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Epigenetic disorders and

male subfertility
line Chalas Boissonnas, M.D., Ph.D.,a Pierre Jouannet, M.D.,b and He
Ce le
ne Jammes, Ph.D.c
a
HistologyEmbryologyBiology of Reproduction, CECOS, Ho ^ pital Cochin, AP-HP, Paris Descartes University, Paris, b CERSES
(UMR 8137)/CNRS/Paris Descartes University, Paris; and c INRA, UMR1198 Biology of Development and Reproduction, 78352
Jouy-en-Josas, France

Objective: To provide a link between epigenetics and male subfertility at the DNA, histone-protamine, and RNA levels and its
consequences on fertilization and embryo development.
Design: Review of the relevant literature.
Setting: University-based clinical and research laboratories.
Patient(s): Fertile and infertile men.
Intervention(s): None.
Main Outcome Measure(s): Critical review of the literature.
Result(s): Epigenetic markers can be modied in infertile patients. Epigenetic modications include methylation loss or gain on the
global level and on imprinted genes, high levels of histone retention in spermatozoa, and deciencies in some transcripts involved in
spermatogenesis. Interestingly, these abnormalities are all linked together, because DNA methylation maintenance depends on DNA
histone-protamine conguration which itself is stabilized by spermatozoal RNAs.
Conclusion(s): The paternal genome has long been considered to be silent and passive in em-
bryo formation. The epigenetic processes associated with the paternal DNA genome highlights
its importance in male fertility as well as for embryo development. (Fertil Steril 2013;99: Use your smartphone
62431. 2013 by American Society for Reproductive Medicine.) to scan this QR code
Key Words: Epigenetics, male infertility, methylation, histone, spermatozoal RNAs and connect to the
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I
nfertility concerns 10%15% of cou- netic marks occurs in primordial germ tion, protamine-to-histone transition,
ples and is a growing concern of cells (PGCs). Second, male germ cell and histone modications that contrib-
modern society. Among infertility nuclei undergo a reorganization and ute to embryo genome activation and
causes, one-third are of male origin a condensation of their genome during embryonic development (9).
and one-third of combined infertility postmeiotic maturation, including Early evidence for a link between
(13). Genetic causes of male infertility DNA methylation, histone acetylation, epigenetic markers and male fertility
have been explored (4). Karyotypic implementation of histone variants, was demonstrated in mice by the
abnormalities account for 10% of and histone-to-protamine transition administration of a demethylating
male infertility (5), and microdeletion during spermiogenesis. Epigenetic sig- agent, 5-aza-20 -deoxycytidine. Reduced
of the Y chromosome (DAZ) is nals are crucial for the proper function- sperm production was observed in asso-
identied in 3% of azoospermic or ing of the sperm genome, and any ciation with reduction of testis and
severely oligozoospermic men (6). alteration during these processes may epididymal weight, reduced littermate
Although some specic mutations have contribute to altering sperm function size, and higher neonatal mortality
been identied, others responsible for and fertilization efciency. After fertil- (10, 11). However, it took several years
sperm defects remain unknown (7, 8). ization, the decondensation of the male before clearly demonstrating that each
The sperm epigenetic program is pronucleus follows an epigenetic re- level of epigenetic modications was
unique. First, a major erasure of epige- programming with DNA demethyla- linked to male fertility.
Received October 31, 2012; revised January 18, 2013; accepted January 21, 2013.
C.C.B. has nothing to disclose. P.J. has nothing to disclose. H.J. has nothing to disclose.
