|
|
||||||||

* Department of Tissue Typing, Finnish Red Cross Blood Transfusion Service, Helsinki, Finland; and
Department of Medical Genetics, University of Helsinki, Helsinki, Finland
| Abstract |
|---|
|
|
|---|
| Introduction |
|---|
|
|
|---|
C4 proteins are among the most polymorphic molecules in serum. C4 is expressed as single-chain precursor, which is cleaved to three-chain structure linked with disulfide bonds. This processing is incomplete, resulting in multiple structural isoforms. In addition to structural variation, >20 allotypes of both C4A and C4B have been found resulting in 24 polymorphic amino acid residues, including the isotypic residues (5, 6). Most of the polymorphic sites are found in the C4d region. Amino acid variations in the C4d region constitute sequential and conformational Rodgers (Rg)3/Chido (Ch) (3) blood group Ags (7). Rg and Ch are not true blood group Ags as they are not located on intrinsic erythrocyte structures, but become bound as covalently attached C4d fragments from plasma. The relevant sequences reside within exons 25, 26, and 28 of the C4 gene. Rg determinants are traditionally associated with C4A and Ch determinants with C4B, but allotypes manifesting reversed antigenicity indicate shuffling of the corresponding sequences between the C4 genes.
The C4 genes are located on 6p21.3 and display substantial variation on genomic level. C4 genes present dichotomous size variation due to a 6.4-kb insertion of human endogenous retrovirus HERV-K(C4) in intron nine. In Caucasians, C4A genes are ordinarily long (20.6 kb) containing the retrovirus. C4B genes can be either long (20.6 kb) or short (14.2 kb) (6). The majority of people have two C4 loci per chromosome encoding C4A and C4B isotypes, but the number of expressed genes can vary from none to four. Bimodular structure with two C4 genes results from ancient duplication of tandemly arranged genes RP, C4, CYP21, and TNX. These four genes form a genetic module, RCCX (8, 9), and usually the deletions and duplications of the C4 genes are accompanied by other genes within RCCX. It is thought that this modular variation causes misalignments and unequal crossovers leading to gene rearrangements. Homology between C4A and C4B genes promotes nonhomologous pairing of these genes, and may result in exchange and homogenization of the polymorphic sequences or hybrid gene formation. Ancient crossover events between C4A and C4B genes are thought to explain infrequent C4A1 and C4B5 allotypes with mixed Rg/Ch Ag patterns (10, 11).
The dynamic nature of the C4 gene region might be a positively selected mechanism creating immunological diversity against evolving microbial structures. In contrast, gene rearrangements and deletion haplotypes predisposing to diseases is the cost of instability. C4 null alleles, C4AQ0/C4BQ0, are common and associate with numerous autoimmune and infectious diseases (12, 13, 14).
Here we describe a functional de novo C4 hybrid gene resulting from nonhomologous recombination. The proband expresses a functional C4B protein not inherited from either of the parents. Our results indicate an exchange of genetic information between maternal C4A and C4B genes generating a hybrid gene. Functionally the protein produced by the hybrid gene is similar to C4B5. Our observations reveal a conversion from C4A to C4B increasing diversity in C4 genes and promoting antigenic variability.
| Materials and Methods |
|---|
|
|
|---|
The proband, his parents, and two siblings were studied. Initially the family was identified by a study on Finnish couples with a history of recurrent spontaneous abortions in early pregnancy (15). Paternity was confirmed by serological HLA typing. The calculations show very high probability values of 99.5% for the proband and his HLA identical sister and 99.6% for the brother, even based on the HLA typing only.
HLA and complement typing
Serological HLA-A, -B, -C, and -DR typing was performed from
peripheral blood lymphocytes with two-stage microlymphocytotoxicity
test (16). DRB1 genes were analyzed by
Taq
I RFLP (17) and by using
LIPA HLA-DRB1 kit (Innogenetics, Zwijndrecht, Belgium). Complement
factor B and C4 allotypes were determined from serum samples by
electrophoretic segregation (18, 19). The typings have
been repeated from independently drawn blood samples.
Detection of hemolytic activity of C4B allotypes
The hemolytic activity of C4B allotypes was studied by applying an overlay of sensitized sheep red blood cells and C4 deficient guinea pig serum on agarose gel after allele segregation by electrophoresis (20). The relative hemolytic activity was detected by densitometric scanning using a 5301 Preference Densitometer (Pharmacia, Uppsala, Sweden).
DNA preparation
Genomic DNA was extracted from peripheral blood samples by salting out method (21).
