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The Journal of Immunology, 1998, 161: 5918-5929.
Copyright © 1998 by The American Association of Immunologists

Transcription of a Broad Range of Self-Antigens in Human Thymus Suggests a Role for Central Mechanisms in Tolerance Toward Peripheral Antigens1

Mireia Sospedra*, Xavier Ferrer-Francesch{dagger}, Orlando Domínguez§, Manel Juan{dagger}, Màrius Foz-Sala{ddagger} and Ricardo Pujol-Borrell2,*,{dagger}

* Department of Cell Biology, Physiology, and Immunology, Faculty of Medicine, Campus of Bellaterra, Autonomous University of Barcelona, 08193 Bellaterra (Barcelona), Spain; {dagger} Immunology Division and {ddagger} Internal Medicine Division, University Hospital "Germans Trias i Pujol," Badalona (Barcelona), Spain; and § Immunology Division, Research Centre, Almirall-Prodesfarma SA, Barcelona, Spain


    Abstract
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
The role of the thymus in the induction of tolerance to peripheral antigens is not yet well defined. One impending question involves how the thymus can acquire the diversity of peripheral nonthymic self-Ags for the process of negative selection. To investigate whether peripheral Ags are synthesized in the thymus itself, we have determined the expression of a panel of circulating and cell-bound peripheral Ags, some of which are targets of autoimmune diseases, at the mRNA level in total thymic tissue and in its main cellular fractions. Normalized and calibrated RT-PCR experiments demonstrated the presence of transcripts of nonthymic self-Ags in human thymi from 8 days to 13-yr-old donors. Out of 12 glands, albumin transcripts were found in 12; insulin, glucagon, thyroid peroxidase, and glutamic acid decarboxylase (GAD)-67 in six, thyroglobulin in five, myelin basic protein and retinal S Ag in three, and GAD-65 in one. The levels of peripheral Ag transcripts detected were age-related but also showed marked interindividual differences. Cytokeratin-positive stromal epithelial cells, which are a likely cellular source for these, contained up to 200 transcript copies of the most expressed peripheral Ags per cell. These results implicate the human thymus in the expression of wide representation of peripheral self-Ags and support the view that the thymus is involved in the establishment of tolerance to peripheral Ags. The existence of such central mechanism of tolerance is crucial for the understanding of organ-specific autoimmune diseases.


    Introduction
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
The mechanism(s) that maintain tolerance to peripheral self-Ags are under intense review and are a subject of controversy (1–4; http://biomednet.com/hmsbeagle/12/cutedge/day1.htm#3). Some recent data (4, 5) support the role of peripheral tolerance but also point to precursor frequency and TCR affinity of circulating autoreactive T cells for the maintenance or breach of tolerance to peripheral self-Ags. The reduction of precursor frequency and deletion of high affinity autoreactive T cells were found to be dependent of thymic negative selection (4, 5, 6).

In experiments aimed at cloning autoreactive T cells from tissues affected by autoimmune diseases, we (M. Catálfamo, unpublished observation), and others (7), had difficulties in eliciting clear responses to autoantigens both from the initial bulk cultures or from "autoreactive" clones. One possibility is that autoimmune responses in human disease are driven by T cells bearing low-avidity TCRs. This would also imply that most T lymphocytes bearing high-avidity TCRs to peripheral Ags are eliminated from the repertoire, and this process would occur mainly in the thymus. These results led us to examine whether peripheral and sequestered self-Ags (in general and in particular self-Ag targets of autoimmune responses, i.e., autoantigens) are produced in situ by a population of thymic cells. This question has not been experimentally addressed until recently and, when investigated, it has only focused on a few Ags.

Preliminary experiments (8, 9, 10) have detected pancreatic islet and thyroid self-Ags in human thymi. Based on these results, we decided to examine the more general issue of whether expression of peripheral self-Ags in the thymus is a normal process. This was addressed by determining the thymic expression of a panel of self-Ags whose access to the thymus is markedly different. These include: 1) self-Ags expressed constitutively in all cell types: ß-actin and glyceraldehyde phosphate dehydrogenase (GAPDH)3; 2) self-Ags of restricted tissue expression but present in the circulation at high (albumin), medium (thyroglobulin (Tg)) and low (glucagon and insulin) levels; 3) self-Ags of restricted tissue expression that are undetectable in the circulation: thyroid peroxidase (TPO), glutamic acid decarboxylase 65 (GAD65), and glutamic acid decarboxylase 67 (GAD67); and 4) classical sequestered Ags: myelin basic protein (MBP) and retinal S Ag (Ret S Ag). The H-Y Ag, which is only expressed in male tissues and generates central tolerance, provides an additional control (11). Some of the self-Ags selected for this study are targets of the autoimmune response leading to disease, i.e., GAD65, GAD67, and insulin of type I diabetes; MBP of multiple sclerosis; and TPO and Tg of autoimmune thyroiditis.

If predisposition to autoimmune disease is linked to the frequency of precursors and this is affected by thymic expression of self-Ags, disease predisposition would be influenced by the levels of self-Ag expression in the thymus, a possibility already suggested by Pugliese et al. (10) and Vafiadis et al. (9) for insulin. Therefore, it would be important to determine whether individual variability in thymic self-Ag expression is a common event.

Finally, accepting the current view that the diversity of the T cell repertoire is shaped during the initial years of life to reach a plateau around puberty (12), one would expect self-Ag expression to decrease with age. We investigated whether there is a relationship between self-Ag expression and the age of the thymic gland donors.

