Comparative linkage mapping uncovers recombination suppression across massive chromosomal inversions associated with local adaptation in Atlantic silversides DOI
Maria Akopyan, Anna Tigano, Arne Jacobs

et al.

Molecular Ecology, Journal Year: 2022, Volume and Issue: 31(12), P. 3323 - 3341

Published: April 11, 2022

Abstract The role of recombination in genome evolution has long been studied theory, but until recently empirical investigations had limited to a small number model species. Here, we compare the landscape and collinearity between two populations Atlantic silverside ( Menidia menidia ), fish distributed across steep latitudinal climate gradient North American coast. We constructed separate linkage maps for locally adapted from New York Georgia their interpopulation laboratory cross. First, used one improve current assembly by anchoring three large unplaced scaffolds chromosomes. Second, estimated sex‐specific rates, finding 2.3‐fold higher rates females than males—one most extreme examples heterochiasmy fish. While occurs relatively evenly female chromosomes, it is restricted only terminal ends male Furthermore, comparisons revealed suppressed along several massive chromosomal inversions spanning nearly 16% genome. These segregate coincide near perfectly with blocks highly elevated genomic differentiation wild populations. Finally, discerned significantly chromosomes northern population compared southern. In addition providing valuable resources ongoing evolutionary comparative studies, our findings represent striking example structural variation that impacts adaptively divergent populations, support theorized mechanisms facilitating adaptation despite gene flow.

Language: Английский

Patterns of recombination in snakes reveal a tug-of-war between PRDM9 and promoter-like features DOI
Carla Hoge, Marc de Manuel, Mohamed Mahgoub

et al.

Science, Journal Year: 2024, Volume and Issue: 383(6685)

Published: Feb. 22, 2024

In some mammals, notably humans, recombination occurs almost exclusively where the protein PRDM9 binds, whereas in vertebrates lacking an intact

Language: Английский

Citations

23
Understanding the Genetic Basis of Variation in Meiotic Recombination: Past, Present, and Future DOI Creative Commons
Susan E. Johnston

Molecular Biology and Evolution, Journal Year: 2024, Volume and Issue: 41(7)

Published: July 1, 2024

Meiotic recombination is a fundamental feature of sexually reproducing species. It often required for proper chromosome segregation and plays important role in adaptation the maintenance genetic diversity. The molecular mechanisms are remarkably conserved across eukaryotes, yet meiotic genes proteins show substantial variation their sequence function, even between closely related Furthermore, rate distribution shows huge diversity within chromosomes, individuals, sexes, populations, This has implications many evolutionary processes, how why this evolved not well understood. A key step understanding trait evolution to determine its basis-that is, number, effect sizes, loci underpinning variation. In perspective, I discuss past current knowledge on basis distribution, explore implications, present open questions future research.

Language: Английский

Citations

17
A neutral model for the loss of recombination on sex chromosomes DOI Creative Commons
Daniel L. Jeffries, Jörn F. Gerchen, Mathias Scharmann

et al.

Philosophical Transactions of the Royal Society B Biological Sciences, Journal Year: 2021, Volume and Issue: 376(1832), P. 20200096 - 20200096

Published: July 12, 2021

The loss of recombination between sex chromosomes has occurred repeatedly throughout nature, with important implications for their subsequent evolution. Explanations this remarkable convergence have generally invoked only adaptive processes (e.g. sexually antagonistic selection); however, there is still little evidence these hypotheses. Here we propose a model in which on lost due to the neutral accumulation sequence divergence adjacent (and thus, linkage disequilibrium with) determiner. Importantly, include our fact that divergence, any form, reduces probability two sequences. Using simulations, show that, under certain conditions, region suppressed arises and expands outwards from sex-determining locus, purely processes. Further, rate pattern are sensitive pre-existing landscape genome differences rates, patterns consistent evolutionary strata emerging some conditions. We discuss applicability results natural systems. This article part theme issue ‘Challenging paradigm chromosome evolution: empirical theoretical insights focus vertebrates (Part I)’.

