Highlights
A comprehensive comparison among the different stages of diabetes was carried out.
Targeted metabolomics of amino acid and acylcarnitine based on LC-MS/MS was performed.
Six biomarker panels used for the clinical differential diagnoses were selected.
Differential pathways related to differential biomarkers were discussed.
INTRODUCTION
Type 2 diabetes mellitus (T2DM) is a metabolic disorder with high morbidity and severe damages. According to the prevalence study in 2017 from the International Diabetes Federation [1], the population of patients with diabetes in world was about 450 million by 2017, and this population would increase to 693 million in 2045. Moreover, T2DM can lead to various complications, such as diabetic retinopathy, nephropathy, and diabetic vascular diseases [2].
However, there is no prefect medical means to cure diabetes and its complications till date. Currently, medical treatment is devoted to reduce and control the blood glucose of patients in the prevention of T2DM [3,4]. Positive intervention and treatment are both beneficial to slow down the progresses of diabetes. As for the methods stated above, an early and accurate diagnosis is the most important step, which should be done before implementing any of the aforementioned medical cares.
Metabolomics is a powerful tool for investigating the metabolic changes and regulations of small molecules in the human body [5]. It has been widely used in the study of diseases, especially the discovery of disease biomarkers [5-7]. According to previous studies [8-12], the metabolic profiles of amino acids and acylcarnitines are close related to the occurrence and development of T2DM. And there are also a great number of studies that have demonstrated that these metabolites had the potential to be the differential biomarkers for the diagnosis of diabetes.
Tandem mass spectrometry is commonly used for new born screening due to the multianalyte detection approach, such as the profile measurement of disordered metabolites rather than a single analyte measurement [13]. Moreover, the application of ultra-performance liquid chromatography (UPLC) in metabolomics also represents an amount of advantages for the determination of endogenous low-molecular-weight metabolites [14]. Consequently, the UPLC coupled to tandem mass spectrometric technique (UPLC-MS/MS) has been recently applied to metabolic researches recently, especially for clinical metabolomics [15,16].
Thus, a targeted metabolomics based on MS/MS for studying the T2DM and its complications was carried out for exploring the metabolic changes of amino acids and acylcarnitine as well as discovering the biomarkers for differential diagnosis.
METHODS
Patients and experiments design
Our study was approved by the Ethics Committee for Clinical Research of the First Affiliated Hospital of Jinzhou Medical University and the informed consent was waived due to the nature of the retrospective study, which was in accordance with the Helsinki Declaration of 1964 and its later amendments [17,18]. The approval number for IRB on our study is JZURLL20200001.
A cohort of 210 subjects (including 54 normal individuals [NIs], 32 impaired fasting glucoses [IFGs], 21 simple diabetes [SDs], and 103 diabetic complications [DCs]) was randomly recruited from the First Affiliated Hospital of Jinzhou Medical University from March 2016 to March 2017. They were between ages of 19 to 77 and not related to each other. There were no significant differences in the composition of gender and age among all control groups and disease groups according to the t-test (P>0.05).
The patients did not take steroids or nonsteroidal anti-inflammatory drugs, lipid-regulating drugs and other drugs at least in 2 weeks prior to the treatment. The included standards of the patients were as follows: all patients were diagnosed as T2DM according to the diabetes diagnosis and treatment standard (2018) of American Diabetes Association [19].
The excluded criteria of the diabetic group were as follows: (1) patients with hyperuricemia; (2) patients with malignant tumors; (3) patients received chemotherapy within 1 year; (4) patients received transfusions within 5 days; (5) patients with malnutrition; (6) patients with inherited metabolic diseases; and (7) patients with intravenous infusion of amino acids within 3 days.
Training set and validation set
In this study, all subjects were divides into 10 cross-comparisons (Supplementary Fig. 1) according to the stages of diabetes and the types of DCs. For every cross-comparison, samples were divided into a training set and a validation set according to the ratio of 3 to 2 [20]. Then, the training set was used to establish the predicting model in the multivariate data analysis while the validation set was used to assess the model.
Detection of metabolites by tandem mass spectrometry
Samples and preparation
In this study, the blood samples were taken from all subjects. MS/MS was used to detect and measure amino acids and carnitines. The total detections contained 58 metabolites including 23 amino acids, 35 acylcarnitines (Supplementary Table 1).
