# Combination of Microwave-Assisted Girard Derivatization with Ionic Liquid Matrix for Sensitive MALDI-TOF MS Analysis of Human Serum N-Glycans

Authors: Hoa Thi Le; Kyu H. Park; Woong Jung; Hyung Soon Park; Tae Woo Kim
Journal: Journal of Analytical Methods in Chemistry
 (2018)

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## Abstract

We developed a new method for MALDI-TOF MS detection of N-glycans derived from human serum. The synergistic combination of microwave-assisted Girard T derivatization, solid-phase extraction desalting, and an ionic liquid matrix (2, 5-dihydroxybenzoic acid/aniline) (GT-SPE-DHB/An) allowed of more sensitive N-glycans detection than a conventional ionic liquid matrix in MALDI-TOF MS. The superior sensitivity of our method was confirmed by the number of assigned N-glycans in 900–2,000 m/z range. Using our GT-SPE-DHB/An method, we were successfully able to assign 31 glycans. However, with the established method, i.e., DHB/An method, only 15 glycans were assigned. To the best of our knowledge, this GT-SPE-DHB/An method is the first to combine cationic derivatization of N-glycan and ionic liquid matrix for N-glycan analysis in MALDI-TOF MS.


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## Body

## 1. Introduction

N-Linked glycans are involved in many biological processes such as protein folding, cell-cell interaction, and immune response [1, 2]. More specifically, N-glycosylation changes in the serum glycome are related to cancer and inflammation [3], and serum glycome profiling can serve as tumor biomarkers [4]. Therefore, N-glycan analysis in human serum is of central importance in biomarker discovery [5] and cancer diagnostics [6]. Despite their importance, however, the following characteristics of glycans make glycan analysis more challenging: heterogeneity of N-glycosylation [7] and absence of a unified database for glycome structure [8].Glycan analysis based on matrix-assisted laser desorption/ionization- (MALDI-) time of flight (TOF) mass spectrometry (MS) has several advantages: low sample consumption, high sensitivity, and simple sample preparation. Nevertheless, MALDI-TOF MS analysis of glycans still has its own drawbacks. They generally stem from inherent low ionization efficiency of glycans [9], variability in crystallization [10], and high noise level of matrix material in minor-abundant glycan analysis [11].To solve the problems, researchers have developed glycan derivatization methods and ionic liquid matrices (ILMs). Glycan derivatization includes reductive amination, Michael addition, hydrazide/alkoxy amino labeling, and (per)methylation/pertrimethylsilylation [12–14]. Especially, the hydrazide chemistry has been widely used for labeling reducing end of carbohydrate (Scheme 1(a)). Girard’s reagent T ((carboxymethyl)trimethylammonium chloride hydrazide, GT) and P (1-(carboxymethyl)pyridinium chloride hydrazide, GP) were used to improve the ionization efficiency of glycans in MALDI and ESI mass spectrometry [15]. The permanent cation of Girard’s reagents enhances the peak intensity in the positive-ion mode and also removes the ambiguity caused by alkali metal adducts in MALDI. On the other hand, ILMs have gained increasing attention because of their advantages in vacuum stability and signal-to-noise (S/N) ratio compared with frequently used matrices [16]. Generally, ILMs comprise matrix acid and organic base, and keep homogeneous liquid state (Scheme 1(b)). In addition, compared with thermal reactions, microwave- (MW-) assisted tagging reaction has advantages in MALDI sample preparation, such as high coupling efficiency and short reaction time.Scheme 1
Glycan derivatization chemistry and ionic liquid matrix. (a) Hydrazide reaction of Girard reagents with a hexose. GT = Girard’s reagent T (tetramethyl ammonium); GP = Girard’s reagent P (pyridium). (b) ILM formation of 2, 5-dihydroxybenzoic acid and aniline.
(a)
(b)Until now, chemical derivatization and ILM approach have been individually investigated to solve the problems of MALDI-based glycan analysis. Herein, we propose a synergistic combination of chemical derivatization and ILM. A new method combining microwave-assisted Girard T derivatization, SPE desalting, and DHB/An ion liquid matrix (GT-SPE-DHB/An) was optimized and applied to the MALDI-TOF MS analysis of human serum N-glycans (Scheme2).Scheme 2
Workflow of GT-SPE-DHB/An method for N-glycan analysis in MALDI-TOF MS.


## 2. Materials and Methods

### 2.1. Generals

#### 2.1.1. Materials and Reagents

Maltohexaose (47873), 2, 5-dihydroxybenzoic acid (DHB, 149357),α-cyano-4-hydroxycinnamic acid (CHCA, C2020), p-coumaric acid (pCA, C9008), pyridine (Pyr, 27047), horseradish peroxidase (77332), NH4HCO3 (A6141), dithiothreitol (DTT, D0632), trifluoroacetic acid (TFA, T6508) were purchased from Sigma-Aldrich. Human serum is purchased from Sigma (H4522). Triethylamine (TEA, 121448), aniline (An, A0463), 1-methylimidazole (MI, M0508), 1, 1, 3, 3- tetramethylguanidine (TMG, T0148), Girard’s reagent T (GT, B0547), and Girard’s reagent P (GP, G0030) were obtained from TCI. Peptide-N-glycosidase F (PNGase F, P0705L) was obtained from New England Biolabs. The N2 dryer SPE Dry™ 96 dual sample concentrator system was used from Biotage (SD2-9600-DHS-EU). PNGase F-released glycans were purified by graphitized carbon cartridges (GlykoClean™ Glycan Clean-up Station, Vacuum Manifold, GC 100, Prozyme). Acetonitrile was purchased from Merck (1.00030.4000). All solvents were HPLC grade.


