ArticleMolecular biology and evolution2020
Ancient Genomic Regulatory Blocks Are a Source for Regulatory Gene Deserts in Vertebrates after Whole-Genome Duplications.
Article in Molecular biology and evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Genetic knockout suggests Isl1 enhancer redundancy in mouse hindlimb development.Developmental biology · 2025Article
- Evolutionary diversification of ancestral genes across vertebrates and insects.Genome biology · 2025Article
- The application of irreversible genomic states to define and trace ancient cell type homologies.EvoDevo · 2025Article
- A gene desert required for regulatory control of pleiotropic Shox2 expression and embryonic survival.Nature communications · 2024Article
- Evolution of tissue-specific expression of ancestral genes across vertebrates and insects.Nature ecology & evolution · 2024Article
- Shifting landscapes: the role of 3D genomic organizations in gene regulatory strategies.Current opinion in genetics & development · 2023Review
- Emergence of novel cephalopod gene regulation and expression through large-scale genome reorganization.Nature communications · 2022Article
- Perfect and imperfect views of ultraconserved sequences.Nature reviews. Genetics · 2022Review
- Emergence of distinct syntenic density regimes is associated with early metazoan genomic transitions.BMC genomics · 2022Article
- An expansion of the non-coding genome and its regulatory potential underlies vertebrate neuronal diversity.Neuron · 2022Article
- Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans.Genome research · 2021Article
Corrections and comments
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Authors and funding
10 authors.
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No grant is acknowledged in the PubMed record.
Abstract
We investigated how the two rounds of whole-genome duplication that occurred at the base of the vertebrate lineage have impacted ancient microsyntenic associations involving developmental regulators (known as genomic regulatory blocks, GRBs). We showed that the majority of GRBs identified in the last common ancestor of chordates have been maintained as a single copy in humans. We found evidence that dismantling of the duplicated GRB copies occurred early in vertebrate evolution often through the differential retention of the regulatory gene but loss of the bystander gene's exonic sequences. Despite the large evolutionary scale, the presence of duplicated highly conserved noncoding regions provided unambiguous proof for this scenario for multiple ancient GRBs. Remarkably, the dismantling of ancient GRB duplicates has contributed to the creation of large gene deserts associated with regulatory genes in vertebrates, providing a potentially widespread mechanism for the origin of these enigmatic genomic traits.
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