A paper disc of 3 mm was punched from the dried blood spots (DBS) filter paper, which was equal to 3.2 μL of whole blood. Then, the paper discs were inserted into a well in Millipore MultiScreen HV 96-well plate (Carrigtohill, Ireland) and subjected to the extraction of metabolites. Briefly, each 100 μL of working solution was added into a well including a DBS disc. The plate was shaken gently for 20 minutes at room temperature and centrifuged at 1,500 ×g for 2 minutes. The filtrate was gathered into a new flat-bottom 96-well plate. For every plate, quality control (QC) sample solutions contained two high-level and two low-level solutions were randomly assigned into four blank wells and analyzed as real samples to monitor the stability of the MS/MS analysis. The QC solutions and filtrate were dried under pure nitrogen gas at 50°C. We derived each dried sample in 60 μL 1-butanol and acetyl chloride mixture (90:10, v/v) at 65°C for 20 minutes, and the derivatized solutions were dried under pure nitrogen gas at 50°C again. Finally, we added 100 μL mobile phase solution into each well before analysis.
Chemicals
HPLC-grade acetonitrile (ACN) and HPLC-grade water were acquired from Thermo Fisher (Waltham, MA, USA). Acetyl chloride and 1-butanol were purchased from Sigma-Aldrich (St. Louis, MO, USA). Internal standard kits including eight labelled carnitine internal standards (catalogue number: NSK-A) and 12 stable isotope-labelled amino acid (catalogue number: NSK-B) for absolute quantification were obtained from Cambridge Isotope Laboratories (Andover, MA, USA). The characteristics of these internal labels were listed in Supplementary Table 2. QC amino acids and carnitines mixed standards were purchased from Chromsystems (Grafelfing, Germany).
NSK-A and NSK-B were dissolved with 1 mL of methanol to get a stock solution (stored at 4°C). The working solution for metabolite extraction was prepared by diluting the stock solution 100 times. The QC samples were processed as real samples and randomly inserted in the analysis queue.
Tandem mass spectrometry
MS/MS analysis was implemented on an AB SCIEX 4000 QTrap system (AB Sciex, Framingham, MA, USA) equipped with an electrospray ionization source in positive mode. The injected volume was 20 μL. A mixture of 80% ACN aqueous solution was used as the mobile phase. The elution program was initiated with 0.2 mL/min, then decreased to 0.1 mL/min within 0.08 minute and kept constant until to 1.5 minutes. Next, the flow rate increased to 0.2 mL/min within 0.1 minute and held for 0.5 minute. The mass spectrometry ion spray voltage was set at 4.5 kV. Pressures of Ion Source Gas 1 and Gas 2 were all 35 psi. Curtain gas pressure was 20 psi. The auxiliary gas temperature was held at 350°C. The raw data were collected by Analyst v1.6.0 software (AB Sciex). The quantification of individual metabolites was accomplished by ChemoView 2.0.2 software (AB Sciex) against different isotope standards.
Metabolomics study
Data pre-processing
All data analysis involved in this study were coded by R (v3.6.3) scripts and implemented in R Studio (v 1.1.423). A series of pre-processing were implemented to the primary dataset to ensure the datasets as reasonable, including imputation of missing data, data centralization and data standardization. In addition, identification based on boxplot and principal component analysis was carried out to remove the outliers.
Univariate analysis
In order to identify differential metabolites among cross-comparisons, P values calculated by Kruskal-Wallis test and adjusted by false discovery ratio of 58 metabolites detected by MS/MS were obtained from R scripts. Logarithm of fold change at a base of 2 was calculated to reveal the extents and directions of metabolism changes between the controls and patients.
Multivariate data analysis
A supervised analysis, orthogonal partial least squares discriminant analysis (OPLS-DA), was used to establish a classifier of training set from 10 comparisons. Then, the parameters of 10-fold cross-validation were used to assess these OPLS-DA models. Potential biomarkers could be determined by combining P values and the variable importance in projection (VIP) of this classification model. Based on VIP of these models, a heatmap and partial least squares regression analysis were used to reflect the metabolic regulations and the separated ability of these classifiers, respectively. Then, the receiver operating characteristic (ROC) curve and the prediction of validation set were carried out to evaluate the differential diagnosis ability for these identified biomarker panels.
Pathways analyses
The metabolic pathway analysis for every biomarker panel was implemented by Metaboanalysis 4.0 platform [21]. Significant influenced pathways for every biomarker panel were plotted. Based on the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway database, a metabolic diagram of all differential metabolites was mapped to present the alternatives within metabolism of amino acids and acylcarnitines in the development of T2DM.
