Study of glycosylation of prostate-specific antigen secreted by cancer tissue-originated spheroids reveals new candidates for prostate cancer detection

Prostate-specific antigen (PSA) is the most frequently used biomarker for the screening of prostate cancer. Understanding the structure of cancer-specific glycans can help us improve PSA assay. In the present study, we analysed the glycans of PSA obtained from culture medium containing cancer tissue-originated spheroids (CTOS) which have similar characteristics as that of the parent tumour to explore the new candidates for cancer-related glycoforms of PSA. The glycan profile of PSA from CTOS was determined by comparing with PSA from normal seminal plasma and cancer cell lines (LNCaP and 22Rv1) using lectin chromatography and mass spectrometry. PSA from CTOS was mostly sialylated and the content of Wisteria floribunda agglutinin reactive glycan (LacdiNAc) was similar to that of PSA derived from seminal plasma and 22Rv1. Conversely, concanavalin A (Con A)-unbound PSA was definitely detected from the three cancer origins but was almost negligible in seminal PSA. Two novel types of PSA were elucidated in the Con A-unbound fraction: one is a high molecular weight PSA with highly branched N-glycans, and the other is a low molecular weight PSA without N-glycans. Furthermore, the existence of Lewis X antigen group on PSA was indicated. These PSAs will be candidates for new cancer-related markers.


Results
contents of sialylated and GalnAc-containing glycans of pSA from ctoS. To estimate the structures of glycan moieties in the secreted PSA from CTOS, we first applied the culture medium containing PSA to some types of lectin columns and measured the amount of PSA in the unbound (−) and bound (+) fractions, since the concentration of PSA in the CTOS culture medium was low (approximately 30 ng/ml) and the available volume was limited. PSA from seminal plasma of healthy men and LNCaP-conditioned medium were also simultaneously analysed using the same set of lectin columns. Several reports have shown that the LacdiNAc structure is abundantly expressed in LNCaP cancer cell and this was examined as the cancer-related glycomarker 14,15 ; we measured the amount of PSA with LacdiNAc using Wisteria floribunda agglutinin (WFA) column chromatography. As shown in Fig. 1a,c, more than 90% of PSA from CTOS and seminal plasma passed through a WFA-Sepharose column and following Arthrobacter sialidase treatment, 23% and 32% of them bound to the column (Fig. 1b,d). On the contrary, more than 60% of PSA from LNCaP bound to the WFA column with or without sialidase treatment (Fig. 1e,f), indicating that more GalNAc residues in PSA from LNCaP exist than in PSA from CTOS and seminal plasma, and the residues in LNCaP are not sialylated. We have previously analysed seminal PSA using matrix-assisted laser desorption/ionisation-mass spectrometry (MALDI-MS) and found that 25% of PSA have one LacdiNAc in its N-glycan moiety 16 . The WFA column chromatography shows a good agreement with MALDI-MS analysis. The result of WFA column showed that the content of GalNAc in PSA from CTOS was not high unlike PSA from LNCaP. Since the behaviour of PSA from LNCaP on a WFA column differs from that of PSA from semen and CTOS, we examined another cancer cell line, 22Rv1. More than 80% of PSA from 22Rv1 passed through a WFA-Sepharose column (Fig. 1g) and 33% bound to the column after Arthrobacter sialidase treatment (Fig. 1h). These results show that in these cancer cells, other than LNCaP, LacdiNAc residue was not more than normal cells.
Concanavalin A (Con A)-unbound glycoforms in PSA from cancer cells. We applied PSA from CTOS and other sources to a Con A column. Consequently, 12% of PSA from CTOS, 13% of PSA from 22Rv1 and 22% of PSA from LNCaP passed through a Con A column (Con A (−) fraction), while less than 2% of seminal PSA passed (Fig. 2). Seminal PSA derived from different lots and companies including from WHO International Standard was also applied to a Con A column, and the Con A (−) fraction of PSA did not exceed 2% (data not shown). From these results, a significant amount of Con A-unbound PSA secretion was commonly identified in cancer cells.