Southern blot analysis
Genomic DNA was digested with
Taq
I and subjected to Southern blot
analysis according to the technique described by the 10th International
HLA Workshop (22). Hybridizations were performed using
pAT-A and pC21/3c probes for C4 and CYP21 genes,
respectively (23, 24).
Screening for the known 2-bp mutation in C4A and C4B genes
To detect a 2-bp insertion in exon 29, 58805881insTC,
originally described by Barba et al. (25), a
mutation-specific primer C4ins29 was used with isotype-specific primers
A-down and B-down (Table I
)
(26). PCR was performed under standard reaction conditions
with AmpliTaq Gold DNA polymerase (Roche Molecular Systems, Branchburg,
NJ) and cycle conditions of 30 s at 94°C, 45 s at 62°C, 1
min at 72°C for 38 cycles on GeneAmp PCR System 9700 (Applied
Biosystems, Foster City, CA).
|
Isotype specificity of the C4 genes is based on
nucleotide differences in exon 26. With isotype-specific PCR the
C4A or C4B gene can be amplified in two
fragments. A-down/B-down with C4-e41R amplifies a 6.6-kb fragment
downstream from exon 26 (Table I
). A-up/B-up together with C4-e1F
produces a 14-kb PCR fragment for C4A and long
C4B genes, and a 7.7-kb fragment for short C4B
genes. The PCR amplification was conducted with Expand High Fidelity
PCR System (Roche Molecular Biochemicals, Mannheim, Germany). The
reaction conditions in a final volume of 50 µl were 0.2 mM dNTPs, 0.3
µM each primer, 100 ng of genomic DNA, and 2.6 U of High Fidelity DNA
polymerase. The PCR programs for isotype-specific fragments were
performed on GeneAmp PCR System 9700 and are listed in Table II
. Amplified DNA was visualized by
electrophoresis on 0.8% agarose gel containing ethidium bromide.
|
The C4d region of the C4 genes of the proband was
studied. A 1.5-kb fragment spanning from exon 25 to exon 29 was
amplified by PCR using C4-specific primers C4-i24F and C4-i29R (Table I
). The reaction volume of 100 µl consisted of 500 ng of genomic DNA,
PCR buffer (10 mM Tris-HCl, 1.5 mM MgCl2), 0.2 mM
dNTPs, 0.3 µM primers, and 2.5 U of AmpliTaq DNA polymerase.
Amplification was performed using the following program: 10 cycles of
denaturation at 94°C for 30 s, annealing at 65°C for 30
s, and elongation at 72°C for 1 min. The following 20 cycles were
94°C for 30 s, 60°C for 30 s, and elongation at 72°C
for 1 min with 5 s time increment in every successive cycle. The
size of the amplification product was confirmed with agarose gel
electrophoresis using ethidium bromide staining.
Cloning
Isotype-specific fragments were ligated into pCR-XL-TOPO vector
for cloning according to the manufacturers protocol (Invitrogen,
Carlsbad, CA). C4d-specific PCR products were cloned into pCR2.1 vector
using the Original TA Cloning kit (Invitrogen). The isotype of the
cloned inserts was determined by A and B specific direct colony PCR
with primers A-up/B-up and L3 (Table I
) (26, 27). Plasmid
DNA was purified from 5 ml overnight cultures by QIAprep Spin Miniprep
kit (Qiagen, Chatsworth, CA).
Sequencing
Sequencing reactions were performed with BigDye Terminator Cycle
Sequencing Ready Reaction kit version 2.0 (Applied Biosystems).
Sample electrophoresis was performed on ABI PRISM 310 Genetic Analyzer
(Applied Biosystems). Sequencing of the isotype-specific fragments was
performed using primers M13 forward (-20), M13 reverse, and
C4-specific primers (Table I
).
Determination of parental C4 allotypes
C4 allotypes of the parents were confirmed by sequencing the
polymorphic sites in exons 28 and 29. A 1-kb PCR fragment was amplified
with primers A-down/B-down and C4-i29R (Table I
) using AmpliTaq Gold
DNA polymerase in standard PCR conditions with 38 cycles of
denaturation at 94°C for 30 s, annealing at 63°C for 45
s, and extension at 72°C for 1 min. The amplicons were used in direct
sequencing as described above.
