Microdeletions in the Y Chromosome of Infertile Men
Jon L. Pryor, M.D., Marijo Kent-First, Ph.D., Ariege Muallem, B.S., Andrew H. Van Bergen, B.S., Wolfram E. Nolten, M.D., Lorraine Meisner, Ph.D., and Kenneth P. Roberts, Ph.D.
Background Some infertile men with azoospermia or severe oligospermiahave small deletions in regions of the Y chromosome. However,the frequency of such microdeletions among men with infertilityin general is unknown. We sought to determine the prevalenceof Y-chromosome microdeletions among infertile men and to correlatethe clinical presentation of the men with specific deletions.
Methods We studied 200 consecutive infertile men. Each man wasevaluated comprehensively for known causes of infertility, andY-chromosome microdeletions were studied with use of the polymerasechain reaction to amplify specific regions of the chromosome.The Y chromosomes of 200 normal men were also analyzed.
Results Fourteen infertile men (7 percent) and four normal men(2 percent) had microdeletions of the Y chromosome. Nine ofthe infertile men had azoospermia or severe oligospermia (spermconcentration, <5 million per milliliter), four had oligospermia(sperm concentration, 5 million to <20 million per milliliter),and one had normospermia (sperm concentration, >20 millionper milliliter). The size and location of the deletions variedand did not correlate with the severity of spermatogenic failure.The fathers of six infertile men with microdeletions were studied;two had the same deletions as their sons, and four had no deletions.
Conclusions A small proportion of men with infertility haveY-chromosome microdeletions, but the size and position of thedeletions correlate poorly with the severity of spermatogenicfailure, and a deletion does not preclude the presence of viablesperm and possible conception.
Infertility affects about 15 percent of all couples attemptingpregnancy,1 with the man responsible in approximately half thecases. It is best defined as the inability to conceive afterone year of unprotected intercourse, and thus the definitionincludes men with subfertility. Proposed causes of infertilityin men include varicocele, obstruction of the spermatic ducts,agglutination of sperm, high semen viscosity, necrospermia,low volume of ejaculate, ejaculatory dysfunction, and high spermdensity; when no cause is known, the man is described as havingidiopathic infertility.2 Many of these diagnostic categoriesare descriptive; for example, a diagnosis of necrospermia doesnot provide any information about why the sperm are dead. Consequently,the estimated proportion of men with idiopathic infertilityis as high as 66 percent, depending on the definition of "idiopathic."3,4
Cytogenetic analysis of men with Y-chromosome translocationshas revealed a region on the long (q) arm of the Y chromosomethat is required for spermatogenesis.5,6 This region includesthe azoospermia factor (AZF) locus, which contains a gene orgenes that are required for normal spermatogenesis. The AZFlocus has been mapped to deletion interval 6, a region in bandq11.23 of the Y chromosome that contains 5 million base pairs.7,8,9Three genes two members of the YRRM (Y-specific genewith RNA recognition motif) gene family (YRRM1 and YRRM2) andthe DAZ (deleted in azoospermia) gene have been clonedfrom this region, whereas DAZ and one or more members of theYRRM family have been found to be absent in some men with azoospermiaor severe oligospermia.10,11,12
To date, only men with azoospermia or severe oligospermia havebeen studied for Y-chromosome deletions.10,11,12,13,14,15,16These analyses, which have been limited to the distal euchromatinof the q arm, have revealed deletions in 10 to 15 percent ofthe men studied. The frequency of Y-chromosome microdeletionsin infertile men with less severe abnormalities of the spermconcentration is unknown. Furthermore, how other regions ofthe Y chromosome are involved in infertility has not been studied.We sought to determine the frequency of the Y-chromosome microdeletionsin a large group of infertile men and to determine the phenotypesassociated with specific deletions.
Methods
Study Subjects
We studied 200 consecutive men presenting with infertility atthe urology clinic of the University of Minnesota (Minneapolis)or Reproductive Health Associates (St. Paul, Minn.) and 200normal men. All men who were referred for evaluations of infertilityand met the definition of infertility (one year of unprotectedintercourse not leading to conception) were enrolled in thestudy, regardless of the fertility status of their partners.The infertile men ranged in age from 24 to 52 years (mean, 34).