High and low molecular weight forms of PSA in Con A (−) fraction of cancer cells. Next, we analysed PSA molecules in Con A (−) and (+) fractions by Western blotting. Since seminal PSA contained almost no Con A (−) fraction, we analysed it without Con A chromatography. The seminal PSA had the molecular mass of 31 kDa, and the molecular mass changed to 29 kDa after PNGase F (PNGF) treatment (Fig. 3a). The PSA from LNCaP in Con A (−) fraction separated into the molecular masses of 32 kDa (Fig. 3b, closed triangle) and 29 kDa (Fig. 3b, open triangle), while Con A (+) fraction had molecular mass of 31 kDa (Fig. 3b) that is the same as seminal PSA. Following PNGF treatment, both high molecular weight forms (32 and 31 kDa) changed to the low molecular weight form (29 kDa). On the other hand, the majority of 29 kDa (open triangle) in Con A (−) fraction did not change, suggesting that it was either with shortened or without N-glycans (Fig. 3b).
The PSA from CTOS also had the molecular mass of 32 kDa (Fig. 3c, closed triangle) and 29 kDa (Fig. 3c, open triangle) in Con A (−) fraction and 31 kDa in Con A (+) fraction (Fig. 3c). The low molecular weight form (29 kDa) in Con A (−) fraction migrated at the same position as the PNGF treated seminal PSA. Following PNGF treatment, the high molecular weight form (32 kDa) changed to the low molecular weight form (29 kDa) (Fig. 3d). As for PSA from 22Rv1, the Con A (−) fraction also contained the molecular masses of 32 kDa and 29 kDa (Fig. 4f).
The two forms of PSA with different molecular masses were found in Con A (−) fractions in CTOS, 22Rv1 and LNCaP cancer cells. Any high molecular PSA in Con A (−) fractions are slightly larger than the ones in the Con A (+) fractions. The low molecular PSA is considered to be either with shortly N-glycosylated or without N-glycans.
www.nature.com/scientificreports www.nature.com/scientificreports/ Multi-antennary and multi-fucosylated N-glycans in PSA from LNCaP cancer cell. We studied the N-glycan structures from LNCaP cell in detail. Since the amount of PSA in CTOS medium is limited, we immunoprecipitated PSA of the Con A (−) and (+) fractions from a large amount of conditioned medium of LNCaP cell and analysed them using MALDI-MS. For profiling the glycans at the N-glycosylation site of PSA, the peptide IRNKS (positions 43-47) with a glycan was obtained by thermolysin digestion. Glycan structures were confirmed using MALDI-MS n . A glycopeptide profile spectrum is shown in Fig. 5a. PSA glycopeptides of the Con A (+) fraction comprised bi-antennary glycans containing 0-2 LacdiNAc residues and had 0-2 fucose residues in the outer ends in addition to the core fucose. The glycopeptides in the Con A (−) fraction was confirmed to have no bi-antennary glycans. Instead, glycans with three or more branches were detected. The glycopeptides with tri-antennary glycans containing 0-3 LacdiNAc residues had 0-3 fucose residues in the outer ends in addition to core fucose. Together with the results of lectin chromatography, glycans with GalNAc in PSA from LNCaP were shown to be more abundant than those in normal PSA.

non-N-glycosylated form of PSA in the Con A (−) fraction from LNCaP cancer cell.
We further analysed the low molecular PSA in the Con A (−) fraction using MALDI-MS. If an endo-β-N-acetylglucosaminidase is present, it should have cleaved between the two N-acetylglucosamine residues in the N-linked diacetyl chitobiose core of the glycan, generating a truncated sugar molecule with one N-acetylglucosamine (±fucose) on the Asn. In another case, a peptide : N-glycanase (PNGase) that cleaves the amide bond between the innermost GlcNAc and the Asn residue, should have generated a de-N-glycosylated protein, resulting in conversion of Asn to Asp. We digested PSA in the Con A (−) fraction from LNCaP with Asp-N, which specifically cleaves the peptide bonds at the amino side of aspartic acid or cysteic acid residues, and analysed the peptides using MALDI-MS. If Asn was converted to Asp by PNGase, we should detect the peptide peak (m/z 1847.8) that corresponds with the peptide 45-60; however, we could not actually detect this peptide peak (data not shown). We prepared cDNA and analysed the sequence of PSA from CTOS and LNCaP. No mutations were found at the N-glycosylation potential site (data not shown).
