Genomic Landscape of Divergence in Ballan Wrasse (Labrus bergylta)

Molecular Ecology, Год журнала: 2025, Номер unknown

Опубликована: Март 17, 2025

ABSTRACT The architecture underpinning genomic divergence is still a largely uncharted territory and likely case‐dependent. Here, we investigated genome‐wide variation in Ballan wrasse, northeastern Atlantic fish species that displays two sympatric colour morphs, spotty plain, have been suggested to represent subspecies. We produced chromosome‐level reference genome thereafter among 152 individuals including both from localities Spain Norway each one France. Differences between morphs dominated accordance with divergence, whereas allopatric differentiation was prominent repeated signals of local were found. Chromosomes had large low‐recombining areas shared across all populations. Within the Spanish these contained islands totalling ~11% genome, showed high morph specificity strong selection. same regions frequent admixture French no Norway. In contrast, divergent observed sampling shorter found throughout genome. High inbreeding lower diversity Norwegian samples, consistent proposed recolonisation bottleneck subsequent drift. Several significantly associated tens genes diverse functions, suggesting colouration unlikely be sole driver divergence. Our results do not support hypothesis larger features underlying intraspecific Instead, observe gradual accumulation differences into regions, when additional factors like assortative mating and/or lack gene flow favour their development.

Язык: Английский

Transposable elements in Drosophila montana from harsh cold environments

Mobile DNA, Год журнала: 2024, Номер 15(1)

Опубликована: Окт. 1, 2024

Язык: Английский

Landmark-based estimates of genomic disparity

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Окт. 31, 2024

Abstract Genomic architecture has played a key role in the evolution of biodiversity. Structural comparisons genome sequences have informed study supergenes, sex chromosomes, and some earliest divergences tree life. However, multi-species whole still many computational analytical limitations. Here we present computationally non-intensive approach, based on geometric morphometrics, that generates disparity scores using conserved as landmarks. This ‘geno-metric’ method captures structural differences homologous chromosomal regions can be applied at micro- macroevolutionary scales. Using ultraconserved elements (UCEs) landmarks, provide empirical demonstrations with chromosome 5 from Drosophila virilis group 40 placental mammal genomes. These examples identify rearrangements while also confirming UCE landmark placement strong parallels morphometrics regarding size, orientation, phylogenetic signal availability. simulations, show UCE-inferred is correlated overall levels which further studied models continuous trait evolution. Landmark-based estimates are valuable addition to comparative genomic toolkit they offer an intuitive, rapid mechanism for detecting expansions, contractions, rearrangements. We highlight potential this approach translocations duplications. Significance Statement The increased throughput sequencing outpaced development tools extract information these big data, creating urgent need novel methodological perspectives genomics. describe validate morphometric landmarks effectively variation structure. principles morphological disparity, genomics greatly increased, syntenic organization chromosomes placed quantitative contexts.

Язык: Английский