#### 2.1.2. Instrumentation

Tinkerbell LT (ASTA Inc., Korea) was used for MALDI-TOF MS. CEM Discover™ microwave reactor was applied for the microwave-assisted reaction. Bioshaker (Bioshake iQ, Analytik Jena AG) and evaporation system (EZ-2, Genevac) or Speed-Vac concentrator (Module 4080C, Korea) were used.


### 2.2. Sample and Matrix Preparation

#### 2.2.1. Isolation of N-Linked Glycans

5µL of horseradish peroxidase (30 mg/mL) was added to each serum sample (50 μL), and then 50 μL of 200 mM NH4HCO3 containing 10 mM of dithiothreitol was added. Protein denaturation was carried out by placing the samples to a Bioshaker (1,500 rpm) at 65°C for 5 min. N-linked glycans were released from the denatured proteins by the addition of 1,000 units of PNGase F. The PNGase F digestion was carried out in a microwave-assisted rapid enzyme digestion system (power output = 400 W, ASTA Inc., Korea) at 37°C for 8 min. Then, ice-cold ethanol (450 μL) was added, and the proteins were precipitated by centrifuging (3,700 rpm) at 4°C for 50 min. The protein precipitate was removed, and the supernatant carrying N-linked glycans was transferred to new tubes and dried by N2 dryer for 1 h. Then, 550 μL of distilled water and 5 μL of maltohexaose (25 μg/mL) were added to the dried glycan samples.


#### 2.2.2. Glycan Purification

The PNGase F-released glycans were purified by solid-phase extraction of graphitized carbon cartridges (Carbograph, Alltech Associates, Inc.). Before loading, the cartridges were equilibrated with 0.1% TFA in 80% CH3CN and with water repeatedly. Glycan solutions (550 μL) were applied to the preconditioned cartridge, and then the cartridge was washed with water subsequently. The glycans were eventually eluted in 20% CH3CN. Each eluted glycan sample was dried by the evaporation system at 70°C. The dried glycans were dissolved in 15 μL of water to be used for derivatization and MALDI-TOF MS analysis.


#### 2.2.3. Derivatization of Maltohexaose by GT (or GP) Reagent (Thermal Condition)

A solution of GT (or GP) was prepared by dissolving 1 mg (6μmol) of the reagent in 1 mL of acetic acid/water (10:90, v/v). Maltohexaose (15 μL of stock 2 mM) was added to 100 μL of the solution (20-fold excess) in a screw-capped vial. The derivatization sample was heated at 75°C for 3 h. The solvents were removed by Speed-Vac. The residue was dissolved in 120 μL of CH3CN/water (70:30, v/v), and the aliquots were analyzed directly by MALDI-TOF.


#### 2.2.4. Derivatization of N-Glycans by GT Reagent

(1) Thermal Derivatization. 16 μL of N-glycan sample (with maltohexaose as an internal standard, IS) was mixed with 20 μL of GT derivatization solution (6 mM) in acetic acid/cosolvent (15:85, v/v). The cosolvent was prepared by CH3OH/water (1/1, v/v). 32 μL of acid acetic/cosolvent (15:85, v/v) was added to the sample. The solution was heated in Eppendorf Thermomixer (1,000 rpm, 75°C, 3 h). The solvent was evaporated, and the residue was applied to the graphitized carbon cartridge to remove excess amount of the unreacted GT. The purified, GT-tagged glycans were dried and diluted with 30 μL of CH3CN/water (1:1, v/v).(2) Microwave-Assisted Derivatization. 32 µL of N-glycan sample (without spiking of IS) was mixed with 100 µL of GT solution (6 mM) in acetic acid/cosolvent (20:80, v/v). The reaction was carried out in a microwave reactor (enzymatic digest mode, fiber optical thermometer, power = 60 W) at 75°C for 1 h. The solvent was removed, and the residue was purified by the graphitized carbon cartridge. After drying by Speed-Vac, the glycan derivatization sample was diluted with 60 µL of CH3CN/water (1:1, v/v).


#### 2.2.5. Ionic Liquid Matrix Preparation

The ILM was prepared as follows: matrix (DHB 5, CHCA 6.1,pCA 5.4 mg, respectively) was dissolved in 1 mL of CH3CN/water (1:1, v/v), and base (aniline 8.8, MI 7.6, TMG 12, TEA 13.4, Pyr 7.8 μL, respectively) was added to the matrix solution (1 : 3 molar ratio of matrix to base).


### 2.3. MALDI-TOF MS Measurement

MALDI-TOF mass spectra were obtained using the Tinkerbell LT instrument (ASTA Inc., Korea). The MALDI-TOF MS was operated in positive ion mode, the detector voltage (−1.9 kV), and laser power (60% for maltohexaose and 90% for N-glycans). The mass spectra were generated by 1600 laser shots. The digitizer sampling rate was at 1250 MS/sec (megasamples per second), and the full scan rate was 0.1 V for the digitizer. The mass spectra were obtained between 800 and 2400 m/z. The glycan sample was mixed with ILMs with the ratio (1 : 1, v/v), and 1.5μL was loaded on the μFocus stainless steel plate (ASTA Inc., Korea). The plate was dried in a vacuum chamber for 5 h before analysis.


