	C10H10O3	[M + H]+	179.07027	179.07063	2.01	ND
113	55.18	(+)-9'-isovaleryllariciresinol *	C25H32O7	[M − H]−	443.20753	443.20905	3.43	ND
114	55.94	Stigmasterol *	C29H48O	[M − H]−	411.36324	411.36307	−0.41	ND

* The compounds unambiguously identified with the reference standards comparison; CoQA: coumaroyl quinic acid; CQA: caffeoyl quinic acid; CQE: ethyl caffeoyl quinate; CQM: methyl caffeoyl quinate; CFQM: methyl caffeoyl-ferulyl-quinate; CCFQA: dicaffeoyl-ferulyl-quinic acid; CCCFQA: tricaffeoyl-ferulyl-quinic acid; CCFFQA: dicaffeoyl-diferulyl-quinic acid; FQA: feruloyl quinic acid; TQA: 3,4,5-trihydroxycinnamoyl quinic acid. Although the compounds 33, 43, 44, 56, 59, 85, 102, 109, and 112−114 were identified by the comparison of t_R with reference standards, while the contents of them were too low to detect their fragments ions, thus they were stated as ND.

).

3.2.2. Structural Elucidation of Phenolic Acids

Peaks 5, 6, 10, 13, 14, 19, 23, 33, 34, 52, 59, 74, 81, 109, 112, and 113 were accurately identified by comparison with reference standards (Table 1, Figure S2).

Peaks 1 and 7 were unambiguously identified as 3,4-dihydroxy benzoic acid and 3,4-dihydroxybenzaldehyde by comparison with reference standards isolated from P. indica [7], respectively. Figure 4 showed the MS/MS fragmentation pattern of benzoic acid (peak 1) and benzaldehyde (peak 7): the alpha bond cleavage of carbonyl was susceptible to occur in benzoic acid and benzaldehyde, and then generated a fragment ion peak at m/z 109.02793 and 109.02798 by removing 44 Da and 28 Da, respectively. Thus, the two types of compounds could be distinguished by the mass lost during this process (Figure S20). Peak 12 was definitely identified as 3-methoxy-4-hydroxybenzoic acid by comparison with reference standard. Besides the rule mentioned above, it was also prone to remove one methyl radical, resulting in a strong fragment ion peak at m/z 152.01041 [M – H – CH₃]^–; at the same time, it could remove one CO₂ to form a fragment ion peak of m/z 123.04406 [M – H – CO₂]^–. Continually, it could remove one CO₂ or methyl radical to form fragment ion peak of m/z 108.02058 [M – H – CH₃ – CO₂]^–/[M – H – CO₂ – CH₃]^–, respectively (Figure 4 and Figure S20).

Peak 8 (m/z 167.03381 [M – H]^–) (Figure S21), which has the molecular ion C₈H₇O₄^– in its MS/MS spectrum, had fragment ion peaks of m/z 152.01022 [M – H – CH₃]^– and 108.02016 [M – H – CH₃ – CO₂]^–, suggesting that one methyl radical (15 Da) and CO₂ (44 Da) were cleaved from the structure. The existence of 3,4-dihydroxybenzoic acid (1) in this plant has been proved above, combining the biosynthetic pathway, peak 8 was tentatively presumed to be methyl 3,4-dihydroxybenzoate.

In the MS/MS spectrum of peak 17 (m/z 137.02303, C₇H₅O₃^–) (Figure S21), one CO₂ (44 Da) was cleaved according to the base peak ion of m/z 93.03311 [M – H – CO₂]^–. Therefore, it was deduced that there was a carboxyl group directly attached to the benzene ring in the structure. As a result, peak 17 was tentatively speculated to be 2-hydroxybenzoic acid or 3-hydroxybenzoic acid combining with its molecular formula.

