Transferrin mutations at the glycosylation site complicate diagnosis of congenital disorders of glycosylation type I

Abstract

Congenital disorders of glycosylation (CDG) form a group of metabolic disorders caused by deficient glycosylation of proteins and/or lipids. Isoelectric focusing (IEF) of serum transferrin is the most common screening method to detect abnormalities of protein N-glycosylation. On the basis of the IEF profile, patients can be grouped into CDG type I or CDG type II. Several protein variants of transferrin are known that result in a shift in isoelectric point (pI). In some cases, these protein variants co-migrate with transferrin glycoforms, which complicates interpretation. In two patients with abnormal serum transferrin IEF profiles, neuraminidase digestion and subsequent IEF showed profiles suggestive of the diagnosis of CDG type I. Mass spectrometry of tryptic peptides of immunopurified transferrin, however, revealed a novel mutation at the N-glycan attachment site. In case 1, a peptide with mutation p.Asn630Thr in the 2nd glycosylation site was identified, resulting in an additional band at disialotransferrin position on IEF. After neuraminidase digestion, a single band was found at the asialotransferrin position, indistinguishable from CDG type I patients. In case 2, a peptide with mutation p.Asn432His was found. These results show the use of mass spectrometry of transferrin peptides in the diagnostic track of CDG type I.

Introduction

Congenital disorders of glycosylation (CDG) comprise a group of rare inherited metabolic disorders caused by deficient glycosylation of proteins and/or lipids. For N-glycan biosynthesis, a lipid-linked oligosaccharide is synthesized in the endoplasmatic reticulum, and transferred en bloc to a nascent protein. N-glycans are exclusively transferred to an asparagine in the consensus sequence Asn-Xxx-Ser/Thr, where Xxx is any amino acid except proline. The glycosylated protein is then transferred to the Golgi for further processing of the glycans. Defects in the biosynthesis and transfer of the lipid-linked oligosaccharide result in the loss of whole N-glycans on glycoproteins, resulting in a CDG type I (CDG-I).

Diagnostic screening of CDG is performed by isoelectric focusing (IEF) of transferrin. In its most abundant form, this serum glycoprotein carries two complex N-glycans attached to Asn432 and Asn630. Each N-glycan is terminated by two negatively charged sialic acids. Defects in the biosynthesis of N-glycans in the endoplasmatic reticulum cause a loss of one or two complete N-glycans, resulting in a typical IEF pattern of CDG-I, characterized by increased asialo- and disialotransferrin bands, and decreased tetrasialotransferrin. Secondary causes of hypoglycosylation such as galactosemia or fructosemia may cause an identical pattern and therefore must be excluded. Several transferrin protein polymorphisms result in a shifted IEF pattern, caused by pI differences of the polypeptide chain (Fujita et al. 1985; Kamboh and Ferrell 1987). Variant TF C is the most common form of transferrin, the anodic variant B and cathodic variant D are less common. In particular, heterozygous combinations of C and D variants may lead to misinterpretation in CDG diagnosis (Fujita et al. 1985; Marklova and Albahri 2009). Nevertheless, these polymorphisms can be identified by neuraminidase treatment of serum, resulting in an IEF pattern with two distinct asialotransferrin bands (Fig. 1, lane 5).

Fig. 1.

Transferrin isoelectric focusing profiles before and after neuraminidase incubation. Lane 1 and 1’: control, lane 2 and 2’: PMM2-CDG, lane 3 and 3’: case 1, lane 4 and 4’: mother of case 1, lane 5 and 5’: case 2, lane 6 and 6’: mother of case 2, lane 7 and 7’: patient with a known “D variant” polymorphism. Left and right of the figure are the numbers of sialic acids present on transferrin C variant

To improve diagnostics of CDG, mass spectrometric methods for glycoprotein analysis are being developed because of their higher sensitivity and specificity (Hahn et al. 2006; Lacey et al. 2001; Wada 2006; Wada 2007). Liquid chromatography-mass spectrometry (LC-MS) of immunopurified transferrin was proven to be a sensitive screening method for CDG-I, showing distinct peaks for fully glycosylated transferrin, and transferrin lacking one or two oligosaccharide chains (Bunkenborg et al. 2004; Hulsmeier et al. 2007; Lacey et al. 2001; Wada et al. 1992). For CDG type II with abnormal processing of glycans, analysis of enzymatically removed glycans can be diagnostic (Guillard et al. 2011).