## 2.1. Generals

### 2.1.1. Materials and Reagents

Maltohexaose (47873), 2, 5-dihydroxybenzoic acid (DHB, 149357),α-cyano-4-hydroxycinnamic acid (CHCA, C2020), p-coumaric acid (pCA, C9008), pyridine (Pyr, 27047), horseradish peroxidase (77332), NH4HCO3 (A6141), dithiothreitol (DTT, D0632), trifluoroacetic acid (TFA, T6508) were purchased from Sigma-Aldrich. Human serum is purchased from Sigma (H4522). Triethylamine (TEA, 121448), aniline (An, A0463), 1-methylimidazole (MI, M0508), 1, 1, 3, 3- tetramethylguanidine (TMG, T0148), Girard’s reagent T (GT, B0547), and Girard’s reagent P (GP, G0030) were obtained from TCI. Peptide-N-glycosidase F (PNGase F, P0705L) was obtained from New England Biolabs. The N2 dryer SPE Dry™ 96 dual sample concentrator system was used from Biotage (SD2-9600-DHS-EU). PNGase F-released glycans were purified by graphitized carbon cartridges (GlykoClean™ Glycan Clean-up Station, Vacuum Manifold, GC 100, Prozyme). Acetonitrile was purchased from Merck (1.00030.4000). All solvents were HPLC grade.


### 2.1.2. Instrumentation

Tinkerbell LT (ASTA Inc., Korea) was used for MALDI-TOF MS. CEM Discover™ microwave reactor was applied for the microwave-assisted reaction. Bioshaker (Bioshake iQ, Analytik Jena AG) and evaporation system (EZ-2, Genevac) or Speed-Vac concentrator (Module 4080C, Korea) were used.


## 2.1.1. Materials and Reagents

Maltohexaose (47873), 2, 5-dihydroxybenzoic acid (DHB, 149357),α-cyano-4-hydroxycinnamic acid (CHCA, C2020), p-coumaric acid (pCA, C9008), pyridine (Pyr, 27047), horseradish peroxidase (77332), NH4HCO3 (A6141), dithiothreitol (DTT, D0632), trifluoroacetic acid (TFA, T6508) were purchased from Sigma-Aldrich. Human serum is purchased from Sigma (H4522). Triethylamine (TEA, 121448), aniline (An, A0463), 1-methylimidazole (MI, M0508), 1, 1, 3, 3- tetramethylguanidine (TMG, T0148), Girard’s reagent T (GT, B0547), and Girard’s reagent P (GP, G0030) were obtained from TCI. Peptide-N-glycosidase F (PNGase F, P0705L) was obtained from New England Biolabs. The N2 dryer SPE Dry™ 96 dual sample concentrator system was used from Biotage (SD2-9600-DHS-EU). PNGase F-released glycans were purified by graphitized carbon cartridges (GlykoClean™ Glycan Clean-up Station, Vacuum Manifold, GC 100, Prozyme). Acetonitrile was purchased from Merck (1.00030.4000). All solvents were HPLC grade.


## 2.1.2. Instrumentation

Tinkerbell LT (ASTA Inc., Korea) was used for MALDI-TOF MS. CEM Discover™ microwave reactor was applied for the microwave-assisted reaction. Bioshaker (Bioshake iQ, Analytik Jena AG) and evaporation system (EZ-2, Genevac) or Speed-Vac concentrator (Module 4080C, Korea) were used.


## 2.2. Sample and Matrix Preparation

### 2.2.1. Isolation of N-Linked Glycans

5µL of horseradish peroxidase (30 mg/mL) was added to each serum sample (50 μL), and then 50 μL of 200 mM NH4HCO3 containing 10 mM of dithiothreitol was added. Protein denaturation was carried out by placing the samples to a Bioshaker (1,500 rpm) at 65°C for 5 min. N-linked glycans were released from the denatured proteins by the addition of 1,000 units of PNGase F. The PNGase F digestion was carried out in a microwave-assisted rapid enzyme digestion system (power output = 400 W, ASTA Inc., Korea) at 37°C for 8 min. Then, ice-cold ethanol (450 μL) was added, and the proteins were precipitated by centrifuging (3,700 rpm) at 4°C for 50 min. The protein precipitate was removed, and the supernatant carrying N-linked glycans was transferred to new tubes and dried by N2 dryer for 1 h. Then, 550 μL of distilled water and 5 μL of maltohexaose (25 μg/mL) were added to the dried glycan samples.


### 2.2.2. Glycan Purification

The PNGase F-released glycans were purified by solid-phase extraction of graphitized carbon cartridges (Carbograph, Alltech Associates, Inc.). Before loading, the cartridges were equilibrated with 0.1% TFA in 80% CH3CN and with water repeatedly. Glycan solutions (550 μL) were applied to the preconditioned cartridge, and then the cartridge was washed with water subsequently. The glycans were eventually eluted in 20% CH3CN. Each eluted glycan sample was dried by the evaporation system at 70°C. The dried glycans were dissolved in 15 μL of water to be used for derivatization and MALDI-TOF MS analysis.


