Linked Selection and Gene Density Shape Genome-Wide Patterns of Diversification in Peatmosses

IF 3.5 2区 生物学 Q1 EVOLUTIONARY BIOLOGY
Olena Meleshko, Michael D. Martin, Kjell Ivar Flatberg, Hans K. Stenøien, Thorfinn Sand Korneliussen, Péter Szövényi, Kristian Hassel
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Abstract

Genome evolution under speciation is poorly understood in nonmodel and nonvascular plants, such as bryophytes—the largest group of nonvascular land plants. Their genomes are structurally different from angiosperms and likely subjected to stronger linked selection pressure, which may have profound consequences on genome evolution in diversifying lineages, even more so when their genome architecture is conserved. We use the highly diverse, rapidly radiated group of peatmosses (Sphagnum) to characterize the processes affecting genome diversification in bryophytes. Using whole-genome sequencing data from populations of 12 species sampled at different phylogenetic and geographical scales, we describe high correlation of the genomic landscapes of differentiation, divergence, and diversity in Sphagnum. Coupled with evidence from the patterns of covariation among different measures of genetic diversity, phylogenetic discordance, and gene density, this provides strong support that peatmoss genome evolution has been shaped by the long-term effects of linked selection, constrained by distribution of selection targets in the genome. Thus, peatmosses join the growing number of animal and plant groups where functional features of the genome, such as gene density, and linked selection drive genome evolution along predetermined and highly similar routes in different species. Our findings demonstrate the great potential of bryophytes for studying the genomics of speciation and highlight the urgent need to expand the genomic resources in this remarkable group of plants.

Abstract Image

关联选择和基因密度塑造了泥炭藓的全基因组多样化模式。
人们对非模式植物和非维管束植物在物种分化过程中的基因组进化知之甚少,例如叶绿体植物--最大的非维管束陆生植物类群。它们的基因组在结构上不同于被子植物,很可能受到更强的关联选择压力,这可能会对多样化品系的基因组进化产生深远影响,当它们的基因组结构保持不变时更是如此。我们利用种类繁多、辐射迅速的泥炭藓(Sphagnum)来描述影响红叶植物基因组多样化的过程。利用在不同系统发育和地理尺度上采样的 12 个物种种群的全基因组测序数据,我们描述了泥炭藓分化、分化和多样性的基因组景观的高度相关性。再加上遗传多样性、系统发育不一致和基因密度等不同测量指标之间的协变模式所提供的证据,这有力地证明泥炭藓基因组的进化是在基因组选择目标分布的制约下,由关联选择的长期效应所决定的。因此,泥炭藓加入了越来越多的动物和植物类群的行列,在这些类群中,基因组的功能特征(如基因密度)和关联选择在不同物种中沿着预先确定且高度相似的路线推动基因组进化。我们的发现证明了红豆杉在研究物种演化基因组学方面的巨大潜力,并凸显了扩大这一非凡植物类群基因组资源的迫切需要。
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来源期刊
Evolutionary Applications
Evolutionary Applications 生物-进化生物学
CiteScore
8.50
自引率
7.30%
发文量
175
审稿时长
6 months
期刊介绍: Evolutionary Applications is a fully peer reviewed open access journal. It publishes papers that utilize concepts from evolutionary biology to address biological questions of health, social and economic relevance. Papers are expected to employ evolutionary concepts or methods to make contributions to areas such as (but not limited to): medicine, agriculture, forestry, exploitation and management (fisheries and wildlife), aquaculture, conservation biology, environmental sciences (including climate change and invasion biology), microbiology, and toxicology. All taxonomic groups are covered from microbes, fungi, plants and animals. In order to better serve the community, we also now strongly encourage submissions of papers making use of modern molecular and genetic methods (population and functional genomics, transcriptomics, proteomics, epigenetics, quantitative genetics, association and linkage mapping) to address important questions in any of these disciplines and in an applied evolutionary framework. Theoretical, empirical, synthesis or perspective papers are welcome.
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