Supported by Assistance Publique-Ho ^ pitaux de Paris. THE DIFFERENT STEPS OF
line Chalas Boissonnas, M.D., Ph.D., Service dHistologieEmbryologieBiologie de
Reprint requests: Ce SPERMATOGENESIS
la Reproduction, CECOS, Ho ^ pital Cochin, AP-HP, Universite
 Paris Descartes, 53 avenue de lObser-
vatoire, 75014 Paris, France (E-mail: celine.chalas@cch.aphp.fr). The mature spermatozoon is a highly
specialized cell with a agellum and
Fertility and Sterility Vol. 99, No. 3, March 1, 2013 0015-0282/$36.00
Copyright 2013 American Society for Reproductive Medicine, Published by Elsevier Inc.
a very compact nucleus. To achieve its
http://dx.doi.org/10.1016/j.fertnstert.2013.01.124 nal form, two main processes, meiosis

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and spermiogenesis, are required. During fetal life, germinal (23). The distribution of CpG sequences in the mammalian ge-
stem cells occupy the seminiferous tubules of the testis, pro- nome is nonrandom. The strong CpG island promoters are
viding a pool of undifferentiated diploid cells called type A mostly unmethylated (such as housekeeping gene promoters).
spermatogonia. After birth in mice and at the onset of puberty In contrast, CpG islands located in the promoter and/or in reg-
in humans, spermatogonia differentiate to type I spermato- ulatory regions of transposable elements are methylated, in-
cytes which undergo two meiotic divisions to produce sper- hibiting the parasitic transposable and repetitive elements
matids. Spermatids then go through a unique process, called from replicating. CpG-poor promoters are frequently hyper-
spermiogenesis, that enables a round cell, with nuclear tran- methylated in somatic cells. DNA methylation patterns at reg-
scription and translation activities, to become a agellated ulatory regions are usually stable, but dynamic de novo
cell containing a compact nucleus without nuclear activity. methylation of regulatory regions can occur during develop-
DNA compaction in male germ cells is evolutionarily a highly ment to prevent their reexpression (24). Emerging data
conserved process (12). It is a fundamental biologic process indicate that DNA methylation may also occur in embryonic
and a prerequisite for transmission of the male genome to cells at cytosine residues in CpA or CpT dinucleotides (25, 26).
the next generation. Several studies suggest that this sperm- Recently, Sasakis team reported accumulation and loss of
specic genome packaging structure conveys an important asymetric non-CpG methylation during male germ-cell de-
epigenetic message to the embryo (13, 14). In early velopment. However, the biologic function of non-CpG meth-
spermatids, DNA is compacted around nucleosomes, the ylation remains unknown (27).
universal organization units of the genome. A nucleosome The establishment of methylation in germ cells is a unique
is comprised of DNA coiled around an octamere of process and is necessary for proper spermatogenesis and
canonical histones H2A, H2B, H3, and H4. The drastic sperm production (19). In mouse germ cells, it was well dem-
compaction of the male genome is characterized by the onstrated that there was a global demethylation-
replacement of a large number of histones by small basic remethylation process involving widespread erasure of
nonhistone proteins, rst by transition proteins (TNP1 and somatic-like patterns of DNA methylation followed by the es-
TNP2) and nally by protamines (P1 and P2) (15). tablishment of sex-specic patterns by de novo DNA methyl-
Chromatin compaction occurs through the formation of ation. (22, 2831). Demethylation takes place in PGCs of the
disulde bounds between protamines, producing toroidal developing embryo between 8.013.5 days postcoitum (dpc),
structures (16) and thereby creating a chromatin structure erasing all methylation markers (3234). A specic
620 times more compacted than histone-bound DNA remethylation begins at around 15.5 dpc (3537) (Fig. 1).