### 2.2.3. Derivatization of Maltohexaose by GT (or GP) Reagent (Thermal Condition)

A solution of GT (or GP) was prepared by dissolving 1 mg (6μmol) of the reagent in 1 mL of acetic acid/water (10:90, v/v). Maltohexaose (15 μL of stock 2 mM) was added to 100 μL of the solution (20-fold excess) in a screw-capped vial. The derivatization sample was heated at 75°C for 3 h. The solvents were removed by Speed-Vac. The residue was dissolved in 120 μL of CH3CN/water (70:30, v/v), and the aliquots were analyzed directly by MALDI-TOF.


### 2.2.4. Derivatization of N-Glycans by GT Reagent

(1) Thermal Derivatization. 16 μL of N-glycan sample (with maltohexaose as an internal standard, IS) was mixed with 20 μL of GT derivatization solution (6 mM) in acetic acid/cosolvent (15:85, v/v). The cosolvent was prepared by CH3OH/water (1/1, v/v). 32 μL of acid acetic/cosolvent (15:85, v/v) was added to the sample. The solution was heated in Eppendorf Thermomixer (1,000 rpm, 75°C, 3 h). The solvent was evaporated, and the residue was applied to the graphitized carbon cartridge to remove excess amount of the unreacted GT. The purified, GT-tagged glycans were dried and diluted with 30 μL of CH3CN/water (1:1, v/v).(2) Microwave-Assisted Derivatization. 32 µL of N-glycan sample (without spiking of IS) was mixed with 100 µL of GT solution (6 mM) in acetic acid/cosolvent (20:80, v/v). The reaction was carried out in a microwave reactor (enzymatic digest mode, fiber optical thermometer, power = 60 W) at 75°C for 1 h. The solvent was removed, and the residue was purified by the graphitized carbon cartridge. After drying by Speed-Vac, the glycan derivatization sample was diluted with 60 µL of CH3CN/water (1:1, v/v).


### 2.2.5. Ionic Liquid Matrix Preparation

The ILM was prepared as follows: matrix (DHB 5, CHCA 6.1,pCA 5.4 mg, respectively) was dissolved in 1 mL of CH3CN/water (1:1, v/v), and base (aniline 8.8, MI 7.6, TMG 12, TEA 13.4, Pyr 7.8 μL, respectively) was added to the matrix solution (1 : 3 molar ratio of matrix to base).


## 2.2.1. Isolation of N-Linked Glycans

5µL of horseradish peroxidase (30 mg/mL) was added to each serum sample (50 μL), and then 50 μL of 200 mM NH4HCO3 containing 10 mM of dithiothreitol was added. Protein denaturation was carried out by placing the samples to a Bioshaker (1,500 rpm) at 65°C for 5 min. N-linked glycans were released from the denatured proteins by the addition of 1,000 units of PNGase F. The PNGase F digestion was carried out in a microwave-assisted rapid enzyme digestion system (power output = 400 W, ASTA Inc., Korea) at 37°C for 8 min. Then, ice-cold ethanol (450 μL) was added, and the proteins were precipitated by centrifuging (3,700 rpm) at 4°C for 50 min. The protein precipitate was removed, and the supernatant carrying N-linked glycans was transferred to new tubes and dried by N2 dryer for 1 h. Then, 550 μL of distilled water and 5 μL of maltohexaose (25 μg/mL) were added to the dried glycan samples.


## 2.2.2. Glycan Purification

The PNGase F-released glycans were purified by solid-phase extraction of graphitized carbon cartridges (Carbograph, Alltech Associates, Inc.). Before loading, the cartridges were equilibrated with 0.1% TFA in 80% CH3CN and with water repeatedly. Glycan solutions (550 μL) were applied to the preconditioned cartridge, and then the cartridge was washed with water subsequently. The glycans were eventually eluted in 20% CH3CN. Each eluted glycan sample was dried by the evaporation system at 70°C. The dried glycans were dissolved in 15 μL of water to be used for derivatization and MALDI-TOF MS analysis.


## 2.2.3. Derivatization of Maltohexaose by GT (or GP) Reagent (Thermal Condition)

A solution of GT (or GP) was prepared by dissolving 1 mg (6μmol) of the reagent in 1 mL of acetic acid/water (10:90, v/v). Maltohexaose (15 μL of stock 2 mM) was added to 100 μL of the solution (20-fold excess) in a screw-capped vial. The derivatization sample was heated at 75°C for 3 h. The solvents were removed by Speed-Vac. The residue was dissolved in 120 μL of CH3CN/water (70:30, v/v), and the aliquots were analyzed directly by MALDI-TOF.


## 2.2.4. Derivatization of N-Glycans by GT Reagent

(1) Thermal Derivatization. 16 μL of N-glycan sample (with maltohexaose as an internal standard, IS) was mixed with 20 μL of GT derivatization solution (6 mM) in acetic acid/cosolvent (15:85, v/v). The cosolvent was prepared by CH3OH/water (1/1, v/v). 32 μL of acid acetic/cosolvent (15:85, v/v) was added to the sample. The solution was heated in Eppendorf Thermomixer (1,000 rpm, 75°C, 3 h). The solvent was evaporated, and the residue was applied to the graphitized carbon cartridge to remove excess amount of the unreacted GT. The purified, GT-tagged glycans were dried and diluted with 30 μL of CH3CN/water (1:1, v/v).(2) Microwave-Assisted Derivatization. 32 µL of N-glycan sample (without spiking of IS) was mixed with 100 µL of GT solution (6 mM) in acetic acid/cosolvent (20:80, v/v). The reaction was carried out in a microwave reactor (enzymatic digest mode, fiber optical thermometer, power = 60 W) at 75°C for 1 h. The solvent was removed, and the residue was purified by the graphitized carbon cartridge. After drying by Speed-Vac, the glycan derivatization sample was diluted with 60 µL of CH3CN/water (1:1, v/v).