Since synthetic peptides IRNKS and IRDKS were retained on GL-Tip-Amide together with glycopeptides because of their hydrophilic character, we inspected if truncated glycopeptides or non-glycosylated peptides 43-47 exist on the spectra of thermolysin-digested PSA from LNCaP. The synthesised peptide IRNKS have isotopic mass peaks (m/z 617.4 and 618.4) (Fig. 6a), and the synthesised peptide IRDKS have isotopic mass peaks (m/z 618.3 and 619.3) (Fig. 6b). Since the ion at m/z 618 comes from both peptides, it cannot be clearly distinguished between only IRNKS and the mixture of IRNKS and IRDKS (Fig. 6c). In the digested PSA from LNCaP, we detected the ions at m/z 617.3 and 618.3 ( Fig. 6d) but not the peaks corresponding with glycopeptides GlcNAc-IRNKS (m/z 820.4) or Fuc-GlcNAc-IRNKS (m/z 966.5) (data not shown). The MS 2 spectrum of the precursor ion (m/z 617) in Fig. 6d shows the same fragments as the peptide IRNKS (Fig. 6e,f). However, we could not determine whether it was only IRNKS or the mixture of IRNKS and IRDKS as already mentioned. Therefore, we analysed them using liquid chromatography-mass spectrometry (LC-MS) because it was expected that IRNKS and IRDKS are eluted at different positions from the LC column.
Identification of non-glycosylated PSA peptide from LNCaP as IRNKS. The peptides digested by thermolysin of the Con A (−) fraction of PSA from LNCaP were applied to LC-MS analysis and a peak (I) at the same retention time as that with standard IRNKS was detected (Fig. 7a,b). A peak (II) at the same retention www.nature.com/scientificreports www.nature.com/scientificreports/ time as that with standard IRDKS was also detected (Fig. 7a,c). The synthetic peptide IRNKS eluted as a single peak at 8.49 min (Fig. 7b), however, after thermolysin treatment IRNKS contained other two peaks at 10.17 and 10.37 min (Fig. 7d). On the contrary, the synthetic peptide IRDKS eluted at the same single position before and www.nature.com/scientificreports www.nature.com/scientificreports/ after thermolysin treatment (Fig. 7c,e). Therefore, the twin peaks II and III in Fig. 7a from the LNCaP Con A (−) peptides should be partly produced from IRNKS during thermolysin digestion, suggesting that conversion of Asn to Asp and iso-Asp 17 .
Presence of high molecular PSA glycans that do not bound Datura stramonium agglutinin (DSA). To further examines the N-glycan structures of the high molecular PSA in Con A (−) fraction from cancer cells, we applied them to a DSA column since DSA recognises the multi-antennary N-glycans that Con A does not recognize 18 . Majority of the high molecular PSA in the Con A (−) fraction from LNCaP bound to a DSA column suggesting that they have multi-antennary N-glycans (Fig. 4a,d). In the case of PSA from CTOS and 22Rv1, significant amounts of the high molecular form of the Con A (−) fraction in addition to non-N-glycosylated PSA were detected in DSA (−) fraction (Fig. 4e,f). The tri-antennary glycans with Galβ1-4GlcNAcβ1-4(Galβ1-4GlcNAcβ1-2)Manα1-3(2,4 branched) and Galβ1-4GlcNAcβ1-6(Galβ1-4GlcNAcβ1-2) Manα1-6(2,6 branched) interact with DSA 18 . In fact, we confirmed that both tri-antennary pyridylamino-sugars retained the DSA column (data not shown). Reportedly, DSA reduces its affinity by fucosylation on GlcNAc (Galβ1-4(Fucα1-3)GlcNAc: Lewis X (Le X ) structure) attached to tri-and tetra-antennary glycans 19 . PSA from LNCaP contains not only α1,2-fucosylated but also α1,3-fucosylated glycans as mentioned in above section and there is possibility of higher α1,3-fucosylation to outer sugar chains of CTOS and 22Rv1 than LNCaP. Le X structure expression in PSA from CTOS and 22Rv1. Since the possibility of α1,3-fucosylation of GlcNAc was suggested from the result of the DSA chromatography of PSA from CTOS and 22Rv1, we examined the α1,3-fucosylation of bi-antennary glycans of Con A (+) fractions, which account for more than 80% of total PSA. Galectin-1 recognises the non-reducing terminal galactoses of bi-or multi-antennary glycans; however, its affinity reduced by α2,6-sialylation of the terminal galactose and/or α1,3(4)-fucosylation of the GlcNAc adjacent to galactose 20,21 . Therefore, we examined the effect of sialidase and α1,3/4-fucosidase on the galectin-1 binding patterns.