3.2.3. Structural Elucidation of Thiophenes

As mentioned above, four thiophenes: (3''R)-pluthiophenol (peak 99, m/z 231.04743, t_R 46.82 min), (3''R)-pluthiophenol-4''-acetate (peak 105, m/z 273.05813, t_R 47.94 min), 3''-ethoxyl-(3''S)-pluthiophenol (peak 107, m/z 259.07918, t_R 49.42 min), and 3''-ethoxyl-(3''S)-pluthiophenol-4''-acetate (peak 111, m/z 301.08917, t_R 53.25 min) have been isolated and identified in our lab [7]. When extracting the above ions from PIE2, four pairs of ion peaks were obtained, the four peaks unseparated were presumed to be (3''S)-pluthiophenol (peak 106, m/z 231.04743, t_R 48.73 min), (3''S)-pluthiophenol-4''-acetate (peak 110, m/z 273.05813, t_R 53.13 min), 3''-ethoxyl-(3''R)-pluthiophenol (peak 97, m/z 259.07918, t_R 46.55 min) and 3''-ethoxyl-(3''R)-pluthiophenol-4''-acetate (peak 104, m/z 301.08917, t_R 47.62 min) (Figure 5). In addition, the fragmentation ions of peaks 110 and 97 were similar to those of peaks 105 and 107 (Table 1), respectively, which preliminary confirmed the above inference. While the MS/MS fragmentation ions of peaks 104 and 106 have not been detected. Summarizing their chromatographic elution order, it was found that in the CH₃CN-H₂O system the t_R of the thiophenes with the same planar structure was related to the configuration: the t_R of 3''R-thiophene was shorter than that of 3''S-thiophene. The four thiophenes peaks 97, 104, 106, and 110 could be tentatively identified due to their peak orders, and all of them were possible new compounds.

3.2.4. Structural Elucidation of Other Compounds

In addition, 13 flavonoids (Figure S4) and 11 other compounds (Figure S5) were unambiguously identified by comparison to reference standards obtained and identified by our lab [7,8] (Table 1). At the same time, when taking literatures into consideration, the possible structures of 11 compounds (9 flavonoids and two sesquiterpenes) were tentatively predicted (Table 1).

During this process, an interesting phenomenon has been found that when the 1-position carboxyl of quinic acids were methylated, the base peak of the MS/MS spectra of CQMs were not 191.05501 [quinic acid − H]⁻ or 173.04445 [quinic acid – H − H₂O]⁻ any more, they became 161.02332 [caffeoyl − H₂O − H]⁻ or 135.04406 [caffeoyl − CO₂ − H]⁻. We tried to explain the reason as following: when the quinic acid compound was ionized, the protons at the 1-carboxyl were easily lost, forming a negative charge center. When the charge migrated to the binding oxygen atom between the quinic acid nucleus and the substituted caffeoyl group, the cleavage could occur, and m/z 191.05501 [quinic acid − H]⁻ and 173.04445 [quinic acid – H − H₂O]⁻ appeared. While when the 1-carboxyl was methylated, the negative charge center will be generated on the hydroxyl group of the substituted caffeoyl group, and after electron transferred, the chemical bond between the substituted caffeoyl group and the quinic acid nucleus would be broken, and a characteristic ion formed by substituted caffeoyl group would strongly occur on the MS/MS spectrum.

4. Conclusion

In summary, a method integrating normal-phase chromatography and reverse-phase chromatography/mass spectrometry analysis was established to accomplish the chemical profiling of PI. According to the retention time (t_R) and the exact mass-to-charge ratio (m/z), 114 compounds were identified or tentatively identified. Among them, 67 compounds were unambiguously identified by comparing to the standard references. Meanwhile, the rules of MS/MS fragmentation pattern and chromatographic elution order have been generalized by using the reference standard, 47 compounds were tentatively speculated, and 10 of them (peaks 3, 9, 15, 28, 92, 97, 98, 104, 106, and 110) are potentially novel. An accurate and comprehensive chemical composition profiling of the aerial part of the P. indica was realized, which laid a foundation for the quality evaluation of the plant.