## 2.2.5. Ionic Liquid Matrix Preparation

The ILM was prepared as follows: matrix (DHB 5, CHCA 6.1,pCA 5.4 mg, respectively) was dissolved in 1 mL of CH3CN/water (1:1, v/v), and base (aniline 8.8, MI 7.6, TMG 12, TEA 13.4, Pyr 7.8 μL, respectively) was added to the matrix solution (1 : 3 molar ratio of matrix to base).


## 2.3. MALDI-TOF MS Measurement

MALDI-TOF mass spectra were obtained using the Tinkerbell LT instrument (ASTA Inc., Korea). The MALDI-TOF MS was operated in positive ion mode, the detector voltage (−1.9 kV), and laser power (60% for maltohexaose and 90% for N-glycans). The mass spectra were generated by 1600 laser shots. The digitizer sampling rate was at 1250 MS/sec (megasamples per second), and the full scan rate was 0.1 V for the digitizer. The mass spectra were obtained between 800 and 2400 m/z. The glycan sample was mixed with ILMs with the ratio (1 : 1, v/v), and 1.5μL was loaded on the μFocus stainless steel plate (ASTA Inc., Korea). The plate was dried in a vacuum chamber for 5 h before analysis.


## 3. Results and Discussion

### 3.1. Screening of ILM Candidate and Derivatization Reagent

In the first step, 15 ILM combinations (3 matrices (DHB, CHCA, andpCA)) and 5 bases (An, MI, TMG, TEA, and Pyr) were prepared (ESI Figure S1) and tested with three different methods (Girard’s T, P, and nonderivatization as a reference). 45 combinations (3 × 5 × 3) were screened, and maltohexaose was used as a model glycan. Among the 15 ILMs, five pairs (DHB/An, DHB/Pyr, CHCA/An, CHCA/TEA, and CHCA/MI) showed relatively high R/N ratio (Table 1) and peak intensity (ESI Table S1). Considering the ILM diversity, we selected three ILM candidates (DHB/An, CHCA/MI, and CHCA/TEA) for the next step.Table 1
Red-white conditional formatting table between three variables (matrix, base, and tagging reagent) and the MALDI R/N ratio of maltohexaose or its Girard derivatives. ND = not detected. Color scale: deeper red highlighted cells correspond to higher R/N ratio.
Derivatization
Matrix
Base
An
MI
TMG
TEA
Pyr
Girard’s T
DHB
245
5
ND
63
224
CHCA
335
3,970
1,317
4,972
62
pCA
ND
ND
ND
ND
ND
Girard’s P
DHB
99
ND
ND
36
9
CHCA
2,823
4,423
15
2,842
43
pCA
ND
4
ND
ND
ND
Nonderivatization
DHB
18
ND
ND
ND
248
CHCA
621
4,421
10
4,974
354
pCA
ND
ND
ND
ND
NDThe three ILM candidates and GT/GP reagents were tested with maltohexaose spiked N-glycan sample to find out the best combination of them (ESI FigureS2). GT derivatization resulted in better spectra than GP one. In addition, DHB/An pair was better than CHCA/TEA or CHCA/MI pair in the MS signal intensity and background noise. Thus, we selected GT and DHB/An combination for the further optimization. This acid/base choice agrees with Perreault’s report [17], in which DHB/An ILM showed significant improvement in sensitivity for native oligosaccharides in MALDI-TOF MS.


### 3.2. Sample Preparation

For successful N-glycan MALDI-TOF MS analysis with GT-DHB/An combination, two requirements should be satisfied: complete GT coupling and high S/N ratio. Conventional parameters, such as GT equivalent, reaction temperature, and percentage of acetic acid, were taken from previous reports [15, 18] (30 equivalent of GT, 75°C, 15% acetic acid), and we checked the GT tagging efficiency under the condition. Unfortunately, the reported parameters did not work well in our N-glycan sample. To achieve complete GT coupling and high S/N ratio, we utilized microwave- (MW-) assisted GT derivatization and solid-phase extraction (SPE) desalting. Researchers have already used MW-assisted glycan derivatization [19] and desalting for the sample preparation of N-glycans [20]. The desalting process would be more important in our experiment because excess amount of the GT reagent was used.Three conditions were tested: Condition 1 = MW-assisted GT derivatization without SPE desalting, Condition 2 = conventional GT derivatization with SPE desalting, and Condition 3 = MW-assisted GT derivatization with SPE desalting. We matched the observed MS peaks with the human serum N-linked glycome library which was reported by S. R. Kronewitter et al. [21]. A total of 13 peaks were commonly identified in the conditions. The average enhancement factors of Condition 3 were 16.6 ± 7.0 against Condition 1 and 2.1 ± 0.5 against Condition 2 (Table 2). Both MW-assisted GT derivatization and SPE desalting were essential to enhance the MS intensity on N-glycan analysis.Table 2
Condition optimization. MS intensity for each glycan at three different conditions and the enhancement factors (EFs).∗
Glycan no.
MS intensity
Enhancement Factor
Condition 1 MW
Condition 2 SPE
Condition 3 MW + SPE
Con 3/Con 1 w/or w/o SPE
Con 3/Con 2 w/or w/o MW
IS
29738
299037
682825
23.0
2.3
G5
5991
72493
122582
20.5
1.7
G8
2463
9714
12278
5.0
1.3
G10
5328
56814
97849
18.4
1.7
G14
11482
91319
227387
19.8
2.5
G15
2493
11139
15844
6.4
1.4
G17
2604
10991
24068
9.2
2.2
G20
2377
31626
76822
32.3
2.4
G21
13829
93595
270122
19.5
2.9
G23
2372
20225
45111
19.0
2.2
G25
2806
20863
39855
14.2
1.9
G27
5192
32241
83983
16.2
2.6
G28
3974
22301
57710
14.5
2.6
G30
2777
20591
40422
14.6
2.0
Ave ± STD
16.6 ± 7.0
2.1 ± 0.5
∗We calculated the EFs for the glycans, which were commonly assigned at the three conditions.