When we applied seminal PSA to a galectin-1 column, only 30% of intact PSA but almost all of sialidase-treated PSA bound to a galectin-1 suggesting α2,6-sialylated galactose is the major form but no α1,3-fucosylation (Fig. 8a). In the case of the Con A (+) fraction of PSA from LNCaP (Fig. 8c), about half of it did not bind to a galectin-1 column even no sialylation. This agrees with the results from MS analysis (Fig. 5) that GalNAc-terminated and α1,3(4)-fucosylated GlcNAc adjacent to galactose glycans which are passed through a galectin-1 column were found. The majority of PSA from 22Rv1 and CTOS did not bind to a galectin-1 column (Fig. 8d,e) and some of them did not bind even after sialidase treatment (Fig. 8f,g). However, www.nature.com/scientificreports www.nature.com/scientificreports/ after α1,3/4-fucosidase digestion of the galectin-1 (−) fraction of sialidase-treated PSA, some of them bound to the galectin-1 (Fig. 8h,i), suggesting an existence of α1,3(4)-fucosylation of GlcNAc.
It has been reported that PSA has only one N-glycosylated site even it has three potential sites for O-glycosylation 24 . However, there are studies which suggested the presence of core 1 O-glycan 25 and core 2 O-glycan with sLe X26 . Therefore, we examined for the presence or absence of O-glycan on PSA because LNCaP cell can produce core 2 O-glycan with polylactosamine which is recognized by galectin-1 27 . To compare the molecular mass with the PNGF treated PSA from LNCaP, we prepared recombinant non-glycosylated PSA in E. coli. The molecular mass of the recombinant pro-form of PSA was 26971 calculated from the amino acid sequence for the molecule, however, it was shown as 29.2 kDa by SDS-PAGE suggesting an overestimation of 2.2 kDa occurs ( Supplementary Fig. S2). Based on this, the real molecular mass of PNGF treated PSA from LNCaP is estimated to be 26.6 kDa because it was determined as 28.8 kDa by SDS-PAGE ( Supplementary Fig. S2). From the amino acid sequences the molecular masses of pro-form and active form of PSA are calculated as 26840 and 26089, respectively. Since some of the secreted pro-form of PSA turned to the active form 28 , average molecular mass of peptide portion is estimated to be around 26.5 kDa. The finding that this molecular mass of peptide alone was in good agreement with the mass of the PNGF treated PSA from LNCaP concluded that the presence of core 2 O-glycan with polylactosamine (glycan mass is calculated as more than 1.4 kDa) on PSA from LNCaP is negligible.

Discussion
By analysing the N-glycan structures of PSA from CTOS, we found the new candidates of cancer specific PSA with highly branched N-glycans and also with no N-glycans. PSA from CTOS was mostly sialylated and the content of WFA reactive N-glycans (LacdiNAc) is similar to that of PSA derived from normal seminal plasma and 22Rv1 (Fig. 1), suggesting that an increase in LacdiNAc and a decrease in sialylation are not common in all prostate cancers. However, PSA molecules that could not interact with Con A were secreted from both CTOS and other cancer cells, which is almost negligible in seminal PSA from healthy men (Fig. 2).
