ArticleGenome research2012
An ancient genomic regulatory block conserved across bilaterians and its dismantling in tetrapods by retrogene replacement.
Article in Genome research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- The application of irreversible genomic states to define and trace ancient cell type homologies.EvoDevo · 2025Article
- ThemicroPublication biology · 2025Article
- Parallel evolution of amphioxus and vertebrate small-scale gene duplications.Genome biology · 2022Article
- CRISPR-Cas9-mediated functional dissection of the foxc1 genomic region in zebrafish identifies critical conserved cis-regulatory elements.Human genomics · 2022Article
- Article
- Integrated transcriptomic analysis on small yellow follicles reveals that sosondowah ankyrin repeat domain family member A inhibits chicken follicle selection.Animal bioscience · 2021Article
- Ancient Genomic Regulatory Blocks Are a Source for Regulatory Gene Deserts in Vertebrates after Whole-Genome Duplications.Molecular biology and evolution · 2020Article
- Ultraconserved Non-coding DNA Within Diptera and Hymenoptera.G3 (Bethesda, Md.) · 2020Article
- Genome wide association study on feed conversion ratio using imputed sequence data in chickens.Asian-Australasian journal of animal sciences · 2019Article
- Amphioxus SYCP1: a case of retrogene replacement and co-option of regulatory elements adjacent to the ParaHox cluster.Development genes and evolution · 2018Article
- Topologically associating domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation.Nature communications · 2017Article
- Conserved Noncoding Elements in the Most Distant Genera of Cephalochordates: The Goldilocks Principle.Genome biology and evolution · 2016Article
- Evolutionary origin and functional divergence of totipotent cell homeobox genes in eutherian mammals.BMC biology · 2016Article
- A single three-dimensional chromatin compartment in amphioxus indicates a stepwise evolution of vertebrate Hox bimodal regulation.Nature genetics · 2016Article
- Origin of spliceosomal introns and alternative splicing.Cold Spring Harbor perspectives in biology · 2014Article
- The mystery of extreme non-coding conservation.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Review
- Deep conservation of cis-regulatory elements in metazoans.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Review
- Chromatin and epigenetic features of long-range gene regulation.Nucleic acids research · 2013Review
- Article
- Differences in enhancer activity in mouse and zebrafish reporter assays are often associated with changes in gene expression.BMC genomics · 2012Article
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Developmental genes are regulated by complex, distantly located cis-regulatory modules (CRMs), often forming genomic regulatory blocks (GRBs) that are conserved among vertebrates and among insects. We have investigated GRBs associated with Iroquois homeobox genes in 39 metazoans. Despite 600 million years of independent evolution, Iroquois genes are linked to ankyrin-repeat-containing Sowah genes in nearly all studied bilaterians. We show that Iroquois-specific CRMs populate the Sowah locus, suggesting that regulatory constraints underlie the maintenance of the Iroquois-Sowah syntenic block. Surprisingly, tetrapod Sowah orthologs are intronless and not associated with Iroquois; however, teleost and elephant shark data demonstrate that this is a derived feature, and that many Iroquois-CRMs were ancestrally located within Sowah introns. Retroposition, gene, and genome duplication have allowed selective elimination of Sowah exons from the Iroquois regulatory landscape while keeping associated CRMs, resulting in large associated gene deserts. These results highlight the importance of CRMs in imposing constraints to genome architecture, even across large phylogenetic distances, and of gene duplication-mediated genetic redundancy to disentangle these constraints, increasing genomic plasticity.
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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 OpenQuestion graph.