The recombination landscape of the barn owl, from families to populations.

IF 3.3 3区 生物学 Q2 GENETICS & HEREDITY
Genetics Pub Date : 2024-11-15 DOI:10.1093/genetics/iyae190
Alexandros Topaloudis, Tristan Cumer, Eléonore Lavanchy, Anne-Lyse Ducrest, Celine Simon, Ana Paula Machado, Nika Paposhvili, Alexandre Roulin, Jérôme Goudet
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引用次数: 0

Abstract

Homologous recombination is a meiotic process that generates diversity along the genome and interacts with all evolutionary forces. Despite its importance, studies of recombination landscapes are lacking due to methodological limitations and limited data. Frequently used approaches include linkage mapping based on familial data that provides sex-specific broad-scale estimates of realized recombination and inferences based on population LD that reveal a more fine scale resolution of the recombination landscape, albeit dependent on the effective population size and the selective forces acting on the population. In this study, we use a combination of these two methods to elucidate the recombination landscape for the Afro-European barn owl (Tyto alba). We find subtle differences in crossover placement between sexes that leads to differential effective shuffling of alleles. LD based estimates of recombination are concordant with family-based estimates and identify large variation in recombination rates within and among linkage groups. Larger chromosomes show variation in recombination rates, while smaller chromosomes have a universally high rate which shapes the diversity landscape. We find that recombination rates are correlated with gene content, genetic diversity and GC content. We find no conclusive differences in the recombination landscapes between populations. Overall, this comprehensive analysis enhances our understanding of recombination dynamics, genomic architecture, and sex-specific variation in the barn owl, contributing valuable insights to the broader field of avian genomics.

从家族到种群的仓鸮重组景观。
同源重组是一个减数分裂过程,它产生了基因组的多样性,并与所有进化力量相互作用。尽管同源重组非常重要,但由于方法的局限性和数据的有限性,目前还缺乏对重组景观的研究。常用的方法包括基于家族数据的连锁图谱,它能提供性别特异性的大范围已实现重组估计值;以及基于种群 LD 的推断,它能揭示更精细的重组景观分辨率,尽管这取决于有效种群规模和作用于种群的选择性力量。在本研究中,我们结合使用了这两种方法来阐明非欧仓鸮(Tyto alba)的重组景观。我们发现性别间交叉位置的细微差别导致了等位基因有效洗牌的不同。基于 LD 的重组估计值与基于家系的估计值一致,并确定了连接组内和连接组间重组率的巨大差异。较大的染色体显示出不同的重组率,而较小的染色体则具有普遍较高的重组率,从而形成了多样性景观。我们发现重组率与基因含量、遗传多样性和 GC 含量相关。我们发现不同种群之间的重组景观并无明显差异。总之,这项综合分析增强了我们对仓鸮重组动态、基因组结构和性别特异性变异的理解,为更广泛的鸟类基因组学领域提供了宝贵的见解。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Genetics
Genetics GENETICS & HEREDITY-
CiteScore
6.90
自引率
6.10%
发文量
177
审稿时长
1.5 months
期刊介绍: GENETICS is published by the Genetics Society of America, a scholarly society that seeks to deepen our understanding of the living world by advancing our understanding of genetics. Since 1916, GENETICS has published high-quality, original research presenting novel findings bearing on genetics and genomics. The journal publishes empirical studies of organisms ranging from microbes to humans, as well as theoretical work. While it has an illustrious history, GENETICS has changed along with the communities it serves: it is not your mentor''s journal. The editors make decisions quickly – in around 30 days – without sacrificing the excellence and scholarship for which the journal has long been known. GENETICS is a peer reviewed, peer-edited journal, with an international reach and increasing visibility and impact. All editorial decisions are made through collaboration of at least two editors who are practicing scientists. GENETICS is constantly innovating: expanded types of content include Reviews, Commentary (current issues of interest to geneticists), Perspectives (historical), Primers (to introduce primary literature into the classroom), Toolbox Reviews, plus YeastBook, FlyBook, and WormBook (coming spring 2016). For particularly time-sensitive results, we publish Communications. As part of our mission to serve our communities, we''ve published thematic collections, including Genomic Selection, Multiparental Populations, Mouse Collaborative Cross, and the Genetics of Sex.
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