Language: Английский

Citations

73
Multiple sex chromosomes in teleost fishes from a cytogenetic perspective: state of the art and future challenges DOI Creative Commons
Alexandr Sember, Petr Nguyen, Manolo F. Perez

et al.

Philosophical Transactions of the Royal Society B Biological Sciences, Journal Year: 2021, Volume and Issue: 376(1833), P. 20200098 - 20200098

Published: July 25, 2021

Despite decades of cytogenetic and genomic research dynamic sex chromosome evolution in teleost fishes, multiple chromosomes have been largely neglected. In this review, we compiled available data on chromosomes, identified major trends their suggest further trajectories investigation. a dataset 440 verified records fish counted 75 systems with 60 estimated independent origins. We showed that male-heterogametic created by Y-autosome fusion predominate are over-represented the order Perciformes. documented striking difference patterns differentiation between male female heterogamety hypothesize faster W may constrain turnover female-heterogametic systems. also found no significant association mechanism formation percentage uni-armed karyotypes. Last but not least, hypothesized interaction populations, which differ can drive fishes. This underlines importance broader inter-population sampling studies chromosomes. article is part theme issue ‘Challenging paradigm evolution: empirical theoretical insights focus vertebrates (Part II)’.

Language: Английский

Citations

66
Expanding the classical paradigm: what we have learnt from vertebrates about sex chromosome evolution DOI Creative Commons
Lukáš Kratochvíl, Matthias Stöck, Michail Rovatsos

et al.

Philosophical Transactions of the Royal Society B Biological Sciences, Journal Year: 2021, Volume and Issue: 376(1833), P. 20200097 - 20200097

Published: July 25, 2021

Until recently, the field of sex chromosome evolution has been dominated by canonical unidirectional scenario, first developed Muller in 1918. This model postulates that chromosomes emerge from autosomes acquiring a sex-determining locus. Recombination reduction then expands outwards this locus, to maintain its linkage with sexually antagonistic/advantageous alleles, resulting Y or W degeneration and potentially culminating their disappearance. Based mostly on empirical vertebrate research, we challenge expand each conceptual step present observations numerous experts two parts theme issue

Language: Английский

Citations

62
Diversity and determinants of recombination landscapes in flowering plants DOI Creative Commons
Thomas Brazier, Sylvain Glémin

PLoS Genetics, Journal Year: 2022, Volume and Issue: 18(8), P. e1010141 - e1010141

Published: Aug. 30, 2022

During meiosis, crossover rates are not randomly distributed along the chromosome and their location may have a strong impact on functioning evolution of genome. To date, broad diversity recombination landscapes among plants has rarely been investigated formal comparative genomic approach is still needed to characterize assess determinants species chromosomes. We gathered genetic maps genomes for 57 flowering plant species, corresponding 665 chromosomes, which we estimated large-scale landscapes. found that number per spans limited range (between one five/six) whatever genome size, there no single relationship across between map length size. Instead, general relative size chromosomes rate, while absolute constrains basal rate each species. At level, identified two main patterns (with few exceptions) proposed conceptual model explaining broad-scale distribution crossovers where both telomeres centromeres play role. These correspond globally underlying gene distribution, affects how efficiently genes shuffled at meiosis. results raised new questions only but also

Language: Английский

Citations

57
The megabase-scale crossover landscape is largely independent of sequence divergence DOI Creative Commons
Qichao Lian, Victor Solier,

Birgit Walkemeier

et al.

Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)

Published: July 2, 2022

Abstract Meiotic recombination frequency varies along chromosomes and strongly correlates with sequence divergence. However, the causal relationship between landscapes polymorphisms is unclear. Here, we characterize genome-wide landscape in quasi-absence of polymorphisms, using Arabidopsis thaliana homozygous inbred lines which a few hundred genetic markers were introduced through mutagenesis. We find that megabase-scale are strikingly similar to hybrids, notable exception heterozygous large rearrangements where prevented locally. In addition, can be largely explained by chromatin features. Our results show not major determinant shape but rather favour alternative models divergence across genome.

