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Spermatogenesis

Spermatogenesis

Spermatogenesis is the process by which haploid sperm cells are produced in the male testes. It starts with stem cells located close to the outer rim of seminiferous tubules. These spermatogonial stem cells divide asymmetrically to give rise to additional stem cells (meaning that these structures “self-renew”), as well as sperm progenitors, called spermatocytes. Importantly, this method of asymmetric mitotic division maintains a population of spermatogonial stem cells in the male...

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Updated: May 5, 2026

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Published on: January 7, 2020

Computational Approaches in Spatial Transcriptomics for the Study of Mammalian Spermatogenesis.

Deina Bossa¹, Melanie Evans¹, Shreya Rajachandran^1,2

¹Department of Obstetrics and Gynecology, University of Texas Southwestern Medical Center, Dallas, TX, USA.

Advances in Experimental Medicine and Biology

|April 29, 2025

Summary

Spatial transcriptomics advances the study of male fertility by mapping gene expression in the native testicular environment. New computational methods are crucial for analyzing this data to understand spermatogenesis and improve reproductive health insights.

Keywords:

Cell-cell communication Spatial Transcriptomics Spatially variable genes Spermatogenesis Testis

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Last Updated: May 5, 2026

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

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Published on: January 7, 2020

Isolation of Murine Spermatogenic Cells using a Violet-Excited Cell-Permeable DNA Binding Dye

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Published on: January 14, 2021

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Published on: July 6, 2022

Area of Science:

Reproductive Biology
Genomics
Computational Biology

Background:

Spermatogenesis, essential for male fertility, involves complex cellular differentiation.
Previous single-cell RNA sequencing characterized gene expression but lacked spatial context.
Understanding the native tissue environment is key to fully dissecting spermatogenesis.

Purpose of the Study:

To review computational approaches for analyzing spatial transcriptomics data in mammalian spermatogenesis.
To highlight methods for extracting biological insights from spatial gene expression in the testis.
To advance the understanding of male fertility through spatial analysis.

Main Methods:

Review of existing and emerging computational approaches for spatial transcriptomics analysis.
Focus on methods for spatial mapping of testicular cell types.
Emphasis on identifying spatially variable genes and analyzing cell-cell molecular crosstalk.

Main Results:

Spatial transcriptomics (ST) provides a 2D spatial coordinate system for studying spermatogenesis in native testicular tissue.
New computational strategies are required to interpret complex ST data.
These methods enable detailed analysis of testicular cell types and their interactions.

Conclusions:

Spatial transcriptomics revolutionizes male fertility research by integrating gene expression with tissue architecture.
Advanced computational tools are essential for unlocking novel biological insights from ST data.
This approach promises to significantly deepen our understanding of spermatogenesis and male reproductive health.