ArticleNature communications2023
Transcription factor binding sites are frequently under accelerated evolution in primates.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 27 citations in OpenAlex.
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- The role of iPSC research for insight into inherited arrhythmia conditions.Heart rhythm · 2025Review
- A simple model reveals why complex evolutionary innovations follow predictable paths.bioRxiv : the preprint server for biology · 2025Article
- Emergence of activation or repression in transcriptional control under a fixed molecular context.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Identifying genes underlying parallel evolution of stromal resistance to placental and cancer invasion.NPJ systems biology and applications · 2025Article
- deepTFBS: Improving within- and Cross-Species Prediction of Transcription Factor Binding Using Deep Multi-Task and Transfer Learning.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Decoding DNA sequence-driven evolution of the human brain epigenome at cellular resolution.Nature communications · 2025Article
- Unifying framework explaining how parental regulatory divergence can drive gene expression in hybrids and allopolyploids.Nature communications · 2024Article
- A multi-layered integrative analysis reveals a cholesterol metabolic program in outer radial glia with implications for human brain evolution.Development (Cambridge, England) · 2024Article
- Article
- Transcription factor binding sites are frequently under accelerated evolution in primates.Nature communications · 2023Article
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Recent comparative genomic studies have identified many human accelerated elements (HARs) with elevated substitution rates in the human lineage. However, it remains unknown to what extent transcription factor binding sites (TFBSs) are under accelerated evolution in humans and other primates. Here, we introduce two pooling-based phylogenetic methods with dramatically enhanced sensitivity to examine accelerated evolution in TFBSs. Using these new methods, we show that more than 6000 TFBSs annotated in the human genome have experienced accelerated evolution in Hominini, apes, and Old World monkeys. Although these TFBSs individually show relatively weak signals of accelerated evolution, they collectively are more abundant than HARs. Also, we show that accelerated evolution in Pol III binding sites may be driven by lineage-specific positive selection, whereas accelerated evolution in other TFBSs might be driven by nonadaptive evolutionary forces. Finally, the accelerated TFBSs are enriched around developmental genes, suggesting that accelerated evolution in TFBSs may drive the divergence of developmental processes between primates.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.