ArticleFrontiers in genetics2022
Repeat Age Decomposition Informs an Ancient Set of Repeats Associated With Coleoid Cephalopod Divergence.
Article in Frontiers in genetics, 2022. 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, 16 citations in OpenAlex.
- Genome reorganisation and expansion shape 3D genome architecture and define a distinct regulatory landscape in coleoid cephalopods.Nature communications · 2026Article
- Article
- Giant genome of the vampire squid reveals the derived state of modern octopod karyotypes.iScience · 2025Article
- Genome reorganisation and expansion shape 3D genome architecture and define a distinct regulatory landscape in coleoid cephalopods.bioRxiv : the preprint server for biology · 2025Article
- Characterization of C2H2 superfamily expansions in cephalopods and their contribution to nervous system evolution.iScience · 2025Article
- The dynamic genomes of Hydra and the anciently active repeat complement of animal chromosomes.Genome biology · 2025Article
- Cephalopod-omics: Emerging Fields and Technologies in Cephalopod Biology.Integrative and comparative biology · 2023Article
- A chromosome-level reference genome for the common octopus, Octopus vulgaris (Cuvier, 1797).G3 (Bethesda, Md.) · 2023Article
- Multiple and diversified transposon lineages contribute to early and recent bivalve genome evolution.BMC biology · 2023Article
- Making the Genome Huge: The Case ofGenes · 2023Article
- Epigenetic machinery is functionally conserved in cephalopods.BMC biology · 2022Article
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Authors and funding
5 authors at 2 institutions in 3 countries.
Funding
Abstract
In comparison with other molluscs and bilaterians, the genomes of coleoid cephalopods (squid, cuttlefish, and octopus) sequenced so far show remarkably different genomic organization that presumably marked the early evolution of this taxon. The main driver behind this genomic rearrangement remains unclear. About half of the genome content in coleoids is known to consist of repeat elements; since selfish DNA is one of the powerful drivers of genome evolution, its pervasiveness could be intertwined with the emergence of cephalopod-specific genomic signatures and could have played an important role in the reorganization of the cephalopod genome architecture. However, due to abundant species-specific repeat expansions, it has not been possible so far to identify the ancient shared set of repeats associated with coleoid divergence. By means of an extensive repeat element re-evaluation and annotation combined with network sequence divergence approaches, we are able to identify and characterize the ancient repeat complement shared by at least four coleoid cephalopod species. Surprisingly, instead of the most abundant elements present in extant genomes, lower-copy-number DNA and retroelements were most associated with ancient coleoid radiation. Furthermore, evolutionary analysis of some of the most abundant families shared in
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