Some studies have detected non-glycosylated PSA using 2D-electrophoresis; however, they did not directly detect non-N-glycosylated peptide from the PSA 29,30 . Therefore, the possibility of shortly glycosylated forms of www.nature.com/scientificreports www.nature.com/scientificreports/ PSA cannot be denied, and no further studies were conducted. In previous studies, amounts of PSA in both Con A (−) and (+) fractions were measured comparing between lysates from tissues of prostate cancer and BPH 31 or between sera of prostate cancer and BPH patients 9,32,33 . They reported that the amounts of PSA in Con A (−) fraction were significantly higher in prostate cancer samples than in BPH samples. These studies only measured www.nature.com/scientificreports www.nature.com/scientificreports/ the amounts of PSA included in Con A (−) and (+) fractions, not the structure of the molecule, therefore it was not clear whether Con A (−) fraction of PSA have multi-antennary N-glycans or is non-N-glycosylated. From our research, the detailed structures of PSA glycoforms in cancer cells, especially included in the Con A (−) fraction, has been elucidated for the first time.
In the Con A (−) fraction, we found PSA with both high-and low-molecular weights in common among cancer origins (Fig. 3). Series of MALDI-MS analysis indicated that highly branched complex type glycans exist in the Con A (−) fraction and α1,2and/or α1,3(4)-fucosylation occur on PSA from LNCaP (Fig. 5). It is also shown that the low molecular PSA from LNCaP is either with shortened or without N-glycans. MALDI-MS analysis detects no peptides with one N-acetylglucosamine (±fucose) on the Asn, suggesting that the low molecular PSA is not produced by endo-β-N-acetylglucosaminidase.
Since the occurrence of PNGase activity in several mammalian cultured cells was reported 34 , we investigated whether the low molecular PSA was deglycosylated by PNGase type enzyme. The LC-MS analysis showed that the majority of the N-glycosylation potential site on PSA remained Asn in Con A (−) fraction from LNCaP (Fig. 7), suggesting the consequences of glycan transfer failure in biosynthetic pathway. The truncated mucin-type O-glycans were found in many cancers 35 ; however, inadequate research has been performed on the hypoglycosylation of N-glycans till date. As one of the reasons, it is considered that non-glycosylated peptides are often separated in different fractions by hydrophilic chromatography for enrichment of glycopeptides prior to mass spectrometry and may fail to be detected.
We examined whether a non-N-glycosylated form exist in other glycoproteins which is secreted from prostate cancer cells. Zinc-alpha-2-glycoprotein (ZAG) is the glycoprotein that contains four putative glycosylation sites and is produced in many cell types including prostate epithelial cells 36 . In conditioned medium of LNCaP cell, only 3% of ZAG from LNCaP passed through a Con A column, while 22% of PSA in same fraction ( Supplementary Fig. S3a). Moreover, the molecular form that corresponding to the non-N-glycosylated form of ZAG was not observed in Con A (−) fraction ( Supplementary Fig. S3b). Non-N-glycosylation seems to be not always common to secreted glycoproteins in LNCaP cell.
An elevation of branching of N-linked glycans is often observed in glycoproteins produced by cancer cells 37 . In this study, we found that multi-antennary glycans were expressed in CTOS as well as 22Rv1 and LNCaP cells. We previously identified PSA with tri-antennary glycan in prostate cancer serum by MALDI-MS 38 . Haga et al. 39 analysed glycan structures of PSA using LC-MS/MS and their data showed that multi-antennary glycans are present in greater amounts in the sera of prostate cancer patients compared with BPH patients.
A frequent overexpression sialyl Le x/a (SLe x/a ) antigen on cancer cells has been shown 40 . We also proved the existence of fucose in the outer chains of PSA from cancer cells (Figs. 5b,c and 8), and significant expression of α1,3 FTs (Supplementary Fig. S1) in CTOS and 22Rv1, which regulate the synthesis of Le x and SLe x in PC-3 prostate cancer cell 22 . Since up-regulation of SLe x was observed in metastatic prostate cancer 41 , the expression of SLe x on PSA may become a candidate for prognostic marker. Recently, the elevated fucosylation in the outer chains of PSA glycans was found using lectin-immunoassay 42 .