The men completed detailed questionnaires on their medical andsurgical history, lifestyle habits (such as smoking, alcoholuse, and drug use), exposure to gonadotoxins (such as drugsused in cancer chemotherapy, and solvents), sexual history,and family history. They then underwent a physical examinationthat included an assessment of secondary sexual characteristics,an inspection of the penis, a determination of testicular sizeby orchidometry, an evaluation of the vas deferens and epididymis,and a rectal examination to evaluate the prostate. Each manprovided a minimum of two semen specimens, each after sexualabstinence for two to five days. These specimens were evaluatedon the basis of the criteria of the World Health Organization,except for sperm morphology, which was assessed by the strictcriteria of Kruger et al.17 (with normal morphology definedas the presence of more than 14 percent sperm of normal shape),and the results were averaged.
On the basis of their mean sperm concentrations, the men werecategorized as having azoospermia, severe oligospermia (<5million sperm per milliliter), oligospermia (5 million to <20million sperm per milliliter), or normospermia (>20 millionsperm per milliliter). Testicular biopsies were performed inmost infertile men with azoospermia. The presence of antispermantibodies was determined by the direct immunobead test in semensamples in which sperm agglutination or decreased sperm motilitywas seen and in samples from men with abnormal postcoital testsor idiopathic infertility. In addition, blood samples were obtainedfor DNA extraction and for the measurement of serum testosterone,prolactin, and follicle-stimulating hormone (FSH) by radioimmunoassay.
After the evaluation, each man was given one of the followingdiagnoses: varicocele, antisperm antibodies, ejaculatory dysfunction(such as those associated with spinal cord injury or diabetesmellitus in which there was anejaculation or retrograde ejaculation),endocrinopathy (hypogonadotropic hypogonadism or hyperprolactinemia),obstruction of the spermatic duct (azoospermia in the presenceof normal results on testicular biopsy), dysfunction inducedby gonadotoxins (cancer chemotherapy), and infection (urethritisor prostatitis). If a man could not be assigned to one of thesediagnostic categories, he was classified as having idiopathicinfertility, regardless of the results of the semen analysis.
We also obtained blood samples from the fathers of six infertilemen who were found to have Y-chromosome microdeletions. DNAfrom 200 normal men was provided (Promega, Madison, Wis.) froma serum bank of men proved fertile by paternity testing. Thestudy design was approved by the institutional review boardof the University of Minnesota, and all the participants gaveinformed written consent.
Screening for Y-Linked Sequence-Tagged Sites
Genomic DNA was prepared from peripheral-blood lymphocytes (WizardGenomic DNA Purification Kit, Promega) and amplified in multiplexpolymerase chain reactions (PCRs) containing 5 to 8 primer pairs.Each primer pair amplifies a specific region of the Y chromosome(a sequence-tagged site). The reaction products were separatedon 3 percent agarose gels (Metaphor, FMC Bioproducts, Rockland,Me.) and visualized with ethidium bromide. The men were screenedfor 85 sequence-tagged sites specific to the Y chromosome (Figure 1).These sites were derived from the maps of Vollrath et al.,18Affara et al.,19 and Kent-First et al. (unpublished data). Theprimers used for YRRM1 were as described by Ma et al.10 andcorrected by Kobayashi et al.20
Figure 1. Maps of the Y Chromosome in 14 Men with Infertility and Deletions in the Chromosome.
A diagram of the entire chromosome is shown at the top, with certain sequence-tagged sites indicated in deletion intervals 5 and 6 of the q arm. This section of the chromosome is enlarged below, with the results of the analyses of the 14 men with infertility and a normal control appearing as horizontal lines. Three regions (AZFa, or JOLAR; AZFb; and AZFc, or KLARD) are shaded on the map; the names of the sequence-tagged sites appear at the bottom of the figure. In each map, the bars represent sites found to be present, and the solid lines sites not studied but assumed to be present because they fall between sites confirmed as present. Dashes indicate sites found to be deleted. The total number of dashes shown for each patient corresponds to the number of deleted sequence-tagged sites given in Table 2.