Here, we present the application of MS of transferrin peptides in the diagnosis of CDG and reveal two novel transferrin mutations in the N-glycan attachment site.

Patients and methods

IEF and SDS-PAGE of transferrin

IEF of transferrin was performed as described in two cases. Case 1 was suspected of CDG due to a clinical presentation of cyclic vomiting accompanied with ketosis and metabolic acidosis and the appearance of atypical fat pads and inverted nipples at the age of seven. Hemoglobin and mean corpuscular volume were normal. Case 2 was a healthy donor for blood transfusion, who participated in a large-scale screening for transferrin variants in populations of Japan and New Zealand (Yuasa et al. 1987). His mother was also healthy.

Five μL of plasma was incubated for 30 min with equal volumes of 6.7 mM Fe(III)citrate and 0.17 mM NaHCO₃ (Fluka, Buchs, Switzerland) in ultrapure water, then diluted ten times in saline. Two μL of each sample was transferred to a hydrated immobilin dry gel (GE Healthcare, Buckinghamshire, UK) with Servalyt, pH 5–7 (Serva, Heidelberg, Germany) and run on a PhastSystem (GE Healthcare). Different isoforms of transferrin were detected by immunoprecipitation in the gel with 60 μL rabbit-anti-human transferrin antibody per gel (8.5 g/l; Dako, Glostrup, Denmark) for 30 min, followed by overnight washing in saline, fixation with 20% (w/v) trichloracetic acid and Coomassie blue staining.

Removal of sialic acids was achieved by incubating 3 μL of plasma for 30 min with the same volume of 6.7 mM Fe(III)citrate and 0.17 mM NaHCO₃ (Fluka) in water, prior to addition of 15 mU of neuraminidase (Roche diagnostics, Mannheim, Germany) and incubation for two hours at 37°C. IEF was then performed identically to non-treated samples.

Prior to SDS-PAGE analysis, plasma samples were centrifuged and diluted 100-fold with ultrapure water. Three μL diluted sample was mixed with 100 μL sample buffer (10 mM Tris–HCl, pH 8.0, 1 mM EDTA, 2.5% SDS, 2% DTT, and 0.01% bromophenol blue) and heated for 5 min at 95°C. The samples were then applied to a 12.5% Phastgel (GE Healthcare) and the proteins separated on a Phastsystem (GE Healthcare). After separation, the proteins were detected by western blotting using a primary rabbit anti-human transferrin antibody (Dako) and a secondary goat anti-rabbit peroxidase conjugated antibody, followed by electrochemiluminescence detection.

Matrix assisted laser desorption/ionization-MS (MALDI-MS) of transferrin

The purified transferrin was desalted by a ZipTip C4 (Millipore, Bedford, MA) and analysed by MALDI mass spectrometry using a Voyager DE Pro MALDI-time-of-flight mass spectrometer with a nitrogen pulsed laser (337 nm) (Applied Biosystems, Foster City, CA) (Wada et al. 1994). The sample matrix was 10 mg/mL sinapinic acid in a 0.1% (v/v) TFA and 30% (v/v) acetonitrile solution. The measurements were carried out in positive ion and linear TOF mode.

For electrospray MS of peptides, transferrin was dissolved in a solution of 6 M guanidine, 0.25 M Tris-HCl, pH 8.0, reduced with 0.13 M dithiothreitol at 50°C for 1 h and then S-carbamidomethylated with 0.22 M iodoacetamide for 30 min at room temperature. Tryptic peptides were desalted by ZipTip C18 (Millipore), dissolved in a 0.1% formic acid and 50% (v/v) acetonitrile solution and were directly infused into an LTQ XL ion trap mass spectrometer (Thermo-Fisher Scientific, San Jose, CA) using a nanospray tip. The CID MS/MS was carried out with helium gas and the spectra were acquired by 100 scans.