### 3.3. Human N-Glycan MALDI TOF MS Analysis

We were able to confirm the advantage of the combination of GT derivatization and DHB/An in the optimized MW-assisted GT derivatization and SPE desalting condition (Figure1). Compared with the N-glycan analysis in DHB/An method, the noise level of our GT-SPE-DHB/An method was significantly reduced. The y-axis scale increased by approximately 7 times in our method (7.1 × 105 vs. 1. 1 × 105). We assigned 31 glycans using the optimized GT-SPE-DHB/An method.Figure 1
MALDI-TOF MS spectra of (a) GT derivatized N-glycans obtained from the optimized GT-SPE-DHB/An method and (b) N-glycans obtained from DHB/An method.
(a)
(b)In order to demonstrate the superiority of our method for N-glycan analysis, we compared the MS peak intensities of all assigned glycans by Method 1 (MW-assisted GT derivatization-SPE desalting-DHB/An ILM combination) with those by Method 2 (DHB/An ILM). Peak intensity of the assigned glycans is listed in Table3, and the S/N ratio of them was summarized in ESI Table S2. Both peak intensity and S/N ratio showed a same trend in ranking and enhancement factor.Table 3
MALDI peak intensity table of the assigned glycans in 900–2,000 m/z range.
Glycan ID no.
MS intensity
Ranking
Group
EF
Method 1 = GT-SPE-DHB/An
Method 2 = DHB/An
G1
22,523
7,904
19
2
2.8
G2
14,247
—
24
3
—
G3
8,621
—
31
3
—
G4
13,752
—
25
3
—
G5
556,350
25,650
2
1
21.7
G6
12,904
—
27
3
—
G7
23,418
—
16
2
—
G8
23,395
—
17
2
—
G9
11,284
—
28
3
—
G10
428,229
18,631
4
1
23.0
G11
8,857
—
30
3
—
G12
14,250
—
23
3
—
G13
38,460
—
13
2
—
G14
495,759
33,830
3
1
14.7
G15
38,971
9,724
12
2
4.0
G16
17,100
6,714
22
3
2.5
G17
78,584
8,961
9
1
8.8
G18
13,420
—
26
3
—
G19
18,481
—
20
2
—
G20
50,126
—
11
2
—
G21
601,498
52,609
1
1
11.4
G22
30,297
10,260
15
2
3.0
G23
81,931
11,867
8
1
6.9
G24
22,814
8,421
18
2
2.7
G25
89,870
10,485
7
1
8.6
G26
18,283
—
21
3
—
G27
205,902
23,231
5
1
8.9
G28
105,748
14,170
6
1
7.5
G29
9,020
—
29
3
—
G30
52,571
8,941
10
1
5.9
G31
30,831
—
14
2
—
Ave ± STD
8.8 ± 6.5
Method 1 = GT-SPE-DHB/An method; Method 2 = DHB/An method. Group 1 = ranking scale from 1 to 10; Group 2 = from 11 to 20; Group 3 = from 21 to 31. EF = peak intensity of Method 1 ÷ peak intensity of Method 2.Thirty-one glycans were assigned by Method 1, and 15 glycans were commonly assigned by both methods. The peak intensity rankings were analyzed in the Venn diagram (Figure2). The 31 glycans can be divided into two sets. Set A (purple colored, N=15) includes the glycans commonly assigned by Methods 1 and 2. Meanwhile, Set B (red colored, N=16), which is a complementary set of Set A, includes the glycans only assigned by Method 1. The peak intensity of a particular glycan would be related to the abundance and MALDI ionization efficiency of the glycan. All of high-ranking glycans (Group 1, ranking scale from 1 to 10) were easily assigned by both methods. However, only 4 glycans in Group 2 (ranking scale from 11 to 20) and just 1 glycan in Group 3 (ranking scale from 21 to 31) were assigned by Method 2. On the other hand, the 16 glycans in Set B belonged to Groups 2 and 3 (having low abundance and poor MALDI ionization efficiency) and were newly assigned using Method 1. Briefly, our GT-SPE-DHB/An method exhibited better sensitivity than the conventional DHB/An method.Figure 2
Venn diagram of the assigned glycans in Table3. The number in the parenthesis indicates the number of assigned glycans in each ranking group. Ini = intensity of Method i in a particular peak. ∗ The average and standard deviation were calculated for the commonly assigned 15 glycans of Set A.The improved glycan sensitivity of GT-SPE-DHB/An method was also confirmed by the MS peak intensity enhancement. We calculated the enhancement factors (EFs) of 15 commonly assigned glycans in Set A. Method 1 showed 8.8 times higher peak intensity (STD ± 6.5) than Method 2. The improved EF suggests that Method 1 efficiently suppresses noise and enhances MALDI ionization compared with the DHB/An method. These data support that the glycans which have relatively low abundance and poor MALDI ionization efficiency can be detected by our GT-SPE-DHB/An method.


