The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization

Kang Du, Matthias Stöck, Susanne Kneitz, Christophe Klopp, Joost M. Woltering, Mateus Contar Adolfi, Romain Feron, Dmitry Prokopov, Alexey Makunin, Ilya Kichigin, Cornelia Schmidt, Petra Fischer, Heiner Kuhl, Sven Wuertz, Jörn Gessner, Werner Kloas, Cédric Cabau, Carole Iampietro, Hugues Parrinello, Chad TomlinsonLaurent Journot, John H. Postlethwait, Ingo Braasch, Vladimir Trifonov, Wesley C. Warren, Axel Meyer, Yann Guiguen, Manfred Schartl

Research output: Contribution to journalArticlepeer-review

26 Citations (Scopus)

Abstract

Sturgeons seem to be frozen in time. The archaic characteristics of this ancient fish lineage place it in a key phylogenetic position at the base of the ~30,000 modern teleost fish species. Moreover, sturgeons are notoriously polyploid, providing unique opportunities to investigate the evolution of polyploid genomes. We assembled a high-quality chromosome-level reference genome for the sterlet, Acipenser ruthenus. Our analysis revealed a very low protein evolution rate that is at least as slow as in other deep branches of the vertebrate tree, such as that of the coelacanth. We uncovered a whole-genome duplication that occurred in the Jurassic, early in the evolution of the entire sturgeon lineage. Following this polyploidization, the rediploidization of the genome included the loss of whole chromosomes in a segmental deduplication process. While known adaptive processes helped conserve a high degree of structural and functional tetraploidy over more than 180 million years, the reduction of redundancy of the polyploid genome seems to have been remarkably random.

Original languageEnglish
Pages (from-to)841-852
Number of pages12
JournalNature Ecology and Evolution
Volume4
Issue number6
DOIs
Publication statusPublished - 1 Jun 2020

Keywords

  • RAY-FINNED FISH
  • DE-NOVO
  • TRANSPOSABLE ELEMENTS
  • PROVIDES INSIGHTS
  • WHOLE-GENOME
  • PHYLOGENETIC ANALYSIS
  • ACIPENSER-RUTHENUS
  • SEX DETERMINATION
  • PLOIDY LEVELS
  • HOX CLUSTERS

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