Given the large number of self-Ags, we predicted that the amount of self-Ags expressed in the thymus would have to be small. However, it is known that small Ag levels that are only detectable as transcripts by RT-PCR can be tolerogenic (13). We have used this technique to detect self-Ags as transcripts and, subsequently, to demonstrate the presence of their corresponding protein from cellular fractions rich in peripheral Ags.

Our results show that most peripheral and sequestered Ags are indeed expressed in normal human thymus with a tendency to decrease with age and with marked interindividual differences. Ags circulating at medium or even high levels, such as albumin and Tg, are also expressed in the thymus, indicating that endogenous synthesis is probably a requirement for self-Ags to induce tolerance in the thymus.

The above questions are crucial not only to understand tolerance but also the pathogenesis of organ specific autoimmune diseases, e.g., insulin-dependent diabetes mellitus and multiple sclerosis, in which the main defect is a failure in the maintenance of tolerance to peripheral self-Ags.


    Materials and Methods
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Substrates and cell fractionation

Samples of thymic tissue from 16 patients were obtained in the course of routine thoracic surgery on children with congenital heart abnormalities. The age of the donors ranged from 8 days to 13 years. Blocks (0.5 cm) were snap frozen and kept at -70°C until used. Cryostat sections were stained with hematoxilin and eosin or toluidine blue and were examined under the microscope to exclude the presence of extensive areas of adipose tissue and to ensure that both cortex and medulla tissue were present.

Tissue samples from pancreas, thyroid, liver, esophagus, stomach, and adrenal glands used as controls were obtained from cadaveric organ donors. Human brain RNA was provided by Clontech (Palo Alto, CA). Rat eyes were used as source of retinal RNA. The human cell lines M1 (fibroblasts) and U937 (monocytes) (American Type Culture Collection, Manassas, VA), and PBL were used as additional controls.

Thymus cell fractionation protocol is summarized in Fig. 1Go. Thymic tissue (~4 g) was minced into very small fragments with sharp scissors and resuspended in 25 ml of RPMI 1640 culture medium (BioWhittaker, Walkersville, MD) supplemented with 100 IU/ml penicillin (Normon, Madrid, Spain), 40 µg/ml gentamicin (Normon), 2 mg/ml collagenase (type P, sp. act. 2.7 U/mg; Boehringer Mannheim, Mannheim, Germany), and 0.05 mg/ml DNase I (Sigma, St. Louis, MO) and was digested at 37°C under continuous stirring for 25 min. After removing the supernatant-containing cells, the process was repeated twice.



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FIGURE 1. Thymus cell fractionation. A, Thymus cell fractionation protocol. B, Summary of the results from counting positive cells in cytospins from the different cell fractions stained by IFL. Epithelial cells were labeled with a mAb to Ck 8/18, macrophages with mAbs to CD14 plus CD68, and thymocytes with a mAb to CD2. Results are expressed as a mean with range in brackets.

 
Small stromal fragments that remained undigested were washed and mechanically dispersed; these constituted fraction 1. Dispersed cells were pooled and washed by centrifugation at 500 x g twice; this constituted fraction 2. An aliquot of this cellular fraction was rosetted with neuraminidase (0.1 U of neuraminidase Type X (Sigma) for 30 min at 37°C)-treated SRBC (N-SRBC) to remove thymocytes as described (14). Thymic cells were incubated with N-SRBC at a 1:20 cell ratio during 10 min at room temperature, centrifuged at 1000 x g for 10 min, and kept at 4°C for 60 min. Single cells were separated from rosettes by centrifugation on Ficoll-Hypaque (Pharmacia Biotech, Uppsala, Sweden) at 700 x g for 30 min. Cells partially depleted from CD2+ thymocytes were collected from the interface and washed as above; these constituted fraction 3. Cells in the pellet were freed from SRBC by lysis with an hypotonic shock using ACK, lysing buffer (0.15 M NH4Cl, 1 M KHCO3, 0.1 mM EDTA); these constituted fraction 4.

Purification of RNA, cDNA synthesis, sample normalization, RT-PCR, and assessment of primer sensitivity

RNA was prepared following Chomczynski’s technique (15). Frozen samples were homogenized in lysis buffer consisting of guanidium thiocyanate (4 M; Serva, Heidelberg, Germany), N-lauroyl-sarcosine (0.5% w/v; Serva), Na citrate, pH 4 (50 mM; Sigma), and 2-ME (5%; Sigma) using an homogenizer (T25 Ultra-Turrax, IKA Labortechnik, Germany). To prevent potential cross-contamination of samples, the homogenizer probe was repeatedly rinsed in 2 M NaOH and sonicated between samples. To reduce sampling error, RNA was extracted from several blocks from each organ after histology assessment (see above). Pancreatic and liver tissue were pulverized in liquid nitrogen before RNA extraction. Each RNA sample was quantified in a spectrophotometer and its integrity tested by electrophoresis in 2% agarose and ethidium bromide staining. To avoid interference by contaminating genomic DNA, all samples were treated with DNase I (15 U; Pharmacia Biotech), DTT (5 mM; BRL, Gaithersburg, MD), RNaseOUT Recombinant Ribonuclease Inhibitor (20 U; BRL), Glycogen (40 mg; Boehringer Mannheim), and First Strand Buffer (50 mM Tris-HCl, 75 mM KCl, 3 mM MgCl2, pH 8.3; BRL) in a volume of 40 µl at 37°C for 30 min. After treatment, the RNA was precipitated, quantified, and tested for integrity as above.