RESULTS
A total of 210 participants (including 54 NIs, 32 patients with IFG, 21 patients with SD, and 103 patients with various DCs) were enrolled. The subjects were divided into 10 cross-comparisons (Supplementary Fig. 1) according to the different stages and complications of diabetes. Six cross-comparisons composed of NIs and diabetes patients had been selected and used for further analysis to obtain more valuable metabolites within populations in different diabetic phases.
Baseline characteristics
Baseline characteristics of all experimental participants were shown in Supplementary Table 3. There was a progressive increase in blood glucose across the groups from NI to IFG, IFG to SD, and SD to DC. Patients with IFG, SD, and DC had much higher body mass index than NI; and patients with SD also showed a significant elevated blood pressure (either systolic or diastolic) compared to NI and IFG. In addition, patients with diabetic peripheral vascular disease (DPVD; a type of diabetic macro vascular complications) underwent a longer duration of disease than those with diabetic microvascular complication (DMVC). All groups showed no significant difference in age and gender ratio.
Multivariate statistical analysis
The OPLS-DA method was applied to investigate the existence of metabolites disturbance in the 10 cross-comparisons. Among 10 OPLS-DA models, eight of them were built successfully. Clear differences were obtained from all these comparisons, but our analysis mainly focused on the following six models (Fig. 1): IFG versus NI, cumulative R2Y at 0.907 and Q2 at 0.822; SD versus IFG, cumulative R2Y at 0.858 and Q2 at 0.428; DMVC versus SD, cumulative R2Y at 0.962 and Q2 at 0.738; DPVD versus SD, cumulative R2Y at 0.971 and Q2 at 0.683; DMVC & DPVD versus SD, cumulative R2Y at 0.971 and Q2 at 0.899; DMVC & DPVD versus DMVC, cumulative R2Y at 0.946 and Q2 at 0.897. OPLS-DA score plots of other two comparisons, including SD versus NI and DPVD versus DMVC, were represented in Supplementary Fig. 2.
Differential metabolites and disturbed pathways
Differential metabolites, including 11 amino acids and 13 acylcarnitines, with VIP >1.5 and adjusted P values <0.05 from six paired comparisons were selected and listed in Table 1 (some metabolites not only appeared in one comparison). The heatmap in Fig. 2 represented the trends of all detected metabolites and differential metabolites in six groups, respectively.
Based on differential metabolites, the perturbed pathways were determined and shown in Fig. 3. For IFG versus NI, metabolic changes involved valine-leucine-isoleucine, fatty acid, and arginine-proline purine; for SD versus IFG, changes involved alanine-aspartate-glutamate, tryptophan, and nitrogen metabolism; for DMVC versus SD, changes involved alanine-aspartate-glutamate, nitrogen, D-glutamine and D-glutamate metabolism; for DPVD versus SD, changes involved cysteinemethionine, arginine-proline and tryptophan metabolism; for DMVC & DPVD versus SD, changes involved alanine-aspartate-glutamate, cysteine-methionine, phenylalanine and sulfur metabolism; for DMVC & DPVD versus DMVC, changes involved cysteine-methionine, phenylalanine, and sulfur metabolism. Differential metabolites and disturbances of metabolism for other two comparisons could be found in Supplementary Table 4 and Supplementary Fig. 2.
Potential biomarkers for differential diagnosis
As shown in Table 1, six panels of differential biomarkers were generated from each cross-comparison, including nine metabolites for distinguishing IFG from NI, six for SD versus IFG, seven for DMVC versus SD, seven for DPVD versus SD, six for DMVC & DPVD versus SD, and six for DMVC & DPVD versus DMVC. The differential biomarkers for other comparisons were provided in Supplementary Table 4.
ROC and prediction of validation set were carried out to evaluate the potential of differential metabolites for predicting the diagnosis. ROC curve and prediction results were shown in Fig. 4. The areas under curves for six comparisons were 0.978, 0.922, 0.939, 0.978, 1.000, and 1.000 in order of IFG versus NI, SD versus IFG, DMVC versus SD, DPVD versus SD, DMVC & DPVD versus SD, and DMVC & DPVD versus DMVC.
The predictions of both the training and validation sets were implemented based on OPLS regression method. The prediction plots of each comparison all demonstrated clear separation of disease groups from non-disease groups or complication groups from non-complications groups. The ROC and prediction plots for other two groups were represented in Supplementary Fig. 2.
