% IMPORTANT: The following is UTF-8 encoded.  This means that in the presence
% of non-ASCII characters, it will not work with BibTeX 0.99 or older.
% Instead, you should use an up-to-date BibTeX implementation like “bibtex8” or
% “biber”.

@ARTICLE{vanNieropYSanchez:303092,
      author       = {P. van Nierop Y Sanchez and P. S. Sekhar and K. Yildirim
                      and T. Lange and L. Z. Kreplin and V. M. Boopathy and S.
                      Rosswag de Souza and K. Dammer and D. Ibberson and Q. Wang
                      and K. Domsch and A. Stokkermans and S. Pandey and P. Kaspar
                      and R. Martinez-Gallegos and X. Gao and A. Singh and N.
                      Engel and F. Port$^*$ and M. Boutros$^*$ and J. Bageritz$^*$
                      and I. Lohmann},
      title        = {{D}issecting the enhancer gene regulatory network in early
                      {D}rosophila spermatogenesis.},
      journal      = {Nature Communications},
      volume       = {16},
      number       = {1},
      issn         = {2041-1723},
      address      = {[London]},
      publisher    = {Springer Nature},
      reportid     = {DKFZ-2025-01517},
      pages        = {6766},
      year         = {2025},
      abstract     = {Cellular decision-making and tissue homeostasis are
                      governed by transcriptional networks shaped by chromatin
                      accessibility. Using single-nucleus multi-omics, we jointly
                      profile gene expression and chromatin accessibility in
                      10,335 cells from the Drosophila testis apical tip. This
                      enables inference of 147 cell type-specific enhancer-gene
                      regulons using SCENIC + . We functionally validate key
                      transcription factors, including ovo and klumpfuss, known
                      from other stem cell systems but not previously linked to
                      spermatogenesis. CRISPR-mediated knockout reveals their
                      essential roles in germline stem cell regulation, and we
                      provide evidence that they co-regulate shared targets
                      through overlapping enhancer elements. We further uncover a
                      critical role for canonical Wnt signaling, with Pangolin/Tcf
                      activating lineage-specific targets in the germline, soma,
                      and niche. The Pan eRegulon links Wnt activity to cell
                      adhesion, intercellular signaling and germline stem cell
                      maintenance. Together, our study defines the enhancer-driven
                      regulatory landscape of early spermatogenesis and reveals
                      conserved, combinatorial mechanisms of niche-dependent stem
                      cell control.},
      keywords     = {Animals / Male / Spermatogenesis: genetics / Enhancer
                      Elements, Genetic: genetics / Gene Regulatory Networks /
                      Drosophila Proteins: genetics / Drosophila Proteins:
                      metabolism / Testis: metabolism / Testis: cytology / Wnt
                      Signaling Pathway: genetics / Gene Expression Regulation,
                      Developmental / Transcription Factors: metabolism /
                      Transcription Factors: genetics / Drosophila melanogaster:
                      genetics / Stem Cells: metabolism / Stem Cells: cytology /
                      Germ Cells: metabolism / Drosophila Proteins (NLM Chemicals)
                      / Transcription Factors (NLM Chemicals)},
      cin          = {B110},
      ddc          = {500},
      cid          = {I:(DE-He78)B110-20160331},
      pnm          = {312 - Funktionelle und strukturelle Genomforschung
                      (POF4-312)},
      pid          = {G:(DE-HGF)POF4-312},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:40695849},
      doi          = {10.1038/s41467-025-62046-9},
      url          = {https://inrepo02.dkfz.de/record/303092},
}