For reverse transcription, 1 µg of total RNA (denatured by heating for 5 min at 68°C) was incubated with SuperScript II Reverse Transcriptase (100 U; BRL), RNaseOUT (20 U), dNTPs (1 mM final concentration; Pharmacia Biotech), Oligo d(T)20 (5 µM; Genset, Paris, France), and First Strand Buffer in a volume of 20 µl at 37°C for 1 h. The reaction product was heated to 95°C for 5 min and cooled on ice.

All cDNA samples were normalized using GAPDH expression as reference. Twenty microliters the cDNA reaction mix was diluted with ddH2O to 100 µl and serial dilutions (1/10, 1/20, and 1/40) were prepared. Two microliters from each cDNA dilution was amplified for GAPDH at 22 PCR cycles (before the reaction reached the amplification plateau). The protocol used for this PCR reaction was similar to that used for the amplification of self-Ag cDNA (see below). Dilutions that gave bands of similar intensity in ethidium bromide-stained gel were selected for subsequent PCR experiments.

PCR was performed in 20 µl with Dynazyme II DNA polymerase (0.4 U; Finnzymes Oy, Espoo, Finland), DZ buffer (10 mM Tris-HCl, pH 8.8, 1.5 mM MgCl2, 50 mM KCl, 0.1% Triton X-100), dNTPs (0.2 mM; Pharmacia Biotech) and primers (1 µM final) designed to span at least one intron (Genset; sequences in Table IGo). PCR was performed in a thermal cycler (Perkin-Elmer Cetus 480, Emerville, CA) with a 40-s denaturation step at 94°C, a 40-s annealing step at different temperatures depending on the primers (melting temperatures, tm, are listed in Table IGo), a 20-s extension step at 72°C for 35 cycles, and a final extension of 7 min at 72°C. One sample containing all reagents without cDNA was included in every run as contamination control. Product specificity was confirmed by oligoprobe hybridization: 12 µl of the amplified products were subjected to electrophoresis in 2% agarose and transferred to nylon membranes (Hybond, Amersham, U.K.) in 20x SSC. Membranes were rinsed for 5 min in denaturation solution (1.5 M NaCl, 0.5 M NaOH) and for 1 min in neutralization solution (1.5 M NaCl, 0.5 M Tris-HCl (pH 7.2), 0.001 M EDTA), and the DNA were UV cross-linked. The membranes were prehybridized directly in 2x SSC, 5x Denhardt’s, 1% SDS, and salmon ssDNA for 1 h at hybridization temperature (thy; thy = tm - 15°C; see Table IGo). Hybridization was conducted for 3 h at the same temperature and with the same solution to which 1 x 106 cpm/ml of purified radiolabeled oligoprobe had been added. The oligoprobes were labeled with [{gamma}-32P]-dATP (Amersham) using T4 polynucleotide kinase (New England Biolabs, Beverly, MA). Oligoprobes were designed in our laboratory, and their sequences are shown in Table IGo. Filters were washed with tetramethylammonium chloride (TMAC) washing solution (25 mM Tris, pH 8.5, 2 mM EDTA, 1% SDS, and 3 M TMAC; Sigma). This solution obviates the need for adjusting the washing temperature according to the Cytosine-Guanine content of the probe so that it only depends on the length of the hybrid (16). The 21-mer oligoprobes were washed at 61°C and the 18-mer oligoprobes at 57°C. Autoradiography was performed at -70°C using Cronex x-ray film (DuPont, Boston, MA).


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Table I. Oligonucleotide primers and probes

 
Assessment of the influence of the primers in the sensitivity of the system was established for each set of primers by titration experiments using 0.1 to 106 copies/µl of amplified product as template. PCR products from titration experiments and from thymus and control tissue samples were subjected to electrophoresis, transferred to nylon membranes, and hybridized at the same time and under same conditions. Densitometric analysis of the autoradiographs was performed using a Scanjet II scanner (Hewlett Packard) and processed with the Scan Analysis software package for MacOS (Biosoft, Cambridge, U.K.).

Northern blot hybridization

Total RNA was extracted as described above. Poly(A)+ RNA was purified using Dynabeads Oligo (dT)25 (Dynal, Oslo, Norway) according to the manufacturer’s instructions. Ten micrograms of poly(A)+ RNA were subjected to electrophoresis in formaldehyde agarose gels, transferred to nylon membranes (Hybond, Amersham) in 20x SSC, and UV cross-linked. Membranes were hybridized as described (17); briefly, prehybridization was performed in 0.25 M Na2HPO4, 1% BSA, 1 mM EDTA, and 7% SDS for 2 h at 68°C. Hybridization was conducted for 16–20 h at the same temperature and with the same solution to which 1.5 x 106 cpm/ml of purified radiolabeled probe had been added. The probes were labeled with [{alpha}-32P]-dCTP (Amersham) by random priming using the oligolabeling kit (Pharmacia Biotech). The probes used (412 bp-ß-actin, 338 bp-albumin, and 257 bp-Tg) were generated by PCR in our laboratory. The filters were washed in 20 mM Na2HPO4, 1 mM EDTA, and 1% SDS at 68°C for 30 min. Autoradiographs were performed at -70°C using Cronex x-ray film (DuPont).