(17, 18). Once this transition is achieved, no more nuclear This erasure process specically concerns parental
activity is allowed and only transcripts inherited from early imprinting. Parental imprinting is an epigenetic
spermatids, such as mRNAs and small interfering RNAs phenomenon that mediates monoallelic parent-of-origin
(siRNAs), are present in the nucleus. specic expression of genes (38). Imprinting marks are
Considering the silent state of the compacted nucleus, it erased in PGCs and a specic remethylation occurs in
has been thought for a long time that spermatozoon tran- spermatogonia and type I spermatocytes, before their entry
scripts did not play a role in embryo development and that into meiosis, so that all spermatozoa transmit the correct
only maternal transcripts were involved. Recent advances paternal imprint (28). Most of the methylation is acquired
have demonstrated that the paternal nucleus conguration during fetal life but complete levels of DNA methylation are
and sperm transcripts contribute to early embryo develop- not achieved until the pachytene spermatocyte stage, thus
ment (13, 14). Therefore, understanding the epigenetic postnatally and before meiosis (39). Only four imprinted
processes in the male germ cells may contribute to loci are methylated in the male germ line, namely Igf2/H19,
understanding paternal effects on early embryonic Rasgrf1, Dlk1-Gtl2, and Zdbf2 (40). DNA methylation de-
development (19, 20). pends on a family of enzymes called DNA methyltransferases
The aim of the present review is to focus on epigenetic (DNMTs). DNMT1 ensures methylation maintenance (41), and
markers of male germ cells, such as DNA methylation and his- DNMT3A, 3B, and 3L specically allow the methylation pro-
tone variants and modications, on their interactions with cess in germ cells (Table 1). DNMT3A and 3B have a catalytic
chromatin and with noncoding RNAs and to explain how activity, whereas DNMT3L lacks this catalytic activity and
they interfere with male fertility. Finally, the potential conse- acts as a cofactor to DNMT3A (42, 43). Their activities are
quences of epigenetic alterations carried by male germ cells absolutely essential to the normal completion of
on embryo development will be discussed. spermatogenesis. Indeed, conditional Dnmt3a knockout
(KO) in germ cells impairs spermatogenesis by germ cell
apoptosis and is associated with methylation loss of
METHYLATION AND MALE FERTILITY paternally imprinted genes (44). Dnmt3l KO induces meiotic
DNA methylation, rst described in the 1970s (21), consists in arrest in spermatocytes owing to chromosome asynapsis. A
the addition of a methyl group from S-adenosyl-methionine deregulation of the methylation process of imprinted genes
to the fth position of the cytosine ring (5meC) in CpG dinu- and repeated sequences is also observed (45).
cleotides: 3%5% of the cytosine residues in mammalian ge- This process has been extensively studied in mice, in
nomic DNA appear in the form of 5meC (22). The CpG islands which precise kinetics of erasure and remethylation are
are dened algorithmically as sequences with an observed-to- known, but to date it has not been well described in humans.
expected ratio of CpG of >0.6 and with a length of >500 bp Only two studies have reported methylation marks of

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FIGURE 1

Summary of DNA methylation, chromatin modications, and sperm RNA regulation during spermatogenesis. A process of demethylation-
remethylation takes place in germ cells before the onset of meiosis. The methylation markers are then maintained until fertilization.
Modications of histones, such as methylations and acetylations, condition the good processing of spermatogenesis. Spermiogenesis is
characterized by histone-to-protamine transition, except for some histones specically conserved. Some sperm RNAs are retained in the nal
spermatozoa. These epigenetic markers interact so that the spermatozoa gets the correct epigenetic markers.
Boissonnas. Epigenetics and male fertility. Fertil Steril 2013.

imprinted genes in germ cells of adult men. Both studies con- proper erasure of methylation marks in cases of oligoastheno-
rmed the methylation of the H19 differentially methylated teratozoospermia (OAT) rather than from de novo methylation
region (DMR) in spermatogonia and the expected demethy- following epigenetic reprogramming. They also suggested that
lated state of MEST/PEG1 in spermatogonia and type I sper-
matocytes (46, 47). In humans, it is commonly considered
that, as in mice, methylation markers are acquired before TABLE 1
entry into meiosis. Nevertheless, it remains unknown if the
Functions of the main DNA modier enzymes and their timing of
process takes place during fetal life, in the perinatal period, action during spermatogenesis.
and/or at the onset of puberty.
