ArticleNature communications2017
Centromere evolution and CpG methylation during vertebrate speciation.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- Comparative analysis of conserved non-coding elements identifies gene regulatory networks rewired during the water-to-land transition in vertebrates.Biologia futura · 2026Article
- Complete sequencing of medaka genomes reveals the architecture of centromeric satellites, giant mobile elements, and sex chromosomes.Genome research · 2026Article
- Centromeric tandem repeats expansions in plateau zokor enhance chromosome stability for high-altitude adaptation.Genome biology · 2026Article
- A Simple Method for RNA-Seq of Manually Isolated Chromatophores in Oryzias Fishes.Development, growth & differentiation · 2026Article
- Genomic consequences of domestication and the diversification of body coloration and morphology in ornamental medaka strains.Molecular biology and evolution · 2026Article
- Genetic basis of latitudinal variation in vertebral number in the Oryzias latipes species complex.Zoological letters · 2025Article
- MedakaBase as a unified genomic resource platform for medaka fish biology.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- A recent and rapid genome expansion driven by the amplification of transposable elements in the Neotropical annual killifish Garcialebias charrua.Biological research · 2025Article
- 3D Genome Constrains Breakpoints of Inversions That Can Act as Barriers to Gene Flow in the Stickleback.Molecular ecology · 2025Article
- Coordinated action of multiple active histone modifications shapes the zygotic genome activation in teleost embryos.Nature communications · 2025Article
- Genetic Differentiation is Constrained to Chromosomal Inversions and Putative Centromeres in Locally Adapted Populations With Higher Gene Flow.Molecular biology and evolution · 2025Article
- Telomere-to-telomere sheep genome assembly identifies variants associated with wool fineness.Nature genetics · 2025Article
- Evolution of Size-Fecundity Relationship in Medaka Fish From Different Latitudes.Molecular ecology · 2024Article
- Cell cycle length governs heterochromatin reprogramming during early development in non-mammalian vertebrates.EMBO reports · 2024Article
- Non-B-form DNA is associated with centromere stability in newly-formed polyploid wheat.Science China. Life sciences · 2024Article
- Article
- The reference genome of Macropodus opercularis (the paradise fish).Scientific data · 2024Article
- Chromosomal DNA sequences of the Pacific saury genome: versatile resources for fishery science and comparative biology.DNA research : an international journal for rapid publication of reports on genes and genomes · 2024Article
- Convergent genomic signatures associated with vertebrate viviparity.BMC biology · 2024Article
- Fast satellite DNA evolution in Nothobranchius annual killifishes.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2023Article
Corrections and comments
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Centromeres and large-scale structural variants evolve and contribute to genome diversity during vertebrate speciation. Here, we perform de novo long-read genome assembly of three inbred medaka strains that are derived from geographically isolated subpopulations and undergo speciation. Using single-molecule real-time (SMRT) sequencing, we obtain three chromosome-mapped genomes of length ~734, ~678, and ~744Mbp with a resource of twenty-two centromeric regions of length 20-345kbp. Centromeres are positionally conserved among the three strains and even between four pairs of chromosomes that were duplicated by the teleost-specific whole-genome duplication 320-350 million years ago. The centromeres do not all evolve at a similar pace; rather, centromeric monomers in non-acrocentric chromosomes evolve significantly faster than those in acrocentric chromosomes. Using methylation sensitive SMRT reads, we uncover centromeres are mostly hypermethylated but have hypomethylated sub-regions that acquire unique sequence compositions independently. These findings reveal the potential of non-acrocentric centromere evolution to contribute to speciation.
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