Immunofluorescence staining

Cytospins from dispersed cell preparations of the different thymic fractions were first fixed in acetone at -20°C for 2 min, air-dried for 30 min, and then stained with mAbs to cytokeratin (Ck) 8/18 low m.w. (NCL5D3; Novocastra Laboratories, U.K.), CD2 (OKT11, European Cell Culture Collection, Witshire, U.K.), CD14 (47–3Q6, provided by Dr. R. Vilella, Hospital Clínic Provincial, Barcelona, Spain), CD68 (CD68-EBM11, Dako, Denmark), and with a control mAb (IA3, provided by Dr. R. Vilella) followed by FITC goat anti-mouse serum (Southern Biotechnology, Birmingham, AL). Other cytospins were stained with rabbit anti-S100 (18) serum (Dako), followed by tetramethylrhodamine B isothiocyanate (TRITC) goat anti-rabbit Ig (Dako), mAb anti-HLA Class II (EDU-1, provided by Dr. R. Vilella), and FITC goat anti-mouse IgG (Southern Biotechnology). Separate control cytospin slides were stained following the same protocol but omitting one of the specific Abs in each. Preparations were examined under phase contrast and UV illumination by two independent observers (X.F.-F. and R.P.-B.) under a Zeiss Axioplan UV microscope (Zeiss, Oberkochen, Germany). The results are given as a percentage of positive cells.

Statistical analysis

For statistical analysis transcription levels were classified into two categories: positive (including weak positives) and negative. Results were compared in binomial tables; the paired or unpaired test was applied as indicated. Values of p < 0.05 were considered significant.


    Results
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Reliability and sensitivity of transcript amplification; definition of transcription level

The aim of this work was to demonstrate transcription of self-nonthymic genes in the thymus by means of RT-PCR. Precautions to ensure reliability, avoid artifacts, and enable interexperiment comparisons were taken even if precise quantification was not practical or feasible. These precautions were: 1) extraction of the RNA from a number of randomly selected thymic blocks representative of the whole gland; 2) elimination of genomic DNA interference by treating samples with DNase and by using primers spanning intronic regions; 3) normalization of the cDNA input into the PCR reactions according to the expression of GAPDH; 4) confirmation of the specificity of the amplification by hybridization with a complementary oligoprobe; 5) conversion of autoradiograph OD values to number of template copies by using the results from the primer titration as reference and the OD of their positive control to calculate a correction factor for autoradiograph exposure time; 6) definition of a semiquantitative scale for the transcription level of specific genes (autoradiograph OD values corresponding to less than 10 copies per aliquot of cDNA normalized for GAPDH and PCR amplified were considered negative, values corresponding to a number of copies between 10 and 100 were weakly positive, and values corresponding to more than 100 copies were positive); and 7) all amplification experiments have been conducted at least twice. Experiments assessing self-Ag expression in thymic cell fractions were repeated four times. Results have always been consistent.

In summary, the normalization for GAPDH makes it possible to compare RT-PCR results for each given self-Ag in different tissue samples, while the definition of transcription levels allows the comparison of results from different self-Ags in each given tissue sample.

Normal human thymic glands contain transcripts from a broad spectrum of self-Ags

As expected, all thymic glands contained transcripts for the control constitutive house-keeping genes ß-actin and GAPDH. Because cDNAs were normalized for PCR loading according to GAPDH, not surprisingly its expression level was similar in the 12 thymic glands. ß-actin transcripts were also present in all glands while H-Y Ags were predictably expressed only in male thymi. The relative expression levels follow the hierarchy actin > GAPDH > H-Y. GAPDH transcripts were more abundant than average peripheral Ag transcripts. The amount of H-Y transcripts was similar to that of Tg, glucagon, and albumin as assessed by direct inspection of gels under UV (Fig. 2Go). Hybridization results also indicated that the H-Y transcription levels were, in many instances, within the same order of magnitude as that of some peripheral Ag transcripts (Fig. 3GoA).



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FIGURE 2. Expression of bona fide constitutive Ags compared with peripheral Ags (transcripts). Comparison of peripheral Ag transcription in thymus, detected by RT-PCR and visualized by ethidium bromide staining. M, PhiX174/RsaI DNA size marker. High (ß-actin) and moderately expressed (GAPDH) genes, as well as H-Y, a gene whose product induces central tolerance, have been included in the figure. Abbreviations: d, days; m, mo; y, yr.

 



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FIGURE 3. Expression of peripheral Ag transcripts in thymic glands. A, Southern blots of amplification products of control and peripheral self-Ags from a panel of thymus samples. +, Control tissue, i.e., liver for albumin; thyroid for Tg and TPO; pancreas for insulin, glucagon, GAD65, and GAD67; brain for GAD65, GAD67, and MBP; and rat retina for Ret S Ag. -, Reagents without cDNA. The bottom panel shows GAPDH amplifications products stained by ethidium bromide. M, PhiX174/RsaI DNA molecular size marker. B, Results from primer titration experiments that provide reference values for the semiquantitative analysis of transcription levels. Titration for each set of primers was conducted with 0.1 to 106 copies/µl of a preamplified product as template. Graphs show the densitometry values corresponding to autoradiographs. C, Checkerboard graphic illustrating transcription levels. A semiquantitative scale for the level of transcription of specific genes was defined. Autoradiograph OD values corresponding to less than 10 copies per aliquot of cDNA normalized for GAPDH and PCR amplified have been considered negative (white squares), values corresponding to a number of copies between 10 and 100 have been considered weakly positive (grey squares), and values corresponding to more than 100 copies have been considered clearly positive (black squares). The number of copies was estimated by extrapolation using autoradiograph OD values from parallel primer titration experiments as reference values.