Timing Enzyme DNA modication
Several studies have explored the relationship between
DNA methylation levels and male fertility in humans. Using Mitosis DNMT1 DNA methylation maintenance
DNMT3A DNA de novo methylation
immunostaining of DNA methylation, a rst study linked
DNMT3B DNA de novo methylation
high global methylation levels of ejaculated sperm DNA to DNMT3L DNMT3a cofactor
high pregnancy rates, associating methylation defects to infer- HAT H3 and H4 acetylation
tility (48). The Houshdaran et al. study, based on Methylight MII2 (HMT) H3K4 methylation
Meiosis HDAC H3 and H4 deacetylation
screening of 36 target genes with the use of the Illumina plat- LSD1/KDM1 (HDM) H3K4 demetylation
form, showed improperly elevated levels of DNA methylation HMT H3K9 and H3K27 methylation
of imprinted and nonimprinted genes and repetitive elements Spermiogenesis HAT H4 hyperacetylation
in poor-quality semen samples (49). The authors proposed JHDM2A (HDM) H3K9 demethylation
Boissonnas. Epigenetics and male fertility. Fertil Steril 2013.
that these elevated methylation levels resulted from an im-

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not only imprinted genes, but also broad epigenetic defects rence, remain unknown. Are these methylation errors ac-
were associated with sperm defects. Using the Illumina Inn- quired during fetal or early postnatal development? Are
ium Human Methylation 27 Beadchip assay, Aston et al. de- they linked to abnormal methylation maintenance during
scribed a genome-wide altered DNA methylation pattern in spermatogenesis? It seems to be unlikely that altered expres-
men with altered semen parameters (50), linking global meth- sion of DNMT, particularly 3A or 3L, could be responsible for
ylation levels of sperm with fertility. Considering the impor- these disorders, because anarchic methylation and demethy-
tance of imprint acquisition during spermatogenesis, lation are observed in oligozoospermic men. A possible expla-
Marques et al. studied some imprinted genes in different sperm nation could be that methylation abnormalities are linked to
populations (51, 52). They compared the paternally methylated abnormal DNA conguration during spermiogenesis, where
H19 DMR and unmethylated MEST DMR in spermatozoa from histones and protamines play a role in the maintenance of
fertile and infertile men. A loss of methylation of H19 DMR the methylation markers of male gametes (65).
was found in men with OAT, and an association between
H19 DMR methylation decrease and decreased sperm count
was observed (51, 52). An unexpected and abnormal HISTONE MODIFICATIONS AND MALE
methylation state of MEST DMR was also observed in FERTILITY
oligozoospermic patient sperm (52). These ndings were Histones are subjected to posttranslational modications on
conrmed by a Japanese team on several other imprinted histone tails including phosphorylation, methylation, acety-
genes showing loss of methylation at H19 and GTL2 DMRs lation, and ubiquitination on different residues. Each of these
and improper methylation acquisition at PEG1, LIT1, ZAC, modications works alone or in concert, under the name of
PEG3, and SNRPN loci in cases of moderate to severe the histone code, to inuence activation or inhibition of
oligozoospermia (53). An association between abnormal gene transcription (66). Activation of genes is commonly as-
imprinting in spermatozoa and spontaneous abortion after sociated with acetylation taking place on the lysine residue
ART was found with the same imprinting errors reported in (K), particularly on H3 and H4. The establishment and re-
the sperm and in the abortion product (53, 54). However, in moval of aceylation is accomplished by histone acetyl trans-
those studies, methylation analysis was performed using the ferases (HATs) and deacetylases (HDACs), respectively (66)
bisulte conversion and cloning-sequencing technique. That (Table 1). Histone acetylation relaxes chromatin and makes
technique allows allele-specic methylation analysis but is it accessible to transcription factors, whereas deacetylation
poorly representative of the methylation status of the studied is associated with gene silencing (66). Acetylation of H3
sample. Using bisulte conversion coupled with pyrosequenc- and H4 lysine residues is high in male stem cells and is re-
ing, Boissonnas et al. performed a quantitative analysis of moved during meiosis, but the reacetylation of H4K in elon-
methylation levels at each CpG position included in IGF2 gating spermatids is a prerequisite for histone-to-protamine
and H19 DMRs (47 different CpGs) in a population of normo- exchange (67) (Fig. 1). The use of an HDAC inhibitor, trichos-
zoospermic and oligozoospermic men (55). They conrmed tatine A, resulted in a signicant reduction of the number of
that the drastic loss of methylation restricted to IGF2 DMR2 spermatids and severe male infertility (68, 69). Methylation of
(primary IGF2 DMR) and H19 DMR correlated with the severity H3 or H4 lysine residues can promote gene activation or
of the oligozoospermia. These data may suggest that some repression and is regulated by histone methyltransferase
DMRs are more sensitive to methylation defects than others. (HMT) and demethylase (HDM) families (70) (Table 1). H3K4
This could depend on the different DNA compaction state of methylation is generally associated with gene expression,
these sites (55). Methylation errors (hypermethylation or deme- whereas H3K9 and H3K27 methylation is linked to gene
thylation) associated with OAT were next conrmed by other silencing and heterochromatin. The timing of establishment
teams using several techniques (50, 5658). and removal of methylation markers is critical to
Finally, some groups studied the methylation state of some spermatogenesis: Mono-, di-, and trimethylation
promoter genes involved in the spermatogenesis process. Ab- modications of H3K4, H3K9, and H3K27 are essential for
normal methylation of the DAZL promoter (59) and the the progression through spermatogenesis (71, 72). For
CREM promoter (60, 61) were reported in men with OAT. example, the methylation level of H3K4 peaks in
More interestingly, the methylation status of the spermatogonial stem cells and is required for stem cells to
methylenetetrahydrofolate reductase (MTHFR) gene promoter begin differentiation and to go on to become spermatocytes.