The order of the sites was derived from the literature10,12,17 and from the analysis of deletions in this study. Plus signs indicate sites, including those in YRRM1 and YRRM2, whose exact order is not confirmed. Patients 5, 8, 9, 10, 13, and 14 underwent testicular biopsy. Additional information about the patients, including sperm counts, is given in Table 2. KAL-Y denotes Kallmann's syndrome locus, STSP steroid sulfatase pseudogene, and SMCY histocompatibility Y locus. Other abbreviations are spelled out in the text.
An example of the multiplex PCR analysis of DNA from an infertileman with a Y-chromosome deletion and a normal man is shown inFigure 2, where the absence of an amplified DNA fragment indicatesa deletion of that portion of the Y chromosome. Figure 2 showsthe loss of 23 sequence-tagged sites in all. For each bloodsample, the entire DNA analysis was repeated at least threetimes. If the analysis of the first blood sample revealed adeletion of one or more sites, a second sample was obtainedand the analysis was repeated. In each case, the analysis ofthe second sample confirmed the initial result. All the PCRanalyses were done without knowledge of the man's clinical diagnosisor the results of the semen analysis. Every analysis containeda blood sample from a normal man, and samples from a normalwoman were assayed intermittently. When sufficient DNA was available,the PCR findings regarding microdeletions were confirmed bySouthern blot hybridization.21
Figure 2. Results of PCR Amplification of Six Sets of Sequence-Tagged Sites in Y-Chromosome DNA from a Normal Man (A) and a Man with Infertility (B).
The arrowheads indicate the Y-chromosome deletions found in the man with infertility (Patient 1). The conditions of thermocycling were as follows: 94°C for one minute, 61°C for one minute, and 72°C for one minute, for 35 cycles. The DNA products were separated by electrophoresis on a 3 percent Metaphor agarose gel. The PCR analysis shown represents a subgroup of the sequence-tagged sites shown in Figure 1.
Cytogenetic Analysis
For men with microdeletions in the Y chromosome, karyotypingwas performed by standard techniques.22
Results
Among the 200 men with infertility, the most common assigneddiagnoses were idiopathic infertility (102 men, or 51 percent)and varicocele (71 men, or 36 percent) (Table 1). Twenty-sixof the men with infertility (13 percent) had azoospermia, fourof whom had evidence of spermatic-duct obstruction. Thirty men(15 percent) had severe oligospermia, 42 men (21 percent) hadoligospermia, and the remaining 102 (51 percent) had normospermia.
Table 1. Characteristics of 200 Men with Infertility.
Of the 200 infertile men, 14 (7 percent) were found to haveY-chromosome microdeletions (Figure 1 and Table 2). Of these14 men, 6 had azoospermia, 3 had severe oligospermia, 4 oligospermia,and 1 normospermia. Seventy-one percent of the men with deletions(10 of 14) had idiopathic infertility, as compared with 51 percentof the group as a whole (102 of 200). All the men with microdeletionshad normal serum testosterone concentrations, and two had highserum FSH concentrations. Two men, Patients 2 and 11, had fatheredchildren. Patient 2 fathered a child in 1995 at the age of 37years by intrauterine insemination. Patient 11 fathered twochildren, one in 1987 at the age of 29 and one in 1991 at theage of 33.
Table 2. Findings in Men with Infertility Who Had Microdeletions in the Y Chromosome.
Microdeletions of the Y chromosome were found in 4 of the 200normal men (2 percent). Two normal men had deletions of siteSY207, and two had deletions of the adjacent site SY272 (Figure 1).The deletion in Patient 11, who had fathered two children,was limited to these two sites. The large deletions in Patients1 and 5 also included these two sites. The microdeletions inthe remaining 11 infertile men did not overlap with those inthe normal men.
