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Cited by 206Chromosomal and Genetic VariationsGenome Rearrangement AlgorithmsGenomics and Phylogenetic Studies

Chromosome evolution at the origin of the ancestral vertebrate genome

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Sacerdot, Christine, Louis, Alexandra, Bon, Céline, Berthelot, Camille, Roest Crollius, Hugues·2018·Genome Biology
DOI 10.1186/s13059-018-1559-1PMC PMC6193309

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Abstract

BACKGROUND: It has been proposed that more than 450 million years ago, two successive whole genome duplications took place in a marine chordate lineage before leading to the common ancestor of vertebrates. A precise reconstruction of these founding events would provide a framework to better understand the impact of these early whole genome duplications on extant vertebrates. RESULTS: We reconstruct the evolution of chromosomes at the beginning of vertebrate evolution. We first compare 61 extant animal genomes to reconstruct the highly contiguous order of genes in a 326-million-year-old ancestral Amniota genome. In this genome, we establish a well-supported list of duplicated genes originating from the two whole genome duplications to identify tetrads of duplicated chromosomes. From this, we reconstruct a chronology in which a pre-vertebrate genome composed of 17 chromosomes duplicated to 34 chromosomes and was subject to seven chromosome fusions before duplicating again into 54 chromosomes. After the separation of the lineage of Gnathostomata (jawed vertebrates) from Cyclostomata (extant jawless fish), four more fusions took place to form the ancestral Euteleostomi (bony vertebrates) genome of 50 chromosomes. CONCLUSIONS: These results firmly establish the occurrence of two whole genome duplications in the lineage that precedes the ancestor of vertebrates, resolving in particular the ambiguity raised by the analysis of the lamprey genome. This work provides a foundation for studying the evolution of vertebrate chromosomes from the standpoint of a common ancestor and particularly the pattern of duplicate gene retention and loss that resulted in the gene composition of extant vertebrate genomes.

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  • Comparison of chromosome-scale genomes across vertebrates has clarified the timing and consequences of ancient whole-genome duplications that led to extant vertebrate genomes, supporting Ohno's hypothesis.

    “Comparison of chromosome-scale genomes across vertebrates has clarified the timing and consequences of the ancient whole-genome duplications (WGDs) that led to extant vertebrate genomes (59–65), supporting Ohno's (66) hypothesis.”

    From Topological Approaches in Animal Comparative Genomics (2026) · cites this paper as [63]

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Cited by

Sorted by citations

Authors
Sacerdot, C., Louis, A., Bon, C., Berthelot, C., & Roest Crollius, H.
Affiliations
  • Centre National de la Recherche Scientifique (FR)
  • École Normale Supérieure - PSL (FR)
ORCID
Venue
Genome Biology
Publisher
Springer Science and Business Media LLC
Published
2018-10-17
Volume
19
Issue
1
Pages
166-166
ISSN
  • 1465-6906 (ISSN-L)
  • 1474-760X
DOI
10.1186/s13059-018-1559-1
PMC
PMC6193309
OpenAlex
W2949203785
Cited by
206
References
1
Citations by year
2026: 13 · 2025: 13 · 2024: 50 · 2023: 21 · 2022: 25 · 2021: 43 · 2020: 27 · 2019: 12 · 2018: 2
FWCI
17.74
Type
journal article
Language
en
Open access
Licence
Locations
  • Genome biology (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
  • Europe PMC (PubMed Central) (publishedVersion, other-oa)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • HAL (submittedVersion, other-oa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Funders
Agence Nationale de la Recherche (ANR-10-BINF-01-03, ANR–10–LABX–54, ANR–10–IDEX–0001–02)
Topics
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genome Rearrangement Algorithms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords
karyotype evolution, whole-genome duplication, chromosome fusion, amniotes, Gnathostomata, Cyclostomata, duplicate gene retention, vertebrate origin
MeSH terms
Animals, Chromosomes, Humans, Models, Genetic, Phylogeny, Species Specificity, Vertebrates, Genome, Human, Genome, Evolution, Molecular, Gene Duplication, Genomics, Karyotype

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