Normozoospermic infertile men possess subpopulations of sperm varying in DNA accessibility, relating to differing...

Can a reliable assay be developed to quantify DNA accessibility in human sperm to help with the assessment of pre-implantation development affected by dense packaging of mammalian sperm's genetic material?

We adapted NicE-view, an assay that directly labels accessible DNA, for use in human sperm and applied it to examine spermatozoa from infertile individuals with distinct reproductive outcomes.

Existing data suggest a connection between sperm chromatin compaction and reproductive outcomes. The assays used to generate this data, however, measure chromatin compaction indirectly and thus understanding their meaning is challenging.

Between April 2020 to December 2023, 60 normozoospermic infertile men were invited to participate in an experimental study and asked to provide a semen sample.

Among the 60 individuals forty had undergone at least one treatment with ART. Among these ART-treated participants, 20 were included in the study because after fertilization only one or no embryos developed during embryo culture (low blastocyst growth rate, LBGR). The other 20 men were included as at least 50% of cultured embryos developed to the blastocyst stage (high blastocyst growth rate). Additionally, 20 previously infertile individuals obtained a pregnancy naturally (NATP) and were included as well. Washed spermatozoa obtained from seminal plasma or prepared by swim-up procedure were processed for NicE-view to determine DNA accessibility as a marker of chromatin condensation using confocal microscopy. Images of more than 3 million spermatozoa were acquired. Computer-assisted image segmentation was used to identify individual sperm heads and DNA accessibility levels were then quantified in each. We also compared NicE-view to chromomycin A3 (CMA3), a conventional marker of chromatin de-condensation, and ATAC-see, an alternative assay for measuring DNA accessibility.

Both semen and swim-up samples of participants contained two well-delineated subpopulations of spermatozoa with distinct DNA accessibility levels, the frequencies of which varied among individuals. Interestingly, individuals with high frequencies of highly accessible sperm DNA, as measured in semen, possessed decreased sperm concentrations. Moreover, participants with high frequency of highly accessible sperm DNA were more common in the LBGR sub-group. Surprisingly, selection of motile sperm by swim-up enriched for sperm with high DNA accessibility in participants from all three sub-groups. Chromatin accessibility measurements by Nice-view were distinct from DNA staining with the fluorescent CMA3 dye, and NicE-view allowed much clearer separation of sperm subpopulations than ATAC-see.

This was a single-centre study with a cohort of 60 individuals. Sperm samples containing very high frequencies of sperm with increased DNA accessibility were more common in the LBGR sub-group. The number of individuals with this pattern was, however, limited, even within this category.

High DNA accessibility is associated with poor pre-implantation embryonic development in vitro and NicE-view may be used for the prediction of abnormal embryonic development in ART. Further studies examining samples from larger cohorts of participants and the localization of accessible regions within the sperm genome are needed to fully evaluate the utility of this method.

Swiss National Science Foundation (Grant No. 189264), Swiss Center for Applied Human Toxicology (SCAHT) research (Grant No. 1 'male reproductive toxicity') (both to C.D.G.), and the Novartis Research Foundation (to A.H.F.M.P.). M.E.G., C.D.G., and A.H.F.M.P. are authors on a patent application (EP23210754.0) on the use of NicE-view for the assessment of sperm.

ClinicalTrials.gov ID NCT04256668.