DISCUSSION
Although the diagnosis of diabetes or prediabetes can currently be accomplished by a simple measurement of blood glucose, but there are also several reasons for supporting metabolite checks in our body at the same time. Firstly, the diagnosis of diabetes or prediabetes by the only one measurement-plasma glucose-may generate a false positive result and lead to a wrong diagnosis by the doctor. In this case, metabolites indexes may be a helpful assistant indicator. Secondly, these metabolites can also provide much more information about a diabetes or prediabetes patients. For example, the differential diagnosis metabolites might be able to tell us the progress of diseases. These will be valuable for providing the patients with a more specific and better treatment. Therefore, it is necessary to measure and assess the metabolites of diabetes and prediabetes patients.
This research investigated the metabolic disturbances of amino acids and acylcarnitines among NIs, patients with IFG, patients with SD and patients with various diabetic vascular complications. Metabolic phenotypes revealed that there were significant differences within the metabolism of normal persons, IFG, diabetes and DCs. The results of our study proved that amino acids and acylcarnitines were of great association with diabetes development and further attempted to clear these relevant metabolites. In addition, the results also provided a series of metabolite panels that might be benefit for the early prediction of T2DM and the differential diagnosis of DCs. Specifically, these panels might offer valuable assistances for the prediagnosis, prevention, and prognosis of diabetes, such as graded prevention and treatment of diabetes.
Comparisons within normal, impaired fasting glucose, and simple diabetes
IFG is considered to be an intermediate states of glucose metabolism appeared between normal and overt diabetes, which is usually caused by relatively deficiency of insulin secretion (such as low insulin sensitivity and injury of islet β-cell function) [22,23]. During this period, patients with IFG usually have a great chance to reduce blood glucose to normal by reasonable dietary control and regular exercise interventions [24]. So, the early detection and diagnosis were crucial for population with potential diabetes. In our studies, comparing with NIs, patients with IFG showed down-regulated leucine (Leu), citrulline (Cit), C16; and up-regulated C6DC, C12, C14, C14:1, C14:2, C14-OH. While comparing with IFG patients, simple diabetic patients represented increased Cit, tyrosine (Try), asparagine (Asn), Leu, C8, and only decreased C16:1-OH.
According to the previous studies [9,10,25], Leu is proved to be able to stimulate insulin secretion by activating the mammalian target of rapamycin signaling pathways and trends to accumulate in populations with prospective insulin resistance or T2DM. In our research, significant increased Leu in patients with overt T2DM proved the previous conclusion [26]. However, the level of Leu was decreased in patients with IFG, which were never reported in any similar studies. We supposed that it might be a new early characteristic of transition from NIs to prediabetes, although this also might be caused by the individual differences of patients, which need to be further validated in a bigger cohort study.
As shown in Fig. 5, Cit is an essential metabolite in urea cycle and associated with tricarboxylic acid (TCA) cycle through L-glutamine [12]. In the comparison of IFG versus NI, Cit showed a significant decrease in IFG patients, which was consistent to the alternatives of Leu. While in overt diabetic patients, Cit represented a significant elevation comparing with IFG patients, which might result from the elevation of L-glutamine in diabetes [27].
Asn and Try were the other two differential amino acids in the comparison of SD versus IFG distinct from that of IFG versus NI. They were involved in the alanine-aspartate-glutamate metabolism and tryptophan metabolism, respectively. Recently, in a 5.5 years follow-up study, higher level of Asn was proved to predict a progression to prediabetes [28]. Although, in our research, Asn level did not represent a significant increase between NIs and IFG patients, it showed a significant high level in patients with diabetes comparing to patients with IFG. Moreover, Yu et al. [29] and Matsuoka et al. [30] both revealed that tryptophan and its metabolites were both associated with higher risk of incident T2DM in a Prevención con Dieta Mediterránea (PREDIMED) trial.
Free fatty acids are another important source of acetyl coenzyme A (acetyl-CoA) for TCA cycle other than that of glucose, but an important prerequisite is that they must be esterified to free carnitines to form acylcarnitines that can then be transported into the mitochondria to be further oxidized [31]. However, the incomplete oxidation of long-chain fatty acids (LCFAs) in patients would result in the accumulation of acylcarnitines [31]. The studies revealed that the medium- and long-chain acylcarnitines tended to increase in patients with IFG as well as diabetic patients, which were probably associated with the incomplete combustion of LCFAs [32,33]. In addition, the inefficient LCFA beta-oxidation might also increase the accumulation of acetyl-CoA and generate short chain acylcarnitines that could activate proinflammatory pathways to exacerbate insulin resistance [33,34].