Many studies have been done which focus glycans as biomarkers in prostate cancer 3 , especially N-glycan alterations of PSA [9][10][11][12]39,43,44 . Previous studies have revealed that not all patients can be detected by measuring the increase focusing only on a specific glycan structure such as α2,3-sialyl or LacdiNAc residues [9][10][11][12]43,44 . Assessing cancer-specific changes in combination with other target may improve accuracy. Our study has newly discovered that PSA with particular multi-antennary N-glycan and non-N-glycosylated PSA, which are rarely present in normal seminal plasma. In particular, the discovery of a marker from a new viewpoint of the presence or absence of N-glycan is expected to increase options. It is reported that the loss of N-glycosylation affects the malignancy of cancer 45,46 . Therefore, it is important to determine the rate of N-glycosylation besides detecting the particular glycan structure.
In this study, by analysing the N-glycans of PSA from CTOS and other cancer cells, we present the new candidates for cancer-related forms of PSA. Development of probes that recognise the novel PSA forms will pave the way for a sensitive diagnosis. Since the blood stability of these PSA forms are unknown, it is necessary to verify whether these forms are actually elevated in the sera of cancer patients in our next study.

Materials.
Seminal PSA was purchased from Calbiochem (San Diego, CA). The WHO International Standard PSA Free (NIBSC code 96/668) was obtained from National Institute for Biological Standards and Control (Herts, UK). Seminal PSAs were purified from seminal plasma of healthy men and were used as normal control. Synthetic peptides IRNKS and IRDKS were obtained from BEX Co. Ltd. (Tokyo). Bovine serum albumin (BSA) and phenylmethylsulfonyl fluoride (PMSF) were purchased from Merck (Darmstadt, Germany) and Halt TM protease inhibitor was obtained from Thermo Fisher Scientific (Rockford, IL).

Preparation of galectin-1 column.
Recombinant His-tagged galectin-1 was prepared as described previously 47 . The concentration of the purified galectin-1 was determined by a Bio-Rad Protein Assay dye reagent (Bio-Rad, Hercules, CA) using BSA as standard. The purified galectin-1 was immobilised to CNBr-activated Sepharose 4B (GE healthcare, Pittsburgh, PA) according to the manufacturer's instructions. www.nature.com/scientificreports www.nature.com/scientificreports/ conditioned medium was collected and was centrifuged at 3,000 rpm for 5 min to remove flow cells in medium, then was concentrated with Amicon Ultra 15 mL 10 K centrifugal filter (Merck) and stored at −20 °C until use. preparation of ctoS from tumour specimens. The patient-derived xenografts (PDXs) were generated from the tumour tissue with the patients' informed consent and approval of ethics committees by both Osaka University and the National Institutes of Biomedical Innovation, Health, and Nutrition. The study was also approved by the institutional ethics committees at Osaka International Cancer Institute. The PDX line, #415, was established from a metastatic tumour in the testis of a PSA-positive 59-year-old patient, initially diagnosed as prostate cancer at a clinical stage T4N1M0 (Gleason score 5 + 5). #415 grew rapidly in LPS non-responder Super SCID mouse C3H/HeJ/NOs-scid, and PSA in the blood serum of the host mice increased up to 1000 ng/ mL along with the increase of tumour size after transplantation. Animal studies were performed in accordance with the guidelines of the Institutional Animal Study Committee of the National Institutes of Biomedical Innovation, Health, and Nutrition. CTOSs were prepared from the xenograft tumours as previously described 48  Concentrations of PSA in each fractions were determined by ELISA as described above. The relative abundance of PSA in each (−) and (+) fractions is presented as percent with the sum of PSA in (−) and (+) fractions being 100 percent. We performed experiments several times using the condition medium from cells of the different passages. A representative chromatogram for each sample was shown in figure. Glycosidase digestion. To remove sialic acids, PSA was equibrated with reaction buffer (0.15 M sodium acetate buffer, pH 5.0, Halt TM protease inhibitor) incubated with 125 mU of Arthrobacter ureafaciens sialidase (Nacalai Tesque, Kyoto, Japan) at 37 °C for 18 h. After the reaction, samples were neutralised with sodium hydroxide. For de-N-glycosylation, samples are mixed with rapid PNGase F (P0710S, New England Biolabs Japan) in reaction buffer and incubated at 50 °C for 10 min according to manufacture's instruction. To remove fucose from glycopeptides, thermolysin-digested glycopeptides were treated with 40 mU of α1,2-fucosidase (Takara Bio, Otsu, Japan) in 90 mM sodium phosphate buffer pH 8.5 or with 4 U of α1,3/4-fucosidase (P0769, New England Biolabs Japan) in reaction buffer (50 mM acetate buffer pH 5.5 containing 5 mM Ca 2+ and 0.1 mg/ml of BSA) at 37 °C for 16 h, respectively.
