Recurrent selection shapes the genomic landscape of differentiation between a pair of host-specialized haplodiploids that diverged with gene flow

IF 4.5 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY
Ashleigh N. Glover, Vitor C. Sousa, Ryan D. Ridenbaugh, Sheina B. Sim, Scott M. Geib, Catherine R. Linnen
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引用次数: 0

Abstract

Understanding the genetics of adaptation and speciation is critical for a complete picture of how biodiversity is generated and maintained. Heterogeneous genomic differentiation between diverging taxa is commonly documented, with genomic regions of high differentiation interpreted as resulting from differential gene flow, linked selection and reduced recombination rates. Disentangling the roles of each of these non-exclusive processes in shaping genome-wide patterns of divergence is challenging but will enhance our knowledge of the repeatability of genomic landscapes across taxa. Here, we combine whole-genome resequencing and genome feature data to investigate the processes shaping the genomic landscape of differentiation for a sister-species pair of haplodiploid pine sawflies, Neodiprion lecontei and Neodiprion pinetum. We find genome-wide correlations between genome features and summary statistics are consistent with pervasive linked selection, with patterns of diversity and divergence more consistently predicted by exon density and recombination rate than the neutral mutation rate (approximated by dS). We also find that both global and local patterns of FST, dXY and π provide strong support for recurrent selection as the primary selective process shaping variation across pine sawfly genomes, with some contribution from balancing selection and lineage-specific linked selection. Because inheritance patterns for haplodiploid genomes are analogous to those of sex chromosomes, we hypothesize that haplodiploids may be especially prone to recurrent selection, even if gene flow occurred throughout divergence. Overall, our study helps fill an important taxonomic gap in the genomic landscape literature and contributes to our understanding of the processes that shape genome-wide patterns of genetic variation.

随着基因流的分化,一对寄主特化的单倍体之间的分化基因组图谱被反复选择所塑造。
要全面了解生物多样性是如何产生和维持的,了解适应和物种变异的遗传学至关重要。分化类群之间的基因组异质性分化已被普遍记录在案,高分化基因组区域被解释为由不同的基因流、关联选择和重组率降低造成的。厘清这些非排他性过程在形成全基因组分化模式中的作用具有挑战性,但将增进我们对不同类群基因组景观重复性的了解。在这里,我们结合全基因组重测序和基因组特征数据,研究了形成单倍体松树锯蝇(Neodiprion lecontei 和 Neodiprion pinetum)这对姊妹种的基因组分化景观的过程。我们发现基因组特征和汇总统计之间的全基因组相关性与普遍的关联选择一致,外显子密度和重组率比中性突变率(近似于 dS)更能一致地预测多样性和分化的模式。我们还发现,FST、dXY 和 π 的全局和局部模式都有力地支持了循环选择是形成松树锯蝇基因组变异的主要选择过程,平衡选择和特定世系的关联选择也有一定的贡献。由于单倍体基因组的遗传模式类似于性染色体的遗传模式,我们推测单倍体可能特别容易受到循环选择的影响,即使基因流发生在整个分化过程中。总之,我们的研究有助于填补基因组景观文献中一个重要的分类学空白,并有助于我们理解形成全基因组遗传变异模式的过程。
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来源期刊
Molecular Ecology
Molecular Ecology 生物-进化生物学
CiteScore
8.40
自引率
10.20%
发文量
472
审稿时长
1 months
期刊介绍: Molecular Ecology publishes papers that utilize molecular genetic techniques to address consequential questions in ecology, evolution, behaviour and conservation. Studies may employ neutral markers for inference about ecological and evolutionary processes or examine ecologically important genes and their products directly. We discourage papers that are primarily descriptive and are relevant only to the taxon being studied. Papers reporting on molecular marker development, molecular diagnostics, barcoding, or DNA taxonomy, or technical methods should be re-directed to our sister journal, Molecular Ecology Resources. Likewise, papers with a strongly applied focus should be submitted to Evolutionary Applications. Research areas of interest to Molecular Ecology include: * population structure and phylogeography * reproductive strategies * relatedness and kin selection * sex allocation * population genetic theory * analytical methods development * conservation genetics * speciation genetics * microbial biodiversity * evolutionary dynamics of QTLs * ecological interactions * molecular adaptation and environmental genomics * impact of genetically modified organisms
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