ArticlePloS one2013
Revealing less derived nature of cartilaginous fish genomes with their evolutionary time scale inferred with nuclear genes.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Article
- Adaptive loss of shortwave-sensitive opsins during cartilaginous fish evolution.Nature communications · 2025Article
- The lateral line and electrosensory systems of two holocephalans.Scientific reports · 2025Article
- The separation between mRNA-ends is more variable than expected.FEBS open bio · 2024Article
- Mitochondrial Genome and Phylogenetic Analysis of the Narrownose Smooth-Hound SharkAnimals : an open access journal from MDPI · 2024Article
- Analysis of a shark reveals ancient, Wnt-dependent, habenular asymmetries in vertebrates.Nature communications · 2024Article
- De novo transcriptome for Chiloscyllium griseum, a long-tail carpet shark of the Indian waters.Scientific data · 2024Article
- Loss of noggin1, a classic embryonic inducer gene, in elasmobranchs.Scientific reports · 2024Article
- The Structure of a Peptide-Loaded Shark MHC Class I Molecule Reveals Features of the Binding between βJournal of immunology (Baltimore, Md. : 1950) · 2021Article
- New Species Can Broaden Myelin Research: Suitability of Little Skate,Life (Basel, Switzerland) · 2021Article
- A method for making alignments of related protein sequences that share very little similarity; shark interleukin 2 as an example.Immunogenetics · 2021Review
- Cartilaginous fish class II genes reveal unprecedented old allelic lineages and confirm the late evolutionary emergence of DM.Molecular immunology · 2020Article
- Ancient Use of Ig Variable Domains Contributes Significantly to the TCRδ Repertoire.Journal of immunology (Baltimore, Md. : 1950) · 2019Article
- The Melanin-Concentrating Hormone (MCH) System: A Tale of Two Peptides.Frontiers in neuroscience · 2019Review
- A de novo transcriptome assembly of the zebra bullhead shark, Heterodontus zebra.Scientific data · 2018Article
- A staging table for the embryonic development of the brownbanded bamboo shark (Chiloscyllium punctatum).Developmental dynamics : an official publication of the American Association of Anatomists · 2018Article
- Comparative transcriptomics of elasmobranchs and teleosts highlight important processes in adaptive immunity and regional endothermy.BMC genomics · 2017Article
- The fin-to-limb transition as the re-organization of a Turing pattern.Nature communications · 2016Article
- Assembly and Expression of Shark Ig Genes.Journal of immunology (Baltimore, Md. : 1950) · 2016Review
- A shift in anterior-posterior positional information underlies the fin-to-limb evolution.eLife · 2015Article
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3 authors.
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Abstract
Cartilaginous fishes, divided into Holocephali (chimaeras) and Elasmoblanchii (sharks, rays and skates), occupy a key phylogenetic position among extant vertebrates in reconstructing their evolutionary processes. Their accurate evolutionary time scale is indispensable for better understanding of the relationship between phenotypic and molecular evolution of cartilaginous fishes. However, our current knowledge on the time scale of cartilaginous fish evolution largely relies on estimates using mitochondrial DNA sequences. In this study, making the best use of the still partial, but large-scale sequencing data of cartilaginous fish species, we estimate the divergence times between the major cartilaginous fish lineages employing nuclear genes. By rigorous orthology assessment based on available genomic and transcriptomic sequence resources for cartilaginous fishes, we selected 20 protein-coding genes in the nuclear genome, spanning 2973 amino acid residues. Our analysis based on the Bayesian inference resulted in the mean divergence time of 421 Ma, the late Silurian, for the Holocephali-Elasmobranchii split, and 306 Ma, the late Carboniferous, for the split between sharks and rays/skates. By applying these results and other documented divergence times, we measured the relative evolutionary rate of the Hox A cluster sequences in the cartilaginous fish lineages, which resulted in a lower substitution rate with a factor of at least 2.4 in comparison to tetrapod lineages. The obtained time scale enables mapping phenotypic and molecular changes in a quantitative framework. It is of great interest to corroborate the less derived nature of cartilaginous fish at the molecular level as a genome-wide phenomenon.
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