 
Of a total of 108 RT-PCR experiments, which include the amplification of nine typical peripheral self-Ags transcripts in 12 different thymi, 48 (33%) gave positive results (Fig. 3GoA). The circulating levels bore some relation with the level of thymic transcription. Albumin, which circulates at 50 g/L, was detected in 12 out of 12 thymi, while insulin, glucagon, and Tg, which circulate at 500–5 ng/L (107–109 lower levels than albumin), were detected in 5, 6, and 6 out of 12 glands, respectively. Noncirculating peripheral Ags, TPO, GAD67, and GAD65, were detected in a similar proportion of glands: 6, 6, and 1, respectively. Sequestered Ags, MBP and Ret S Ag, were detected in 3 out 12 glands each. These results are assigned to one of three categories according to the defined levels of transcripts: negative, weak positive, and positive (Fig. 3GoC). However, for statistical analysis the results were considered as either positive (including weak positives) or negative, and the peripheral Ags were clustered in groups, i.e., circulating, noncirculating, and sequestered. The analysis showed significant differences between circulating and noncirculating Ags, 29/48 (60%) vs 13/36 (36%) ({chi}2 (1) test, p = 0.03), and between circulating and sequestered Ags, 29/48 (60%) vs 6/24 (25%) ({chi}2 (1) test, p = 0.007).

Organ-specific Ags are transcribed in more tissues than expected but are not ubiquitous

To determine the tissue specificity of the peripheral Ags studied, we analyzed the transcription of these genes in a panel of control samples. We found that most of the Ags presented the expected tissue distribution (Fig. 4GoA). TPO transcripts were clearly detected only in thyroid; glucagon in pancreas; GAD65 in pancreas and brain; Ret S Ag in retina; and MBP transcripts were clearly amplified in brain but small amounts were detected also in the thyroid and in the cell line U937. In contrast, transcripts for albumin, Tg, insulin, and GAD67 were detected in more tissues than expected but were not ubiquitous, and their expression remained confined to embriologically related tissues. Results are summarized in Fig. 4GoB. The cell lines expressed some peripheral autoantigens, but this is not totally unexpected in transformed cells.



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FIGURE 4. Peripheral antigen transcription in control tissues. A, Southern blots of amplicons for peripheral self-Ags in control tissue samples. -, Reagents without cDNA. The bottom panel shows GAPDH amplifications products stained by ethidium bromide. M, PhiX174/RsaI DNA molecular size marker. B, Checkerboard graphic showing the levels of transcription. For interpretation, see Fig. 3Go.

 
Peripheral Ags are transcribed at a low level in the thymus

Because the level of transcription, as assessed by RT-PCR, was appreciable for albumin and Tg, we tried to demonstrate their presence in six thymic gland samples by a Northern blot with 10 µg of poly(A)+ RNA. Results were still negative after 21 days exposure (Fig. 5Go). RT-PCR results were confirmed in that albumin transcripts were detected in control pancreatic tissue mRNA.



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FIGURE 5. Northern blot for peripheral Ag expression in thymus and control tissues. Gels were loaded with 10 µg of poly(A)+ RNA from the thymic glands and with 0.1, 1, and 10 µg from the positive control tissues as indicated. Autoradiographs were exposed for 5 days (albumin), 2 days (Tg), and 2 h (ß-actin). Membranes exposed up to 25 days failed to reveal albumin or Tg transcripts in the thymic glands. Abbreviations: d, days; m, mo; y, yr; M1, fibroblast cell line; R, rat retina.

 
Transcription of peripheral Ags in the thymus tends to decrease with age but shows marked interindividual variability

To investigate whether transcription of peripheral self-Ags in the thymus is related to age, we included in the study samples from a range of ages. Overall, the expression of peripheral Ags in the thymus tended to decrease with age as it can be appreciated in the checkerboard graphic (Fig. 3GoC). For statistical analysis, both weak and clear positive results were considered positive, and donors were stratified by age. The difference was significant; in thymi from <2-yr-old donors, 32/54 (80%) PCRs were positive vs 16/54 (30%) in those from >2-yr-old donors (nonpaired {chi}2 (1) test, p = 0.004). For some Ags, e.g., glucagon and insulin, there are strong discrepancies among glands from donors of the same age.

Identification of thymic cell fraction(s) that contain peripheral Ag transcripts

To identify the cell population actively transcribing peripheral Ag genes in the thymus, we analyzed the levels of their transcripts in different cellular fractions from four enzymaticly dispersed glands (TMB31, TMB33, TMB38, and TMB39). Cells were characterized by flow cytometry and cytosmear staining with mAbs to markers for the three most abundant thymus cell types: thymocytes (CD2), stromal epithelial cells (8/18 Ck), and macrophages (labeled with a mixture of mAbs to CD14 and CD68). Dendritic cells were identified by double IFL staining with mAb to HLA Class II and S-100 on cytosmears. The initial cell preparation was found so heterogeneous that the aim of the fractionation protocol had to be limited to generate fractions that differed markedly in cell composition among themselves and with respect to the starting material rather than to generate pure populations. This protocol combined with the assessment of peripheral Ag transcription level in each fraction would make it possible, by a cosegregation analysis, to assign given self-Ag transcripts to particular cell populations.