Genetic analysis

DNA from case 1 and his mother was isolated from whole blood samples by the commonly used salt-out method for DNA isolation. DNA of other family members was isolated from archived dried blood spots on filter paper using the QIAamp DNA Micro Kit (Qiagen, Valencia, CA). The isolation process was performed according to the recommended manufacturer protocols. The primers were designed to the intronic regions surrounding the 17 protein coding exons of the transferrin gene (TF gene: OMIM 190000; NCBI gene ID: 7018; NG_013080.1; ENSG00000091513). Primer sequences are available upon request. The fragments were amplified using the Combi PPP Master Mix (Top-Bio s.r.o; Praha, Czech Republic) and purified by gel extraction using Wizard SV Gel and PCR clean-Up System (Promega, Madison, WI). All fragments were sequenced on ABI PRISM 3100-Avant Genetic Analyzer (Applied Biosystems, Carlsbad, CA) using the Big Dye Terminator v.3.1 Cycle Sequencing Kit (Applied Biosystems) according the recommended manufacturer protocols. Sequence analyses were performed using SeqScape Software v2.5 (Applied Biosystems). The nucleotide numbering follows cDNA numbering with +1 corresponding to the A of the ATG translation codon in the reference sequence. The initiation codon is codon 1. For restriction analyses of the c.1889A > C mutation, the HpyCH4IV (New England BioLabs, Ipswich, MA) restriction endonuclease was used according to the manufacturer protocols of the enzyme.

Results

Clinical suspicion of CDG in case 1 triggered us to perform IEF of transferrin, which showed a type I profile (Fig. 1, lane 3) with increased disialotransferrin and decreased tetrasialotransferrin. Neuraminidase treatment resulted in a single band corresponding to asialotransferrin, suggesting that the double band in the untreated sample was not the result of a protein variant (Fig. 1, lane 3’). IEF of serum transferrin from case 2 and his mother showed two major bands in a 1:1 ratio with one band at the level of tetrasialotransferrin and one band just below disialotransferrin (Fig. 1, lanes 5 and 6). After neuraminidase treatment, two bands were visible at the asialotransferrin position (Fig. 1, lanes 5’ and 6’). The distance between these two bands is much smaller than between the bands of sialylated transferrin.

Additional information was obtained by SDS-PAGE analysis of transferrin. In controls, transferrin SDS-PAGE shows a single band around 79 kDa corresponding to the glycoprotein with two N-glycans (Fig. 2). The transferrin of a PMM2-CDG (CDG-Ia) patient showed bands with nonglycosylated transferrin at 75 kDa, transferrin with one N-glycan at 77 kDa and the fully glycosylated transferrin at 79 kDa (Wada et al. 1994). In cases 1 and 2, two bands of equal intensity were observed at 77 kDa and 79 kDa. This finding was confirmed by MALDI-MS of whole transferrin (Wada et al. 1994). Instead of a single peak at 79.6 kDa, peaks were observed at 77.3 kDa and 79.6 kDa, corresponding to transferrin with one and two N-glycans, respectively (Fig. 2).

Fig. 2.

MALDI-TOF profile of immunopurified transferrin, carrying 1 (m/z 77.3 kDa) or 2 (m/z 79.6 kDa) N-glycan chains. Dotted line: control, continuous line: case 1. The gray boxes represent the glycosylation consensus sequences of the transferrin protein. Right: SDS-PAGE of serum transferrin: C = control, C1 = case 1, C1.M. = mother of case 1

Despite these indications for true CDG-I profiles, a number of clues suggested otherwise. On transferrin IEF, the disialio- and tetrasialotransferrin bands were present in a 1:1 ratio, while asialotransferrin was normal (< 3%). In CDG-I patients, such severe profiles are commonly associated with an increase of asialotransferrin. IEF of thyroxin binding globulin (TBG), another serum glycoprotein used for screening of CDG, showed a normal pattern (data not shown). Additionally, transferrin IEF and SDS-PAGE in serum of the healthy mothers revealed similar patterns to their children’s (Fig. 1, lanes 4 and 6; Fig. 2). In contrast to the results after neuraminidase digestion, these findings were indicative of a protein variant.