| Results |
|---|
|
|
|---|
The C4 allotypes of the family members are indicated in Fig. 1
, and HLA haplotypes and complotypes are
presented in Fig. 2
. The father and the
mother shared the C4A3 allotype. Allotyping and sequencing of the
polymorphic sites in exons 28 and 29 showed that the mother had a
C4A3a and a C4B1b gene in both chromosomes. The
father carried a C4B2 gene in both chromosomes, and the
paternal haplotype a contained the gene for C4A3a. In the
paternal haplotype b the C4A gene carried a 2-bp insertion
in exon 29, inherited by the brother only (Fig. 3
). According to segregation of MHC
haplotypes (Fig. 2
), the proband was expected to show C4A3a,B2
inherited from the father, and C4A3a,B1b inherited in the maternal
haplotype c. However, in addition to the C4A3a, C4B1b, and C4B2
allotypes, the proband showed an extraordinary C4 protein which was
hemolytically intact and had electrophoretic mobility similar to C4B5
control (Fig. 4
). The HLA identical
sister of the proband had only two hemolytically active proteins, C4B1b
and C4B2, as expected.
|
|
|
|
All family members had the 7.0 kb fragment corresponding to
RP1-C4 long gene locus. The father carried only the 5.4-kb
fragment specifying the RP2-C4 short gene locus, whereas the
mother had the 6.0-kb fragment for the RP2-C4 long gene
locus. All three children were heterozygous carrying both short and
long RP2-C4 gene loci. RP1 and RP2
genes flank the C4 loci and are partially included in the
Taq
I restriction fragments. The 3.7-kb
fragment and the 3.2-kb fragment corresponding to CYP21B and
CYP21A genes, respectively, were detected in all family
members. The Southern blot analysis established the presence of two
genes for C4A, C4B, CYP21A, and
CYP21B, and indicates no obvious structural gene
rearrangements in the region (Fig. 5
).
|
Three different C4B clones were found by sequencing the 6.6-kb C4B
downstream fragments. Interestingly, one clone carried C4A3a-specific
polymorphic sites in exons 28 and 29 coding for amino acids in
positions 1157, 1182, 1188, 1191, and 1267 (Table III
). The rest of the clones showed
sequences corresponding with the allotypes C4B1b and C4B2, which share
polymorphic codons in exons 28 and 29 (28). The latter C4B
clones could be separated based on a
cgctcc/ggctc
(
deleted base) polymorphism at positions 14 and 19 in intron 28
(29). To detect other polymorphisms or mutations in the
three types of C4B isotypic downstream fragments, exons 27 to 41 were
sequenced. No mutations were found. In conclusion, the sequencing
results of the C4B genes of the proband indicated an
exchange of genetic sequences producing a C4B gene that had
been converted from a C4A gene (Fig. 6
). This aberrant gene produced an
electrophoretically and hemolytically C4B5-like protein.
|
|
To characterize the isotype-specific region of the probands
C4 genes, a C4d fragment containing ten reported polymorphic
sites (Table III
) was cloned and sequenced. C4A and C4B clones were
separated with rapid colony screening by isotype-specific PCR. All 11
C4A clones were identical and had the allotype C4A3a. The sequence of
10 C4B clones revealed that the proband carried C4B1b and
C4B2 genes corresponding to the results from allotyping
(Fig. 1
) and hemolytic studies (Fig. 4
). Third type of C4B clones had
codons Leu1101, Ser1102,
Ile1105, and His1106 in
exon 26 specific for the C4B isotype. However, in exon 28 the sequence
downstream from the polymorphic site Asn1157,
including Val1188 and
Leu1191, was identical with C4A3a. Position 1186
presents a silent polymorphism of the third base in the codon coding
for alanine, which was seen in all C4A3a genes. Thus, the 3'
recombination break point is between sites
His1106 and Asn1157. The
polymorphic site in exon 25 was Asp1054
corresponding to C4A3a and C4B2, hence the 5' break point region
probably lies between Asp1054 and
Leu1101. The converted gene carried Rg 1, 2, 3
and Ch -1, -2, -3, 4, -5, -6 antigenic determinants (Fig. 6
).
The sequence of the converted gene was verified from three clones. The
results confirmed that a functionally active C4B5-like gene
had evolved through gene conversion mechanism.
To conclude the origin of the conversion, the isotype-specific sites from exon 26 to intron 29 were sequenced in both parents. In intron 28 of C4A gene we found a polymorphic site at the position 207, where the father had c and the mother had t. The C4B genes of both parents showed c at the corresponding position. In the proband, converted C4B5-like gene carried t confirming the maternal origin of C4A3a. The proband had c in his other C4A and C4B genes. The converted gene carried the motif cgctcc in intron 28. This motif was also present in maternal and paternal C4A3a allotypes.