We succeeded in generating fractions of very different cellular composition. As shown in Fig. 1GoB and 6a, fraction 1 was in average 100-fold enriched in Ck-positive epithelial cells when compared with fraction 4 (thymocytes); fraction 3 was 16-fold enriched in macrophages and around fourfold in dendritic cells when compared with fraction 4 (thymocytes); and, finally, fraction 4 is fourfold enriched in CD2+ thymocytes with respect to fraction 1. Fraction 2 is the preparation from which fraction 3 and 4 were derived and, therefore, contains a mixed population. It was included in the analysis to check the consistency of the results. Fig. 6Go, a and b, show representative IFL staining of cytosmears and flow cytometry.



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FIGURE 6. Characterization of thymic cell fractions by IFL staining of cytosmears and flow cytometry. a, Summary of cell counts performed by UV microscopy and representative micrographs from the cytosmears. b, FACS analysis. The left panel shows the histogram corresponding to a representative preparation of cells that were fixed in 1% paraformaldehyde, incubated with 0.05% saponin, and stained for cytoplasmic Ck. The middle and right panel show histograms of surface labeled cells. A total of 104 cells were acquired.

 
The comparison of peripheral Ag expression in the different cell fractions (see Fig. 7Go) showed that fraction 1, which has the highest content of epithelial cells, also contained the highest level of peripheral self-Ag transcripts (23/32 RT-PCRs). Fraction 4 (thymocytes) and fraction 3 (enriched in macrophages) only occasionally showed high levels of peripheral Ag transcripts (2/32 for both) (paired {chi}2 test, p < 0.001). The expression of peripheral Ag bore no relation with the distribution of dendritic cells.



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FIGURE 7. Southern blots of the amplicons for peripheral self-Ags in thymic cell fractions. T, Unfractionated frozen tissue; fraction 1, undigested stromal tissue (epithelial cell rich population); fraction 2, ezymatically dispersed cell preparation (lacks undigested stromal tissue present in fraction 1; fraction 3, macrophage enriched population; fraction 4, thymocyte-enriched population (see text for details). +, Specific control tissues for each antigen: pancreas, brain, thyroid, liver, and rat retina. -, Reagents without cDNA. The bottom panel shows GAPDH amplifications products stained by ethidium bromide. M, PhiX174/RsaI DNA size marker.

 
We calculated the number of copies of specific mRNA per cell in each fraction based on: i) cell number in the starting material; ii) the expected content of RNA per thymic epithelial cell per thymocyte (19); iii) total RNA obtained from the starting material: iv) proportion of RNA used for retrotranscription and PCR; and v) comparison of the autoradiographs signal with that of the corresponding primer titration experiments. This calculations also took into account the initial normalization of the RNA content according to GAPDH and introduced a correction factor for autoradiograph exposure time, as above. Table IIGo illustrates and summarizes the results. Their validity was supported by the finding of a similar number of copies of GAPDH and H-Y per cell in all cellular fractions. Given the number of steps and the variability of some of the techniques and the unrealistic assumption of a 100% efficiency of mRNA retrotranscription, these results should be taken as approximate and valid only to determine the minimal order of magnitude of the copy number. Taking into account all these shortcomings we consider that these estimations are useful in the interpretation of the raw data. Our results suggest that epithelial cells are responsible for peripheral Ag expression in the thymus.


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Table II. Estimated number of specific mRNA molecules per cell in the different thymic fractions

 
To further follow how peripheral Ag transcripts cosegregated with the stromal epithelial cells with respect to nonepithelial cells, we calculated the number of transcript copies for a given Ag in the epithelial an nonepithelial cells by solving the following two equations, which contain two unknown variables: the number of mRNA copies for the given peripheral Ag per epithelial cell (nRNAep) and per nonepithelial cell (nRNnep). This equation would be formulated for fraction 1 as: Total specific RNA copies in cells from fraction 1 = nCep x nRNAep + nCnep x nRNAnep. This equation would be formulated for fraction 4 as: Total specific RNA copies in cells from fraction 4 = nCep x nRNAep + nCnep x nRNAnep. In these equations, total specific RNA copies in each fraction is the number of copies of specific cDNA normalized for GAPDH detected by PCR, which are a two known values; nCep and nCnep are the number of epithelial cells and nonepithelial cells, respectively, from which the template cDNA for the PCR was derived, which also are two known quantities. Note that these quantities are a small proportion of the starting cell population. Therefore, we have sufficient data for solving the two equations for each peripheral autoantigen. The results are summarized in Table IIIGo.


View this table:
[in this window]
[in a new window]
 
Table III. Estimated number of specific mRNA molecules per epithelial cell in the different thymic fractions

 
The data from these two numerical estimations point clearly to the stromal epithelial cells as the cells that contribute most to the peripheral Ag transcripts. The higher cellular content of total mRNA of these cells made it more difficult to appreciate this fact in the direct inspection of the autoradiographs.


    Discussion
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Tolerance has been back in the focus of immunologic research since 1987, when Kappler et al. (20) and Kisielow et al. (11) demonstrated the deletion of autoreactive thymocytes in mice, providing direct experimental support to one of the predictions of the original clonal selection theory (21). It is accepted that tolerance to widely expressed abundant self-Ags is maintained through the deletion of autoreactive T lymphocytes in the thymus when their TCR recognize high-affinity self-peptides presented by MHC molecules. How tolerance to less widely expressed self-Ags, often called "peripheral" Ags, is maintained remains an open question. Cells with special functions, such as endocrine cells, contain many Ags of restricted expression that do not circulate in the blood. These Ags will fall into the category of peripheral Ags. The central nervous system, including the eye, is considered an immunologically privileged site, i.e., not in contact with the cells of the immune system, and tolerance to their Ags is not required to avoid autoimmunity. Neural and ocular Ags of restricted expression belong to a special category of peripheral Ags known as "sequestered Ags."