Language: Английский

Citations

46
Recombination and selection against introgressed DNA DOI Open Access
Carl Veller, Nathaniel B. Edelman, Pavitra Muralidhar

et al.

Evolution, Journal Year: 2023, Volume and Issue: 77(4), P. 1131 - 1144

Published: Feb. 13, 2023

Abstract Introgressed DNA is often deleterious at many loci in the recipient species’ genome, and therefore purged by selection. Here, we use mathematical modeling whole-genome simulations to study influence of recombination on this process. We find that aggregate controls genome-wide rate purging early generations after admixture, when most rapid. Aggregate influenced number chromosomes heterogeneity their size, crossovers locations along chromosomes. A comparative prediction species with fewer should purge introgressed ancestry more profoundly, exhibit weaker genomic signals historical introgression. Turning within-genome patterns, show that, autosomal both sexes, expected sex than autosomes, all else equal. The opposite holds for without heterogametic sex. Finally, positive correlations between have recently been observed within genomes several species. these are likely driven not recombination’s effect unlinking neutral from alleles, but alleles themselves.

Language: Английский

Citations

42
The evolution of suppressed recombination between sex chromosomes and the lengths of evolutionary strata DOI Creative Commons
Colin Olito, Jessica K. Abbott

Evolution, Journal Year: 2023, Volume and Issue: 77(4), P. 1077 - 1090

Published: Feb. 16, 2023

Abstract The idea that sex differences in selection drive the evolution of suppressed recombination between chromosomes is well developed population genetics. Yet, despite a now classic body theory, empirical evidence sexually antagonistic drives arrest remains equivocal and alternative hypotheses underdeveloped. Here, we investigate whether length “evolutionary strata” formed by chromosomal inversions (or other large-effect modifiers) expanding non-recombining sex-linked region (SLR) on can be informative how influenced their fixation. We develop genetic models to show an SLR-expanding inversion, presence partially recessive deleterious mutational variation, affect fixation probability three different classes inversions: (1) intrinsically neutral, (2) directly beneficial (i.e., due breakpoint or positional effects), (3) those capturing (SA) loci. Our indicate neutral inversions, SA locus linkage disequilibrium with ancestral SLR, will exhibit strong bias toward small inversions; while unconditionally genetically unlinked locus, favor larger inversions. footprint evolutionary stratum size left behind regimes strongly parameters affecting mutation load, physical position distribution new inversion lengths.

Language: Английский

Citations

27
The origin and evolution of sex chromosomes, revealed by sequencing of the Silene latifolia female genome DOI Creative Commons
Jingjing Yue, Marc Krasovec, Yusuke Kazama

et al.

Current Biology, Journal Year: 2023, Volume and Issue: 33(12), P. 2504 - 2514.e3

Published: June 1, 2023

White campion (Silene latifolia, Caryophyllaceae) was the first vascular plant where sex chromosomes were discovered. This species is a classic model for studies on due to presence of large, clearly distinguishable X and Y that originated de novo about 11 million years ago (mya), but lack genomic resources this relatively large genome (∼2.8 Gb) remains significant hurdle. Here we report S. latifolia female assembly integrated with sex-specific genetic maps species, focusing their evolution. The analysis reveals highly heterogeneous recombination landscape strong reduction in rate central parts all chromosomes. Recombination chromosome meiosis primarily occurs at very ends, over 85% length located massive (∼330 Mb) gene-poor, rarely recombining pericentromeric region (Xpr). results indicate non-recombining (NRY) initially evolved small (∼15 Mb), actively end q-arm, possibly as result inversion nascent chromosome. NRY expanded 6 mya via linkage between Xpr sex-determining region, which may have been caused by expanding suppression These findings shed light origin yield assist ongoing future investigations into

Language: Английский

Citations

24