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@ARTICLE{Engelhorn:1044973,
      author       = {Engelhorn, Julia and Snodgrass, Samantha J. and Kok, Amelie
                      and Seetharam, Arun S. and Schneider, Michael and Kiwit,
                      Tatjana and Singh, Ayush and Banf, Michael and Doan, Duong
                      Thi Hai and Khaipho-Burch, Merritt and Runcie, Daniel E. and
                      Sánchez-Camargo, Victor A. and Bader, Rechien and Vladimir
                      Torres-Rodriguez, J. and Sun, Guangchao and Stam, Maike and
                      Fiorani, Fabio and Beier, Sebastian and Schnable, James C.
                      and Bass, Hank W. and Hufford, Matthew B. and Stich,
                      Benjamin and Frommer, Wolf B. and Ross-Ibarra, Jeffrey and
                      Hartwig, Thomas},
      title        = {{G}enetic variation at transcription factor binding sites
                      largely explains phenotypic heritability in maize},
      journal      = {Nature genetics},
      volume       = {57},
      issn         = {1061-4036},
      address      = {London},
      publisher    = {Macmillan Publishers Limited, part of Springer Nature},
      reportid     = {FZJ-2025-03463},
      pages        = {2313–2322},
      year         = {2025},
      abstract     = {Comprehensive maps of functional variation at transcription
                      factor (TF) binding sites (cis-elements) are crucial for
                      elucidating how genotype shapes phenotype. Here, we report
                      the construction of a pan-cistrome of the maize leaf under
                      well-watered and drought conditions. We quantified
                      haplotype-specific TF footprints across a pan-genome of 25
                      maize hybrids and mapped over 200,000 variants, genetic,
                      epigenetic, or both (termed binding quantitative trait loci
                      (bQTL)), linked to cis-element occupancy. Three lines of
                      evidence support the functional significance of bQTL: (1)
                      coincidence with causative loci that regulate traits,
                      including vgt1, ZmTRE1 and the MITE transposon near ZmNAC111
                      under drought; (2) bQTL allelic bias is shared between
                      inbred parents and matches chromatin immunoprecipitation
                      sequencing results; and (3) partitioning genetic variation
                      across genomic regions demonstrates that bQTL capture the
                      majority of heritable trait variation across $~72\%$ of 143
                      phenotypes. Our study provides an auspicious approach to
                      make functional cis-variation accessible at scale for
                      genetic studies and targeted engineering of complex traits.},
      cin          = {IBG-2},
      ddc          = {570},
      cid          = {I:(DE-Juel1)IBG-2-20101118},
      pnm          = {2171 - Biological and environmental resources for
                      sustainable use (POF4-217)},
      pid          = {G:(DE-HGF)POF4-2171},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {40789919},
      UT           = {WOS:001548254400001},
      doi          = {10.1038/s41588-025-02246-7},
      url          = {https://juser.fz-juelich.de/record/1044973},
}