In order to obtain more insight into the structure of the transferrin protein in cases 1 and 2, transferrin was immunopurified from serum, trypsinized, and the peptides were analyzed by mass spectrometry. Glycopeptides, known to be present in the normal transferrin, were detected. In addition, a thus-far unreported nonglycosylated peptide was found in case 1 as doubly charged ion at m/z 1252.1 and triply charged ion at m/z 835.0. MS/MS analysis revealed the peptide sequence 622-QQQHLFGST VTDCSGNFCLFR-642, corresponding to the non-glycosylated glycopeptide 2 with a heterozygous p.Asn630Thr change (Fig. 3). This asparagine is the second N-glycosylation site of transferrin (underlined). In case 2, an unknown doubly charged ion with m/z 750.4 was found. MS/MS sequencing indicated a p.Asn432His change in the first glycosylation site: 421-CGLVPVLAENYH K-433 (Fig. 4).

Fig. 3.

Analysis of transferrin peptides in case 1. a identification of doubly- and triply charged species, not present in controls. b MS/MS analysis of m/z 1252.1 indicates a p.N630T mutation in the second transferrin glycosylation site, thus peptide 622-QQQHLFGSN VTDCSGNFCLFR-642 is mutated to 622-QQQHLFGST VTDCSGNFCLFR-642

Fig. 4.

Identification of a protein mutation in case 2. MS/MS analysis of m/z 750.4 indicated a p.N432H mutation in the first transferrin glycosylation site in case 2, thus peptide 421-CGLVPVLAENYN K-433 is mutated to 421-CGLVPVLAENYH K-433

Thus, in both cases, MS/MS analysis of transferrin peptides showed a heterozygous amino acid change in one of the N-glycan attachment sites, resulting in a transferrin molecule with a single N-glycan. As a result, the mutated transferrin will lack two sialic acids and therefore be located at the disialotransferrin level on IEF. The imidazole group of the histidine in case 2 causes a slight pI difference between the common disialotransferrin and the mutated form.

For case 1, sequencing of the TF gene revealed the heterozygous c.1889A > C mutation, thereby confirming the p.Asn630Thr alteration at the amino acid level. RFLP analysis in family members of case 1 showed the heterozygous mutation in the mother of case 1, her sister and the grandmother. This p.Asn630Thr mutation was not found in 130 controls.

Case 2 was not available for further investigations at the molecular level. Yet, based on the amino acid sequence, a c.1294A > C mutation may have occurred, resulting in the substitution from Asn (AAT) to His (CAT).

Discussion

In the diagnosis of CDG, it is important to exclude secondary causes of hypoglycosylation of transferrin, as well as transferrin variants which show an IEF pattern suggestive of CDG. In this study, we showed that the current method to identify a protein variants by treatment of serum samples with neuraminidase can be misleading when the mutation is located in one of the amino acids of the consensus sequence of N-glycosylation for transferrin. The loss of the N-glycan in half of the transferrin proteins in serum resulted in a pattern with equal amounts of disialo- and tetrasialotransferrin. Although this resembles a CDG type I pattern, the approximate 1:1 ratio between the two isoforms in combination with low levels of asialotransferrin (< 3%), should trigger one to consider a mutation in one of the glycosylation sites. If neuraminidase treatment is inconclusive, IEF of another glycoprotein, like TBG, may provide additional information about a generalized glycosylation defect. When serum of the patient’s parents is available, IEF of transferrin in these samples can also help to exclude such a mutation.

Currently, mass spectrometry is increasingly used in diagnostics of inborn errors of metabolism. For CDG diagnosis, MS opportunities are growing (Lacey et al. 2001; Wada 2007; Guillard et al. 2011). Here, we show that the application of MS of transferrin (glyco)peptides reveals a non-glycosylated peptide with a mutated N-glycosylation consensus sequence Asn-Xxx-Thr/Ser. Alternatively, identification of non-glycosylated peptides with normal sequence will direct the diagnostics toward CDG-I. These analyses do not require additional serum sampling and provide unambiguous results.

Our findings indicate the potential for mass spectrometric analysis of transferrin (glyco)peptides, not only in CDG-II, but also in the diagnostic track of CDG-I patients. It allowed the detection of two novel mutations in the consensus glycosylation sites, which influence the screening by transferrin IEF.

Abbreviations

CDG

Congenital disorders of glycosylation

IEF

Isoelectric focusing

LC-MS

Liquid chromatography mass spectrometry

MALDI

Matrix assisted laser desorption/ionisation

TOF

Time-of-flight