## 3.1. Screening of ILM Candidate and Derivatization Reagent

In the first step, 15 ILM combinations (3 matrices (DHB, CHCA, andpCA)) and 5 bases (An, MI, TMG, TEA, and Pyr) were prepared (ESI Figure S1) and tested with three different methods (Girard’s T, P, and nonderivatization as a reference). 45 combinations (3 × 5 × 3) were screened, and maltohexaose was used as a model glycan. Among the 15 ILMs, five pairs (DHB/An, DHB/Pyr, CHCA/An, CHCA/TEA, and CHCA/MI) showed relatively high R/N ratio (Table 1) and peak intensity (ESI Table S1). Considering the ILM diversity, we selected three ILM candidates (DHB/An, CHCA/MI, and CHCA/TEA) for the next step.Table 1
Red-white conditional formatting table between three variables (matrix, base, and tagging reagent) and the MALDI R/N ratio of maltohexaose or its Girard derivatives. ND = not detected. Color scale: deeper red highlighted cells correspond to higher R/N ratio.
Derivatization
Matrix
Base
An
MI
TMG
TEA
Pyr
Girard’s T
DHB
245
5
ND
63
224
CHCA
335
3,970
1,317
4,972
62
pCA
ND
ND
ND
ND
ND
Girard’s P
DHB
99
ND
ND
36
9
CHCA
2,823
4,423
15
2,842
43
pCA
ND
4
ND
ND
ND
Nonderivatization
DHB
18
ND
ND
ND
248
CHCA
621
4,421
10
4,974
354
pCA
ND
ND
ND
ND
NDThe three ILM candidates and GT/GP reagents were tested with maltohexaose spiked N-glycan sample to find out the best combination of them (ESI FigureS2). GT derivatization resulted in better spectra than GP one. In addition, DHB/An pair was better than CHCA/TEA or CHCA/MI pair in the MS signal intensity and background noise. Thus, we selected GT and DHB/An combination for the further optimization. This acid/base choice agrees with Perreault’s report [17], in which DHB/An ILM showed significant improvement in sensitivity for native oligosaccharides in MALDI-TOF MS.


## 3.2. Sample Preparation

For successful N-glycan MALDI-TOF MS analysis with GT-DHB/An combination, two requirements should be satisfied: complete GT coupling and high S/N ratio. Conventional parameters, such as GT equivalent, reaction temperature, and percentage of acetic acid, were taken from previous reports [15, 18] (30 equivalent of GT, 75°C, 15% acetic acid), and we checked the GT tagging efficiency under the condition. Unfortunately, the reported parameters did not work well in our N-glycan sample. To achieve complete GT coupling and high S/N ratio, we utilized microwave- (MW-) assisted GT derivatization and solid-phase extraction (SPE) desalting. Researchers have already used MW-assisted glycan derivatization [19] and desalting for the sample preparation of N-glycans [20]. The desalting process would be more important in our experiment because excess amount of the GT reagent was used.Three conditions were tested: Condition 1 = MW-assisted GT derivatization without SPE desalting, Condition 2 = conventional GT derivatization with SPE desalting, and Condition 3 = MW-assisted GT derivatization with SPE desalting. We matched the observed MS peaks with the human serum N-linked glycome library which was reported by S. R. Kronewitter et al. [21]. A total of 13 peaks were commonly identified in the conditions. The average enhancement factors of Condition 3 were 16.6 ± 7.0 against Condition 1 and 2.1 ± 0.5 against Condition 2 (Table 2). Both MW-assisted GT derivatization and SPE desalting were essential to enhance the MS intensity on N-glycan analysis.Table 2
Condition optimization. MS intensity for each glycan at three different conditions and the enhancement factors (EFs).∗
Glycan no.
MS intensity
Enhancement Factor
Condition 1 MW
Condition 2 SPE
Condition 3 MW + SPE
Con 3/Con 1 w/or w/o SPE
Con 3/Con 2 w/or w/o MW
IS
29738
299037
682825
23.0
2.3
G5
5991
72493
122582
20.5
1.7
G8
2463
9714
12278
5.0
1.3
G10
5328
56814
97849
18.4
1.7
G14
11482
91319
227387
19.8
2.5
G15
2493
11139
15844
6.4
1.4
G17
2604
10991
24068
9.2
2.2
G20
2377
31626
76822
32.3
2.4
G21
13829
93595
270122
19.5
2.9
G23
2372
20225
45111
19.0
2.2
G25
2806
20863
39855
14.2
1.9
G27
5192
32241
83983
16.2
2.6
G28
3974
22301
57710
14.5
2.6
G30
2777
20591
40422
14.6
2.0
Ave ± STD
16.6 ± 7.0
2.1 ± 0.5
∗We calculated the EFs for the glycans, which were commonly assigned at the three conditions.