Tolerance to peripheral and sequestered Ags is certainly not absolute as demonstrated by cell cloning experiments showing the presence of circulating T cells capable of recognizing peripheral self-Ags such as thyroid peroxidase (TPO) (22), collagen (23, 24), and even the sequestered Ag MBP (25, 26). Models of autoimmune diseases that are induced by the immunization of animals with self-Ags in adjuvants also prove the availability of autoreactive T cell clones in the normal repertoire (27, 28, 29, 30). Because it seemed unlikely that the thymus could harbor a representation of the whole spectrum of Ags expressed in all the tissues of the organism, it has been assumed that tolerance to Ags of restricted tissue distribution would be dependent on peripheral tolerance. Experiments conducted using transgenic mice expressing as transgenes a variety of nonself-Ags under the control of tissue specific promoters supported this view (31), and tolerance was postulated to be the result of clonal anergy and/or ignorance (32). The two-signal paradigm of lymphocytic activation (33, 34, 35) has been invoked to explain the induction of T cell anergy in the periphery, i.e., presentation of Ag by parenchimatous cells expressing MHC but not costimulatory molecules would result in clonal anergy.

Miller et al. (36, 37) pointed out that the first experiments with transgenic mice, which had suggested a dominant role for peripheral mechanisms in establishing tolerance, may have been misleading because the expression in the thymus of transgenes coding for peripheral Ags had not been checked. They and other authors (38) had results demonstrating thymic expression of such "tissue specific transgenes." The implication is that the tolerance to peripheral Ags observed in the initial set of transgenic mice was "central" tolerance. Recent experiments (4, 5) have provided direct evidence of the critical importance of precursor frequency of autoreactive T cells in the development of autoimmunity. These results call for a reevaluation of the role of central mechanisms in the maintenance of tolerance to peripheral Ags.

In this report, we provide evidence for the expression of a broad variety of nonthymic self-Ags in human thymic glands from different age donors from a few days of life to 13 years. Our results are in agreement with a number of recent reports of the unexpected detection of some peripheral Ags in human (9, 10, 39, 40, 41) and mice thymus (42, 43, 44, 45). This is the first study in which the question of whether this is a general phenomenon has been addressed by the systematic investigation of the expression of a wide variety of peripheral self-Ags in the human thymus. The results presented here indicate that human thymus does express the full spectrum of self-Ags. However, we cannot rule out that some of the neuroendocrine self-Ags detected may actually have a regulatory function in the thymus as it was suggested in the past (46, 47). Nevertheless, it is difficult to envisage a nonimmunologic function for all the self-Ags expressed in the thymus. A similar view was proposed years ago under the name of the "peptone hypothesis" (48), according to which epitopes representative of all self-Ags are expressed in the thymus to shape the T cell repertoire.

A shortcoming of this and previous studies is that peripheral Ag expression in the thymus has been assessed at the mRNA level using RT-PCR, whereas the presence of the corresponding protein has only been confirmed in a few cases. However, there are several arguments that uphold that most of these transcripts are translated into functional proteins in small but functionally relevant quantities. i) The abundance of transcripts (in the order of 1–100 copies per epithelial cell) is 2–4 orders of magnitude above the abundance attributable to "illegitimate transcription," i.e., the minimal spontaneous transcription of genes that occur at random, which is 1 copy per 100-1000 cells; amplification of those illegitimate transcripts always requires two rounds of PCR using nested primers (49, 50). The levels of transcripts we detected in some thymi were in some instances like Tg and albumin, comparable to the levels of H-Y transcripts, an Ag whose expression is known to induce central tolerance. ii) When self-Ag expression was investigated in the different thymic cell fractions, the transcripts were preferentially distributed in the fractions most enriched in epithelial cells, a candidate for T cell selection (51). Furthermore, by staining cytosmears of dispersed thymic cells enriched in epithelial cells we have detected cells that contain insulin in their cytoplasm. Further work is required to determine the cell type and confirm that the cells that stained for insulin are those that contain the transcripts detected by RT-PCR.

Based on the above arguments, we consider that self-Ag expression in the thymus is real and functional in terms of being capable of influencing thymic selection.

The abundance of self-Ags and their distribution in the organism seem to bear some relation with their level of expression in the thymus. Albumin, the more abundant self-Ag investigated, was also the only peripheral Ag whose transcripts were present in all thymic glands. From our results, we can envisage that the degree of thymus expression follows the hierarchy: peripheral self-Ags circulating at high and medium levels > noncirculating peripheral self-Ags > sequestered Ags.

Regarding interindividual variation in the expression of self-Ags, we did not find any in actin, a bona fide constitutive gene, nor in H-Y, a constitutive gene but expressed only in glands from male donors. In contrast, all the other self-Ags showed strong expression differences from thymus to thymus (see Fig. 3GoC). The overall expression of self-Ags is dependent on age as demonstrated by the differences found when the number of peripheral self-Ags expressed in the groups of <2 years and >2 years were compared. This was expected because thymic function is known to decline with age. This cannot be explained by the progressive replacement of the thymus parenchyma by adipose tissue because histology of the tissue samples had been carefully examined. However, for some Ags there was an age-independent variability, e.g., insulin and TPO. Recent data showing that insulin expression in the thymus is variable and related to allelic variations in the 5' upper regulatory region of the gene (9, 10) are relevant to this point. This type of polymorphism may exert an independent effect on the level of transcription and it may be also operative in other autoantigen genes, some of which also have VNTRs 5' to their coding region, e.g., ICA69 (52).