Comparisons within different diabetic complications
Patients with a longer history of diabetes usually represented various complications as well as more differential metabolisms [35]. In the cross-comparisons within SD and different DCs, there were either similarities or subtle distinctions in differential metabolites. For the comparison of DMVC versus SD, individuals with DMVC showed down-regulated both amino acids and acylcarnitines, including Asn, Gln, C6DC, C8, C14, C14:2, and C16. For the comparison of DPVD versus SD, patients with DPVD, showed up-regulated Orn and down-regulated C6DC, Met, C14:2, C14DC, Try, C18-OH. And for the comparison of DMVC & DPVD versus SD, C6DC and C14DC showed down-regulated; while the other differential metabolites, including Gln, Hcy, Phe, Tyr, were significantly decreased.
Based on the changes of these differential metabolites, we could conclude that patients with DMVC or DPVD or with both usually represented the obviously decreased amino acids and acylcarnitines. However, there were also several abnormal amino acids and acylcarnitines, such as Orn and C14:1, represented diverse tendency among the group of DMVC, DPVD, and DMVC & DPVD. Although other metabolites also showed those diverse directions which were controversial considering the pathophysiology of DCs, we supposed that the abnormal trend of these biomarkers might be the potential feature of the patients with the DMVC and DPVD at the same time. For these reasons, it is necessary to include much more patients with the similar conditions to perform more validation analysis.
For the changes of amino acids in diabetic micro and macro vascular complications, a recent case-cohort study attempted to explore the relationships within the circulating amino acids and the risk of diabetic vascular complications. In this study, the higher phenylalanine, lower glutamine and histidine were associated with an increased macrovascular risk; while the higher Try and alanine was associated with the decreased risk of microvascular [32]. In our study, Gln, Phe, and Tyr represented significant different among SD, DMVCs, and diabetic macrovascular complications. There also existed several differential amino acids that were first reported. Although these might be novel characteristics for the prediction of DCs, they also needed to be further validated.
There were only a few studies that reported the correlations between the changes of acylcarnitines and the occurrence of diabetic vascular complications. For example, in a recent study focused on kidney disease progression due to T2DM in American Indians, the results also suggested that patients with progressive pattern had a lower abundance of long-chain acylcarnitines (C16-20) [36]. In our studies, we assumed that the decreased amino acids and acylcarnitines in patients with DCs might be related to the compensation of patients during a long-term disease, such as the enhanced TCA cycle might be used to supply energy for human bodies. Meanwhile, we believed that the metabolism in diabetic patients would even worsen along with the prolongation of the clinical course.
In addition, we supposed that there might also exist some kinds of differential metabolites between diabetic microvascular disease and macrovascular disease. Thus, the comparison of DMVC & DPVD versus DMVC was analyzed. We found that long chain acylcarnitines and amino acids were both significantly decreased in patients with microvascular and macrovascular disease compared to patients with microvascular alone, which also revealed the same metabolic pattern aforementioned in comparison with patients having DCs and SD.
The current research was the first to implement such a comprehensive diabetic study for investigating the differential metabolism of NIs and patients in different disease status. Metabolism changes were observed from six cross-comparisons, and six biomarker panels composed of specific amino acids and acylcarnitines were obtained from all differential metabolites. These biomarkers were of great significance to the differential diagnosis and graded prevention of diabetes in clinical studies. Specifically, those biomarkers from the comparison of IFG versus NI and SD versus IFG might be an assistant for the early diagnosis of diabetes, which were probably used to be the risk factors for the primary or secondary prevention of diabetes; while the biomarkers from the other four comparisons were of great ability to distinguish different DCs from SD, which might be the excellent prediction biomarkers for the prognosis of diabetic, as well as tertiary prevention.
In conclusion, in this study, we proved that amino acids and acylcarnitines could distinguish NIs, IFG, SD, and DCs by metabolomics based on MS/MS. Six biomarkers panels that could be used for the differential diagnosis of diabetes and DCs were identified and represented excellent predicting abilities. Based on our results, these differential biomarkers might be a meaningful supplement for the early diagnosis, prevention, and prognosis of T2DM. Moreover, the investigations of the metabolic profiles of differential amino acids and acylcarnitines were of great potency for understanding the development of diabetes and its complications.
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