21Spermatogenesis is the process by which male gametes are formed from a self-22 high-resolution, single-cell depth. Not only does this analysis reveal previously unknown 44 transcriptional dynamics of a highly transitional cell population, it has also begun to 45 reveal critical differences in biological pathway utilization in developing spermatogonia 46 and spermatocytes, including response to DNA damage and double-strand breaks. 47
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Author Summary 49Spermatogenesis is the process by which male gametes -mature spermatozoa 50 -are produced in the testis. This process requires exquisite control over many 51 developmental transitions, including the self-renewal of the germline stem cell 52 population, commitment to meiosis, and ultimately, spermiogenesis. While much is 53 known about molecular mechanisms regulating single transitions at single time points in 54 the mouse, much less is understood about how the spermatogenic progenitor cells, 55 spermatogonia, or the meiotic cells, spermatocytes, of the testis change over 56 developmental age. 57Our single-cell-mRNA-sequencing analysis is the first to profile both 58 spermatogonia and spermatocytes from neonatal mice through adulthood, revealing 59 novel gene expression dynamics and differential utilization of biological pathways. 60These discoveries help us to understand how the spermatogenic progenitors of this 61 population modulate their activity to adapt to a changing testicular environment. 62 Furthermore, they also begin to explain previously-observed differences -and 63 deficiencies -in spermatocytes that are derived from the first "wave" of 64 spermatogenesis. Overall, this dataset is the first of its kind to comprehensively profile 65 4 gene expression dynamics in male germ cell populations over time, enriching our 66 understanding of the complex and highly-orchestrated process of spermatogenesis. 67 68 Introduction 69 Mammalian spermatogenesis requires proper establishment of the 70 spermatogonial stem cell (SSC) pool, which resides within the seminiferous tubules of 71 testis and supports life-long germ cell development 1 . These progenitors give rise to all 72the differentiating germ cells of the mouse testis, ranging from spermatogonia to 73 spermatocytes to spermatids, and finally to mature spermatozoa. Despite the essential 74 nature of this process, the genetic regulatory mechanisms underlying the many complex 75 cellular transitions, and the maturation of this system during testis development, have 76 yet to be fully described. 77Gamete development in the mouse relies on a rare population of primordial germ 78 cells, the bi-potential progenitors of all gametes, which are specified in the developing 79 embryo at embryonic day (E) 6.25 2 . These cells migrate to and colonize the developing 80 gonad, arriving at the genital ridge from E10.5 3 , and undergo abundant proliferation 81 until E13.5. At this time, germ cells developing in an XX (female) gonad will enter the 82 meiotic program as oocytes, while germ cells developing in an XY (male) gonad w...