was studied (62). This gene encodes a key enzyme of the It then diminishes during meiosis. In contrast, the
folate pathway, which maintains methionine bioavailability. methylation level of H3K9 and H3K27 increases during
Methionine can be converted to S-adenosylmethionine, the meiosis, but the removal of H3K9me at the end of meiosis is
universal methyl donor for many substrates, including DNA. essential to the onset of spermiogenesis. Specic enzymes
A hypermethylation of the MTHFR promoter was found in play a role in orchestrating these modications. In mice, the
53% of nonobstructive azoospermia (63) and in some cases reduction of the histone H3K4 methyltransferase MII2
of idiopathic infertility (64). activity resulted in a dramatic decrease of the number of
All of these studies support the hypothesis that spermatocytes by an apoptotic process, inducing
sperm DNA methylation patterns of imprinted as well as non- a developmental block in spermatogenic differentiation (73).
imprinted genes are essential for normal sperm function, The loss of LSD1/KDM1, an H3K4 HDM, during meiosis
fertility, and embryo development. However, the causes of resulted in germ cell apoptosis and sterility (74, 75)
these methylation errors, as well as the timing of their occur- (Table 1). Targeted disruption of JHDM2A in mice resulted

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in a complete loss of TNP1 and P1 expression, defective observed: Key developmental genes were bivalently marked
chromatin condensation, and infertility (76) (Table 1). with H3K4me3 and H3K27me3, as observed in embryonic
JHDM2A is an H3K9 HDM that has a targeted action during stem cells. Additionally, H3K4me2 was enriched at develop-
spermiogensis. JHDM2A binds to the core promoter regions mental gene promoters and H3K4me3 was enriched in HOX
of TNP1 and P1 to induce their transcriptional activation by regions, noncoding RNAs, and paternally imprinted loci
removal of H3K9 methylation. Recently, a novel histone (13). Interestingly, histone retention was also found on genes
modication, crotonylation, was described. It consists in the presenting a demethylated state, and these genes were fre-
addition of a crotonyl group (C4H5O) on the lysine residue quently coding transcription and signaling factors required
of all core histones (77). It marks sex chromosome, but also for embryo development (13).
