ArticleProceedings of the National Academy of Sciences of the United States of America2006
Highly conserved syntenic blocks at the vertebrate Hox loci and conserved regulatory elements within and outside Hox gene clusters.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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45 citing papers in PubMed.
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- An oncohistone-driven H3.3K27M/CREB5/ID1 axis maintains the stemness and malignancy of diffuse intrinsic pontine glioma.Nature communications · 2025Article
- A distant global control region is essential for normal expression of anterior HOXA genes during mouse and human craniofacial development.Nature communications · 2024Article
- Comparative 3D genome architecture in vertebrates.BMC biology · 2022Article
- Exploring genetic variation and population structure in a threatened species, Noturus placidus, with whole-genome sequence data.G3 (Bethesda, Md.) · 2022Article
- One genome, many cell states: epigenetic control of innate immunity.Current opinion in immunology · 2022Review
- Evolutionary divergence of a Hoxa2b hindbrain enhancer in syngnathids mimics results of functional assays.Development genes and evolution · 2021Article
- Sequence determinants, function, and evolution of CpG islands.Biochemical Society transactions · 2021Review
- Targeted chromatin conformation analysis identifies novel distal neural enhancers of ZEB2 in pluripotent stem cell differentiation.Human molecular genetics · 2020Article
- Ancestrally Duplicated Conserved Noncoding Element Suggests Dual Regulatory Roles of HOTAIR in cis and trans.iScience · 2020Article
- Topologically associating domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation.Nature communications · 2017Article
- Functional and Comparative Genomics of Hoxa2 Gene cis-Regulatory Elements: Evidence for Evolutionary Modification of Ancestral Core Element Activity.Journal of developmental biology · 2016Article
- HoxD expression in the fin-fold compartment of basal gnathostomes and implications for paired appendage evolution.Scientific reports · 2016Article
- TCF/Lef regulates the Gsx ParaHox gene in central nervous system development in chordates.BMC evolutionary biology · 2016Article
- Nrf2 and Nrf2-related proteins in development and developmental toxicity: Insights from studies in zebrafish (Danio rerio).Free radical biology & medicine · 2015Review
- Comparison of splice sites reveals that long noncoding RNAs are evolutionarily well conserved.RNA (New York, N.Y.) · 2015Article
- Consequence of Menin Deficiency in Mouse Adipocytes Derived by In Vitro Differentiation.International journal of endocrinology · 2015Article
- Description of embryonic development of spotted green pufferfish (Tetraodon nigroviridis).Zebrafish · 2014Article
- Transgene- and locus-dependent imprinting reveals allele-specific chromosome conformations.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
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5 authors.
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Abstract
Hox genes in vertebrates are clustered, and the organization of the clusters has been highly conserved during evolution. The conservation of Hox clusters has been attributed to enhancers located within and outside the Hox clusters that are essential for the coordinated "temporal" and "spatial" expression patterns of Hox genes in developing embryos. To identify evolutionarily conserved regulatory elements within and outside the Hox clusters, we obtained contiguous sequences for the conserved syntenic blocks from the seven Hox loci in fugu and carried out a systematic search for conserved noncoding sequences (CNS) in the human, mouse, and fugu Hox loci. Our analysis has uncovered unusually large conserved syntenic blocks at the HoxA and HoxD loci. The conserved syntenic blocks at the human and mouse HoxA and HoxD loci span 5.4 Mb and 4 Mb and contain 21 and 19 genes, respectively. The corresponding regions in fugu are 16- and 12-fold smaller. A large number of CNS was identified within the Hox clusters and outside the Hox clusters spread over large regions. The CNS include previously characterized enhancers and overlap with the 5' global control regions of HoxA and HoxD clusters. Most of the CNS are likely to be control regions involved in the regulation of Hox and other genes in these loci. We propose that the regulatory elements spread across large regions on either side of Hox clusters are a major evolutionary constraint that has maintained the exceptionally long syntenic blocks at the HoxA and HoxD loci.
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