Interestingly, the motif was detected in the maternal C4B1b allotype as
well. In C4B isotype, this polymorphism has previously been found in
C4B3 and C4B5 allotypes only (11), suggesting that the
motif is not isotype nor allotype specific. At the position 25 in
intron 29, the C4B5-like gene of the proband shared g with
maternal C4A genes, whereas the father was heterozygous
having either c or g (Fig. 6
).
| Discussion |
|---|
|
|
|---|
Genetic instability through deletions and loss-of-function mutations has been revealed in MHC class III-associated disease conditions. Unequal pairing of maternal monomodular and bimodular haplotypes have been shown to cause the deletion of CYP21B and C4B genes in a congenital adrenal hyperplasia patient (36). Point mutations in the CYP21B gene have been found to result from microconversion between the pseudogene and its functional counterpart (37). Among congenital adrenal hyperplasia patients, the reported frequency of de novo conversions is high in the intron 2 of the CYP21B gene (38). Also, a recombination event has been shown to produce a double null haplotype (C4AQ0,C4BQ0) leading to increased susceptibility to infections (39).
Successful recombinations often escape detection if phenotype is not
altered. In the present study, the recombination between maternal
alleles produced a novel, hemolytically active C4B5-like
hybrid gene in the proband. Southern blots indicated that the parents
and the proband had the C4 and CYP21 genes
organized in a bimodular fashion. The hybrid gene contained the
polymorphic sites in the exon 28, intron 28, and intron 29 identical
with the maternal C4A3a allotype, while the isotype determining
sequence was specific for C4B (exon 26). Due to the homology of
maternal C4B alleles (Fig. 2
), we were not able to
distinguish between intrachromosomal or interchromosomal gene
conversions. However, maternal chromosomes have revealed
intrachromosomal recombinations, whereas interchromosomal
recombinations have been shown to take place preferably in
spermatogenesis (40). In addition, maternal sexual
preference in conversion events has been reported in mouse
H-2 genes (41). Our results suggest that the 3'
recombination breakpoint resides between codons 1106 in the exon 26 and
1157 in the exon 28, contrary to previously reported codons 1157 and
1186 in the exon 28 (11). Because the Asp
(1054) in the exon 25 was not informative in this family,
the 5' breakpoint could not be located precisely.
The hybrid protein displayed electrophoretic and functional characteristics similar to C4B5 allotype having partially reversed antigenicity relative to Rg and Ch epitopes (42). The function of Rg/Ch determinants is still obscure. The increased number of Rg/Ch Ags on old erythrocytes suggests that they may play a role in removal of aged erythrocytes (43). They may also mediate the clearance of immune complexes through the attachment to complement receptors on erythrocytes (2). C4B5 is much more common among the Japanese population (8.8%) (44) than among the Caucasians, in which C4B5 is most often found in the haplotype HLA-B55, C4A4 (45). A C4B5 with Rg 1, 2, 3 and Ch -1, -2, -3, 4, -5, -6, identical to our case, has been reported but not confirmed from sequence data (46), and would be called C4B*0508 (47). The C4B5Rg+ subtype associates also with HLA-B60 (40). C4 deletions and mutations have been found in this haplotype (25, 48). In the studied family, the father expressed recurrent spontaneous abortion risk haplotypes (15). Certain HLA haplotypes may be prone to rearrangements leading to unfavorable rearrangements. The de novo mutation of maternal origin described here serves as an example for successful rearrangement. Even though the mechanism for the genesis of this de novo mutation cannot be fully elucidated, it provides evidence for high incidence of instability in the C4 gene region resulting in variable C4 genes and in the generation of rare C4 allotypes.
| Acknowledgments |
|---|
| Footnotes |
|---|
2 Address correspondence and reprint requests to Dr. Marja-Liisa Lokki, Department of Tissue Typing, Finnish Red Cross Blood Transfusion Service, Kivihaantie 7, 00310 Helsinki, Finland. E-mail address: maisa.lokki{at}bts.redcross.fi ![]()
3 Abbreviations used in this paper: Rg, Rodgers blood group Ag; Ch, Chido blood group Ag. ![]()
Received for publication November 5, 2001. Accepted for publication March 27, 2002.
| References |
|---|
|
|
|---|
This article has been cited by other articles:
![]() |
C. K. Doyle, B. K. Davis, R. G. Cook, R. R. Rich, and J. R. Rodgers Hyperconservation of the N-Formyl Peptide Binding Site of M3: Evidence that M3 Is an Old Eutherian Molecule with Conserved Recognition of a Pathogen-Associated Molecular Pattern J. Immunol., July 15, 2003; 171(2): 836 - 844. [Abstract] [Full Text] [PDF] |
||||
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| HOME | HELP | FEEDBACK | SUBSCRIPTIONS | ARCHIVE | SEARCH | TABLE OF CONTENTS |