gonosomes, and confers gene resistance to transcription The precise histone retention and marking and the asso-
repressors (78). ciated DNA demethylated state suggest that the paternal ge-
These studies show that histone tail modications play nome contains specic markers that contribute to embryo
a crucial role in the achievement of spermatogenesis. development just after fertilization (Fig. 1). This provides an-
other epigenetic regulation in which paternal DNA is poised
for activation at specic sites necessary for embryo develop-
HISTONE-TO-PROTAMINE TRANSITION AND ment. Interestingly, a recent study by Hammoud et al. ana-
MALE INFERTILITY lyzed histone retention and the methylation status of DNA
The transition from canonical histones to protamines is an in seven sperm samples: four infertile men with an abnormal
important step of spermiogenesis which is favored by histone P1/P2 ratio and three men for whom the embryo development
hyperacetylation (79). In humans, the P1/P2 ratio is normally was stopped after IVF (90). Five men had elevated histone re-
0.81.2 (80). Abnormal P1/P2 ratios and low protamine levels tention in their genomes, ranging from 5% to 32%. Using
are associated with increased DNA fragmentation, suggesting ChIP experiments, two histone markers, H3K4me3 and
that incorrect DNA compaction is more exposed to DNA dam- H3K27me3, were analyzed in this population. There was a re-
age and oxidative stress (8184). Aberrant protamination duction in the amount of H3K4me3 and H3K27 me3 at the
has also been linked to male infertility, because alterations level of developmental transcription factor genes and some
of the P1/P2 ratio are very rare in fertile men but common imprinted genes. The analysis of the methylation status of im-
in infertile men (15, 82, 85). Infertility can be associated printed genes showed an abnormal methylation in two pa-
with either an elevated or a reduced P1/P2 ratio, tients. All of these effects may have a cumulative
demonstrating that underexpression of both P1 and P2 are detrimental effect on spermatozoa fertilizing ability and on
linked to male infertility (82, 83). Low protamine levels, the conceptus (90).
resulting in abnormal elevated histone retention in sperm,
were also linked to infertility and to the fertilizing ability of
spermatozoa (86). In humans, decreased embryo quality and SPERMATOZOAL RNAs AND MALE FERTILITY
poor IVF outcomes were reported with the use of sperm with Because of its extreme compaction, the sperm nucleus has
altered P1/P2 ratios (81, 83). In mouse sperm, low P2 long been thought to be inert. In fact, the spermatozoon con-
concentrations were correlated with DNA fragmentation and tains many specic RNAs, mRNAs, miRNAs, and piwi-
embryo death (87). This could be the consequence of interacting RNAs (piRNAs) that could be useful to embryo
a general failure of the transition from histones to development by modifying gene expression upon fertilization
protamines during spermiogenesis. This hypothesis is (91, 92) (Fig. 1). Reverse-transcription polymerase chain reac-
supported by the detection of higher rates of histones and tion analysis, in situ hybridization, and oligo DNA microar-
transition protamines in sperm of patients with decreased rays have permitted identication of specic mRNAs in
protamine levels or altered P1/P2 ratios. However, it is mature human spermatozoa, some of them encoding prot-
essential to note that histone-to-protamine transition is never amines and hormonal receptors (93). Spermatozoal RNAs
complete in normal sperm and that a fraction representing are markers of male infertility particularly concerning sper-
5%15% of the genome stays bound to nucleosomes miogenesis. Indeed, abnormal elevated protamine mRNA
composed of canonic histones as well as histone variants retention in the ejaculated sperm is associated with protamine
(17, 88, 89) (Fig. 1). translation deregulation, protamine deciency in sperm, and
For a long time, the signicance of this histone retention infertility (94). Levels of P1 and P2 transcripts were also re-
remained unknown and it was speculated that this was a rem- ported lower in the ejaculated sperm of asthenozoospermic
nant of incomplete histone-to-protamine transition. How- men (95). Moreover, a dynamic role of sperm RNAs has re-
ever, Hammoud et al. recently demonstrated in human cently been proposed. RNAs could contribute to stabilizing
spermatozoa that loci presenting histone enrichment were the nuclear envelope and the interaction between DNA-
not randomly distributed but were rather enriched at loci im- histones during the protamine transition. They could then
portant for embryo development (13). These loci included im- have a role in marking the DNA sequences that stay bound
printed gene clusters, miRNA, HOX gene clusters, to histones which is important for embryo development, as
developmental promoters, and signaling factors. Arpanahi previously described (92) (Fig. 1). Furthermore, microarray
et al. also found that histone-bound DNA regions of human technologies have revealed different mRNA patterns between
sperm were associated with regulatory regions of the genome fertile and infertile men, which were associated with preg-
(14). An epigenetic marking of these retained histones was nancy rates in assisted reproduction technologies (ART)

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