The function of this broad range of thymic peripheral self-Ags is not likely to relate to positive selection, driven by low affinity interactions. Therefore, a limited number of ligands should be able to select a large repertoire of TCRs. In fact, it has been recently demonstrated that a single peptide is able to select a relatively ample repertoire of T cells in the thymus (53). The generation of this limited number of ligands could easily rely on the presentation of classical thymus-derived ubiquitous self-Ags. It is therefore likely that the expression of peripheral self-Ags in the thymus is related to negative selection. Negative selection involves high-affinity interactions and would require the same array of peptides that cells can encounter in the periphery. It is unlikely that the thymic expression of self-Ags such as albumin, Tg, and even insulin (all of them circulating Ags that are available to standard APCs via endocytosis) would be required for the negative selection of class II-restricted CD4+ T cells. Nevertheless, expression of these self-Ags may be crucial for deleting class I-restricted CD8+ T lymphocytes. Peptides recognized by these cells are derived from endogenously synthesized proteins that bind to HLA class I molecules in the endoplasmic reticulum after being processed through the class I pathway. Endocytosed Ags can also enter the class I pathway (cross-presentation) (54, 55, 56), but probably this does not occur in the thymus because it could result in the fortuitous induction of tolerance to circulating proteins from pathogens. Thus, there is need to synthesize most peripheral self-Ags, both tissue-bound and circulating, to delete T cells bearing high-affinity autoreactive TCR. Another possibility, which does not exclude the former, is that the expression of peripheral Ags in the thymus serves for the positive selection of regulatory T cells responsible for the maintenance of tolerance to peripheral Ags as demonstrated in autoimmune diabetes (57) or for eye Ags (58).

The final identification of the cell type expressing the spectrum of peripheral self-Ags was not expected from the cell fractionation experiments because the cellular complexity of the human thymus precludes such a simple approach to this question. We tried to rule out some populations such as thymocytes and start defining the cell lineages expressing the self-Ags. The results seem at first difficult to interpret because transcripts of some self-Ag are present in the thymocyte-enriched population isolated by N-SRBC rosetting, a poor candidate for the induction of negative selection. However, when all the data are taken into consideration it becomes obvious that the fraction with the highest proportion of epithelial stromal cells is also the fraction with the highest levels of peripheral autoantigen transcripts. Moreover, the calculations that allowed us to estimate (within an order of magnitude) the number of mRNA molecules per a given peripheral self-Ag per cell also pointed to the stromal epithelial cells as those expressing peripheral Ag. Thymic epithelial cells are a complex population made of different subpopulations that have been classified into six categories (59). Interestingly, a recent report describes the existence of "rare" peripheral Ag-expressing cell (PAE) in mice thymus (44). Grafting thymi containing such a population to nude mice resulted in tolerance to the Ag expressed by the peripheral Ag-expressing cell.

From the results presented herein, we conclude that peripheral self-Ags are expressed in normal thymic glands, by one of the cell types present in the fraction enriched in stromal epithelial cells. This fulfills an essential premise for postulating a role for the thymus in the establishment of tolerance to peripheral self-Ags. It remains to be proven that this expression is immunologically relevant in the induction of tolerance. It also raises the question of whether thymic malfunction is a necessary, but not sufficient, condition for the development of organ specific autoimmune diseases such as type 1 diabetes and multiple sclerosis.


    Acknowledgments
 
We thank Dr. Murtra and the heart surgery team of University Hospital "Vall d’Hebró" for providing the surgical thymic samples. We thank Profs. J. J. T. Owen, D. Jaraquemada, and M. Isamat for reviewing the manuscript and useful suggestions. All protocols described here have been approved by the ethical committee of the University Hospital "Germans Trias i Pujol."


    Footnotes
 
1 This work was supported by Grants SAF 96/0211 of the (Comisión Interministerial de Ciencia y Tecnología) and 1034/97 of the Fundació "La Marató de TV3" to R.P.-B. and by IEC (Institut d’Estudis Catalans). M.S. was the recipient of fellowships from the Spanish Ministry for Science and Education (4 years) and from IEC (1.5 years). X.F.-F. is the recipient of a fellowship from the Spanish Ministry for Science and Education (4 years). Back

2 Address correspondence and reprint requests to Dr. Ricardo Pujol-Borrell, Immunology Division, University Hospital "Germans Trias i Pujol," Ctra. del Canyet s/n, 08916 Badalona (Barcelona), Spain. E-mail address: Back

3 Abbreviations used in this paper: GAPDH, glyceraldehyde phosphate dehydrogenase; GAD, glutamic acid decarboxylase; Tg, thyroglobulin; TPO, thyroid peroxidase; MBP, myelin basic protein; Ret S Ag, retinal S antigen; N-SRBC, neuraminidase-treated SRBC; Ck, cytokeratin; IFL, immunofluorescence. Back

Received for publication April 23, 1998. Accepted for publication July 27, 1998.


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 Discussion
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Proc. Natl. Acad. Sci. USAHome page
F. S. Wong, A. K. Moustakas, L. Wen, G. K. Papadopoulos, and C. A. Janeway Jr.
Analysis of structure and function relationships of an autoantigenic peptide of insulin bound to H-2Kd that stimulates CD8 T cells in insulin-dependent diabetes mellitus
PNAS, April 16, 2002; 99(8): 5551 - 5556.
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