FN Archimer Export Format
PT J
TI “Divergence and gene flow history at two large chromosomal inversions involved in long-snouted seahorse ecotype formation”
BT 
AF Meyer, Laura
   Barry, Pierre
   Riquet, Florentine
   Foote, Andrew
   Der Sarkissian, Clio
   Cunha, Regina
   Arbiol, Christine
   Cerqueira, Frédérique
   Desmarais, Erick
   Bordes, Anaïs
   Bierne, Nicolas
   Guinand, Bruno
   Gagnaire, Pierre-Alexandre
AS 1:1;2:2;3:3;4:4;5:5;6:6;7:1;8:1;9:1;10:1;11:1;12:1;13:1;
FF 1:;2:;3:PDG-RBE-ASIM;4:;5:;6:;7:;8:;9:;10:;11:;12:;13:;
C1 ISEM, Univ Montpellier, CNRS, EPHE, IRD, Montpellier, France
   CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos Universidade do Porto, Vairão, Portugal
   Ifremer, RBE-ASIM, Station de La Tremblade, La Tremblade, France
   Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Oslo, 0316 Oslo, Norway
   Centre for Anthropobiology and Genomics of Toulouse, CNRS, University of Toulouse Paul Sabatier, Toulouse,France
   Centre of Marine Sciences-CCMAR, University of Algarve, Campus de Gambelas, 8005-139 Faro, Portugal
C2 UNIV MONTPELLIER, FRANCE
   UNIV PORTO, PORTUGAL
   IFREMER, FRANCE
   UNIV OSLO, NORWAY
   UNIV TOULOUSE, FRANCE
   UNIV ALGARVE, PORTUGAL
SI LA TREMBLADE
SE PDG-RBE-ASIM
TC 0
UR https://archimer.ifremer.fr/doc/00877/98865/108618.pdf
LA English
DT Article
DE ;Inversions;whole-genome resequencing;ecotypes;evolutionary history;Ancestral Recombination Graph;gene flux
AB Chromosomal inversions can play an important role in divergence and reproductive isolation by building and maintaining distinct allelic combinations between evolutionary lineages. Alternatively, they can take the form of balanced polymorphisms that segregate within populations over time until one arrangement becomes fixed. Many questions remain about how these different inversion polymorphisms arise, how the mechanisms responsible for their long-term maintenance interact, and ultimately how they contribute to speciation. The long-snouted seahorse (Hippocampus guttulatus) is known to be subdivided into partially isolated lineages and marine-lagoon ecotypes differentiated by structural variation. Here, we aim to characterise these differences along the entire genome, and to reconstruct their history and role in ecotype formation. We generated a near chromosome-level reference genome assembly and described genome-wide patterns of diversity and divergence through the analysis of 112 whole-genome sequences from Atlantic, Mediterranean, and Black Sea populations. Combined with linked-read sequencing data, we found evidence for two megabase-scale chromosomal inversions showing contrasted allele frequency patterns across the species range. We reveal that these inversions represent ancient intraspecific polymorphisms, one being likely maintained by divergent selection, and the other by associative overdominance. Haplotype combinations characterising Mediterranean ecotypes also suggest the existence of potential interactions between the two inversions, possibly driven by environment-dependent fitness effects. Lastly, we detected gene flux eroding divergence between inverted alleles at varying levels between the two inversions, with a likely impact on their long-term dynamics. 
PY 2023
PD JUN
SO bioRxiv
PU Cold Spring Harbor Laboratory
DI 10.1101/2023.07.04.547634
ID 98865
ER

EF