The deletions detected in 12 of the 14 infertile men eitherwere completely within deletion interval 6 or included someportion of it (Figure 1). However, one man (Patient 6) had acompletely intact q arm, and a small deletion in the proximalportion of the p arm. A second man (Patient 10) had a deletionin the proximal portion of deletion interval 5. The deletionsranged greatly in size; Patient 5 was missing 53 of the sequence-taggedsites studied, whereas Patients 2, 6, 7, and 14 were missingonly 1 site. The three men with the largest deletions (Patients1, 5, and 9) all had azoospermia or severe oligospermia. Theremaining men had small deletions, none of them in the regionof the DAZ gene. Three men (Patients 2, 3, and 4) had deletionsonly in the region of YRRM1 and YRRM2; two of these men hadoligospermia, and one had severe oligospermia. Patients 7 and14 had deletions of the same sites; the former had normospermia,and the latter had azoospermia. Overall, there was no correlationbetween the sperm concentration and the size or the locationof the deletions.
Six men with azoospermia or severe oligospermia who had microdeletionsunderwent testicular biopsy (Table 2). Four of these men (Patients5, 8, 9, and 10) had severe defects of spermatogenesis. Patient8 had the same histologic features as Patient 9, but a muchsmaller deletion. Similarly, the biopsy specimens from Patients5 and 10 revealed only Sertoli cells and no germ cells, butthe deletions in these patients differed substantially. Twoof the four men with spermatic-duct obstruction and normal testicular-biopsyspecimens had microdeletions.
Cytogenetic analysis revealed morphologically normal Y chromosomesin 11 of the 12 infertile men whose karyotypes were obtained.Only Patient 5 had an abnormal-appearing Y chromosome.
In the six fathers of infertile men whose Y chromosomes we studied,two (the fathers of Patients 9 and 11) had microdeletions identicalto those of their sons, and four (the fathers of Patients 3,8, 12, and 13) had no microdeletions. Paternity was establishedin these six fathers by DNA analysis of short tandem-repeatpolymorphisms at nine loci.
Discussion
We found microdeletions in the Y chromosome in 7 percent ofan unselected group of infertile men. Among the men with azoospermiaor severe oligospermia, 16 percent (9 of 56) had deletions,a proportion consistent with those (10 to 15 percent) reportedpreviously.11,12,14 If we considered only the men with azoospermia,the frequency of deletions increased to 23 percent. However,some men with Y-chromosome deletions had sperm concentrationsof 5 million per milliliter or above. Thus, microdeletions arenot necessarily associated with azoospermia or very low spermconcentrations. In addition, not all the men with deletionshad idiopathic infertility. Specifically, four such men hadother possible causes of their infertility: two had spermatic-ductobstruction, and two had varicoceles. Although varicoceles areassociated with infertility, only one man in six with a varicocelepresents with infertility.23 Therefore, the primary cause ofthe infertility of the two men with varicoceles may well havebeen the microdeletion in the Y chromosome. Likewise, if reconstructivemicrosurgery did not restore fertility in the two men with spermatic-ductobstruction, the Y-chromosome deletion might explain their infertility.
It is possible to have a deletion in the Y chromosome and tofather children. Two of the infertile men we studied fatheredchildren at least once, and the fathers of two of the infertilemen had microdeletions identical to those of their sons. Asdiscussed below, the deletion in the father of Patient 11 maynot have affected his fertility. However, the father of Patient9 reportedly had low sperm concentrations, was able to fatheronly one child, and then adopted other children, suggestingthat in his case the deletion did affect fertility. Deletionsin the fathers of men with infertility that are similar or identicalto those in their sons have been reported previously.12,24 Thus,an inherited deletion in the Y chromosome can cause subfertility.