Immunoblotting. PSA molecules were separated by SDS-PAGE using 12% gel and were transferred onto nitrocellulose membrane (pore size: 0.2 μm, Bio-Rad). Blots were blocked with 5% skim milk in TBS-T (20 mM Tris-HCl, 150 mM NaCl pH 7.5 containing 0.1% Tween 20). The membrane was incubated with anti-PSA polyclonal antibody (Dako) at 4 °C overnight. After being washed with TBS-T, the blots were incubated with HRP-conjugated anti-rabbit IgG and the bound conjugates were visualised with SuperSignal West Dura Extended Duration Substrate (Thermo Fisher Scientific) and imaged using a Bio-rad ChemiDoc XRS ™ . Determining of molecular weight was performed with Image Lab ™ Software (Bio-Rad).
immunoprecipitation. Anti-PSA monoclonal antibody was immobilised to NHS-Mag Sepharose (GE healthcare) according to the manufacturer's instructions. The antibody-coupled magnetic beads (10 μg/μL) were incubated with PSA samples for 16 h at 4 °C with gentle rotating. The beads were washed twice with PBS-T and once with PBS. The washed beads were eluted with 50% formic acid/30% acetonitrile and elutes were evaporated and stored at −20 °C until use. Elution was also performed by boiling with SDS sample buffer for gel electrophoresis. trated conditioned medium of LNCaP which had passage numbers between 20 and 40. PSA was dissolved in 25 mM NH 4 HCO 3 solution (50 μL) with 10 μg of thermolysin (Calbiochem) and was allowed to stand at 60 °C for 18 hours. The evaporated samples were dissolved in 100 μL of aqueous solution containing 80% acetonitrile and applied to the pre-equilibrated GL-Tip-Amide (GL Sciences Inc., Tokyo, Japan), and were washed with 80% acetonitrile. Next, the adsorbed glycopeptides were eluted with 80% acetonitrile-and 50% acetonitrile-water solution containing 0.1% trifluoroacetic acid, respectively. The eluted fractions were combined and were dried using a centrifugal evaporator and were dissolved in 10 μL of water. Digestion of PSA was also performed with 10 μL of Asp-N (10 ng/μL, Wako Pure Chemical Industries) at 37 °C for 18 hours and peptides were purified using C-18 tip (Thermo Fisher Scientific).
An aliquot of the dissolved sample solution (1.0 μL) was mixed with 0.5 μL of 1% methylene-diphosphonic acid on the target plate to reduce salt-induced signal suppression 49 . After drying, the samples were mixed with 0.8 μL of 2,5-dihydroxybenzoic acid solution (5 mg/ml, Shimadzu Biotech, Kyoto). We acquired mass spectra using a MALDI-TOF MS (AXIMA TOF 2 , Shimadzu Biotech) in linear mode or a MALDI QIT-TOF MS (AXIMA Resonance, Shimadzu Biotech) in positive and negative ion modes.
LC-MS analysis of non-glycosylated PSA peptides. LC-MS experiments were performed using an Ultimate 3000 HPLC system fitted to a Velos Pro Ion Trap LC-MS n system (Thermo Fisher Scientific). PSA from LNCaP was digested with thermolysin and peptides were purified as described above. For analysis of non-glycosylated peptides, samples were dissolved in 100 μL water in a 250 μL auto sampler vial. The LC-MS/ MS analysis was performed using a C18 column, Xselect HSS T3 XP (2.1 × 100 mm, 2.5 µm, Waters). After equilibration with 20 mM ammonium formate, isocratic elution was performed with 0.1% formic acid, 100 µL/min and a 5 min linear gradient with 0-100% acetonitrile and a 5 min isocratic elution with 100% acetonitrile were performed to elute residual peptides. The temperature of the heated capillary was set at 150 °C and the ion spray voltage at 3.5 kV.