## 3.3. Human N-Glycan MALDI TOF MS Analysis

We were able to confirm the advantage of the combination of GT derivatization and DHB/An in the optimized MW-assisted GT derivatization and SPE desalting condition (Figure1). Compared with the N-glycan analysis in DHB/An method, the noise level of our GT-SPE-DHB/An method was significantly reduced. The y-axis scale increased by approximately 7 times in our method (7.1 × 105 vs. 1. 1 × 105). We assigned 31 glycans using the optimized GT-SPE-DHB/An method.Figure 1
MALDI-TOF MS spectra of (a) GT derivatized N-glycans obtained from the optimized GT-SPE-DHB/An method and (b) N-glycans obtained from DHB/An method.
(a)
(b)In order to demonstrate the superiority of our method for N-glycan analysis, we compared the MS peak intensities of all assigned glycans by Method 1 (MW-assisted GT derivatization-SPE desalting-DHB/An ILM combination) with those by Method 2 (DHB/An ILM). Peak intensity of the assigned glycans is listed in Table3, and the S/N ratio of them was summarized in ESI Table S2. Both peak intensity and S/N ratio showed a same trend in ranking and enhancement factor.Table 3
MALDI peak intensity table of the assigned glycans in 900–2,000 m/z range.
Glycan ID no.
MS intensity
Ranking
Group
EF
Method 1 = GT-SPE-DHB/An
Method 2 = DHB/An
G1
22,523
7,904
19
2
2.8
G2
14,247
—
24
3
—
G3
8,621
—
31
3
—
G4
13,752
—
25
3
—
G5
556,350
25,650
2
1
21.7
G6
12,904
—
27
3
—
G7
23,418
—
16
2
—
G8
23,395
—
17
2
—
G9
11,284
—
28
3
—
G10
428,229
18,631
4
1
23.0
G11
8,857
—
30
3
—
G12
14,250
—
23
3
—
G13
38,460
—
13
2
—
G14
495,759
33,830
3
1
14.7
G15
38,971
9,724
12
2
4.0
G16
17,100
6,714
22
3
2.5
G17
78,584
8,961
9
1
8.8
G18
13,420
—
26
3
—
G19
18,481
—
20
2
—
G20
50,126
—
11
2
—
G21
601,498
52,609
1
1
11.4
G22
30,297
10,260
15
2
3.0
G23
81,931
11,867
8
1
6.9
G24
22,814
8,421
18
2
2.7
G25
89,870
10,485
7
1
8.6
G26
18,283
—
21
3
—
G27
205,902
23,231
5
1
8.9
G28
105,748
14,170
6
1
7.5
G29
9,020
—
29
3
—
G30
52,571
8,941
10
1
5.9
G31
30,831
—
14
2
—
Ave ± STD
8.8 ± 6.5
Method 1 = GT-SPE-DHB/An method; Method 2 = DHB/An method. Group 1 = ranking scale from 1 to 10; Group 2 = from 11 to 20; Group 3 = from 21 to 31. EF = peak intensity of Method 1 ÷ peak intensity of Method 2.Thirty-one glycans were assigned by Method 1, and 15 glycans were commonly assigned by both methods. The peak intensity rankings were analyzed in the Venn diagram (Figure2). The 31 glycans can be divided into two sets. Set A (purple colored, N=15) includes the glycans commonly assigned by Methods 1 and 2. Meanwhile, Set B (red colored, N=16), which is a complementary set of Set A, includes the glycans only assigned by Method 1. The peak intensity of a particular glycan would be related to the abundance and MALDI ionization efficiency of the glycan. All of high-ranking glycans (Group 1, ranking scale from 1 to 10) were easily assigned by both methods. However, only 4 glycans in Group 2 (ranking scale from 11 to 20) and just 1 glycan in Group 3 (ranking scale from 21 to 31) were assigned by Method 2. On the other hand, the 16 glycans in Set B belonged to Groups 2 and 3 (having low abundance and poor MALDI ionization efficiency) and were newly assigned using Method 1. Briefly, our GT-SPE-DHB/An method exhibited better sensitivity than the conventional DHB/An method.Figure 2
Venn diagram of the assigned glycans in Table3. The number in the parenthesis indicates the number of assigned glycans in each ranking group. Ini = intensity of Method i in a particular peak. ∗ The average and standard deviation were calculated for the commonly assigned 15 glycans of Set A.The improved glycan sensitivity of GT-SPE-DHB/An method was also confirmed by the MS peak intensity enhancement. We calculated the enhancement factors (EFs) of 15 commonly assigned glycans in Set A. Method 1 showed 8.8 times higher peak intensity (STD ± 6.5) than Method 2. The improved EF suggests that Method 1 efficiently suppresses noise and enhances MALDI ionization compared with the DHB/An method. These data support that the glycans which have relatively low abundance and poor MALDI ionization efficiency can be detected by our GT-SPE-DHB/An method.


## 4. Conclusions

We proposed a new method combining chemical derivatization and ion liquid matrix for sensitive MALDI-TOF MS analysis of N-glycans. Our method included microwave-assisted Girard T derivatization, SPE desalting, and DHB/An ion liquid matrix (GT-SPE-DHB/An). The synergistic combination of them resulted in more sensitive glycan detection than a conventional DHB/An method in MALDI-TOF MS. Using our GT-SPE-DHB/An method, we were successfully able to assign 31 glycans from the human serum N-glycan sample in the 900–2,000 m/z range. However, with the established method, i.e., DHB/An method, only 15 glycans were assigned. To the best of our knowledge, this GT-SPE-DHB/An method is the first to combine cationic derivatization of N-glycan and ionic liquid matrix for N-glycan analysis in MALDI-TOF MS.



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*Source: 7832987-2018-10-21.xml*