Some Y-chromosome microdeletions represent normal polymorphismsof the Y chromosome, as appeared to be true of the small deletionswe found in four fertile men.24,25 It is possible that in somemen with infertility Y-chromosome microdeletions are fortuitousand unrelated to the men's infertility. This was likely to bethe case in Patient 11, who had a small deletion in the sameregion as the deletions we found in the four fertile men. Theabsence of Y-chromosome microdeletions in the normal men thatresembled the deletions in most of the infertile men suggeststhat the deletions in the latter contributed to their infertility.
No strict correlation between particular deletions and spermatogenesiswas found in this study, but some trends were apparent. First,all the large deletions were associated with azoospermia, butsmall deletions were not necessarily associated with less severedefects in the sperm concentration. Second, deletions were foundin several locations on the Y chromosome, with the majorityin deletion interval 6. Recently, Reijo et al. described 12men with azoospermia who had deletions in the Y chromosome (selectedfrom 89 men with azoospermia), and they cloned the DAZ genefrom deletion interval 6.11 We found that many of the deletionsin interval 6 that were associated with azoospermia were outsidethe region of the DAZ gene. This corroborates the recent observationby Najmabadi et al.12 that not all deletions in men with azoospermiaare in DAZ. In addition to the deletions in the q arm of theY chromosome that we identified, a deletion confined to theproximal region of the p arm was found in one man. However,since his father was not studied, the importance of this deletionis questionable.
Ma et al.10 and Henegariu et al.26 have described Y-chromosomedeletions in infertile men that define two regions associatedwith azoospermia: JOLAR (in the proximal q arm) and KLARD (inthe distal q arm). More recently, Vogt et al.24 described threemen with azoospermia who had microdeletions occurring betweenthe deletions in JOLAR and KLARD; they termed this intermediateregion AZFb and designated the JOLAR region AZFa, and the KLARDregion AZFe (Figure 1). On the basis of the testicular histologyin these men, the deletion of AZFa was associated with the presenceonly of Sertoli cells, the deletion of AZFb with the developmentalarrest of germ cells at the pachytene stage, and the deletionof AZFc with the developmental arrest of germ cells at the spermatidstage. In our study, Patient 10 had an AZFa deletion, and hisbiopsy specimen revealed only Sertoli cells; Patient 8 had adeletion in AZFc and had spermatogenic arrest. Patient 5 hadan intact AZFa region, but his biopsy sample revealed only Sertolicells. Patients 2, 4, and 7 had AZFc deletions but not azoospermia,and Patients 13 and 14 (with azoospermia) had deletions in AZFcalthough their biopsy specimens showed normal spermatogenesis.From our results it is impossible to attribute a given phenotypeto a given deletion interval. Finally, 11 of the 12 men withY-chromosome microdeletions whose karyotypes we determined werecytogenetically normal, showing that a PCR-based assay is neededto detect microdeletions in the Y chromosome.
The correlation between Y-chromosome deletions and infertility,and the relative absence of such deletions in fertile men, suggesta cause-and-effect relation between the deletions and infertility.As compared with other known causes of infertility, Y-chromosomedeletions are relatively frequent (7 percent), and their frequencyincreases with the severity of the spermatogenic defect. However,Y-chromosome microdeletions cannot be predicted on the basisof clinical findings or even the results of semen analyses.The role of analyses of Y-chromosome microdeletions in evaluatingmen with infertility remains to be determined. With the adventof intracytoplasmic sperm injections, the potential for passingon these defects to offspring is real and should be consideredwhen infertile couples are counseled about this procedure.
Source Information
From the Departments of Urologic Surgery (J.L.P., A.H.V.B., K.P.R.), Cell Biology and Neuroanatomy (J.L.P., K.P.R.), and Obstetrics and Gynecology (J.L.P.), University of Minnesota Medical School, Minneapolis; the Promega Corporation, Madison, Wis. (M.K.-F., A.M.); and the Departments of Meat and Animal Science (A.M.), Medicine (W.E.N.), and Preventive Medicine (L.M.), University of Wisconsin, Madison.
Address reprint requests to Dr. Roberts at the Department of Urologic Surgery, Box 394 UMHC, 420 Delaware St. S.E., Minneapolis, MN 55455.
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