Genomic data reveal the biogeographical and demographic history of Ammospiza sparrows in northeast tidal marshes
Genomic data reveal the biogeographical and demographic history of Ammospiza sparrows in northeast tidal marshes
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基因组数据揭示了东北潮汐沼泽中 Ammospiza 麻雀的生物地理和人口历史
DOI：
10.1111/jbi.14208
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发表时间：
2021
影响因子：
3.9
通讯作者：
Lovette, Irby J.
中科院分区：
文献类型：
--
作者：
Walsh, Jennifer;Kovach, Adrienne I.;Benham, Phred M.;Clucas, Gemma V.;Winder, Virginia L.;Lovette, Irby J.
受气候变化和海平面上升的影响，潮汐盐沼代表了只有少数物种的短暂系统。然而，这些栖息地的动态生态历史，使其具有挑战性的重建其特有类群的完整地理历史。为了更好地了解潮汐沼泽特有麻雀的进化历史，我们采用基因组数据来评估潮汐沼泽殖民事件的时间和方向，并利用这些数据来测试一系列模型描述我们的研究taxa.LocationNorth America.TaxonAmmospizaSparrows.MethodsWe采样了54个人从theAmmospizaclade从淡水和咸水栖息地。我们对整个基因组进行了测序，并生成了一个包含2100万个SNP的数据集。进行了详细的基因组分析，以确定潮汐沼泽和淡水物种之间的关系。然后，这些approgenies被用来日期分歧时间和重建的进化枝的地理历史，以及确定历史信号的introgression.ResultsPhylogenies基于数百万SNP支持良好解析的分支，对应于所有以前的物种名称。人口模型在A.尼尔森进一步解释了亚种的拓扑结构。系统发育和生态地理重建支持一系列的咸水淡水殖民化事件，与一些特有类群表现出协会与潮汐沼泽栖息地在较长的进化时间尺度和一些栖息地的过渡发生在最近的5,000年前。主要ConclusionsBiogeographical和nucleotigenomic重建支持一个原始的淡水起源theAmmospizarrows目前居住在北美的潮汐沼泽。我们还发现了强有力的证据表明，在A. n. subvirgatusas反对长期假设淡水起源的这个群体。我们的结论是，从基因组数据配对的一个综合框架，基因组，人口和地理重建的分辨率增加是重要的，解决复杂和短暂的环境中的进化历史。
AimShaped by climate change and sea‐level rise, tidal salt marshes represent ephemeral systems that are home to only a few species. The dynamic ecological histories of these habitats, however, render it challenging to reconstruct the complete biogeographical histories of their endemic taxa. To better understand the evolutionary history of tidal marsh endemic sparrows, we employ genomic data to evaluate the timing and direction of tidal marsh colonization events and leverage these data to test a series of models describing the biogeographical history of our study taxa.LocationNorth America.TaxonAmmospizaSparrows.MethodsWe sampled 54 individuals from theAmmospizaclade from freshwater and saltwater habitats. We sequenced whole genomes and generated a dataset containing 21 million SNPs. Detailed phylogenomic analyses were conducted to identify relationships between tidal marsh and freshwater species. These phylogenies were then used to date divergence times and reconstruct the biogeographical history of the clade as well as identify historic signals of introgression.ResultsPhylogenies based on several million SNPs supported well‐resolved clades that correspond to all previous species designations. Demographic modelling withinA. nelsoniprovided further resolution into the subspecies topology. Phylogenetic and biogeographical reconstructions support a series of saltwater to freshwater colonization events, with some endemic taxa exhibiting associations with tidal marsh habitat over longer evolutionary time‐scales and some habitat transitions occurring as recently as 5,000 years ago.Main ConclusionsBiogeographical and phylogenomic reconstructions support an original freshwater origin of theAmmospizasparrows currently inhabiting tidal marshes in North America. We also found strong evidence for a saltwater to freshwater transition inA. n. subvirgatusas opposed to the long hypothesized freshwater origin of this group. We conclude that the increased resolution from genomic data paired with an integrative framework of phylogenomic, demographic and biogeographical reconstructions is important for resolving evolutionary histories in complex and ephemeral environments.
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影响因子：
2.6
作者：
J. Walsh;Gemma V. Clucas;M. MacManes;W. K. Thomas;Adrienne I. Kovach
通讯作者：
J. Walsh;Gemma V. Clucas;M. MacManes;W. K. Thomas;Adrienne I. Kovach
影响因子：
2.6
作者：
Walsh J;Rowe RJ;Olsen BJ;Shriver WG;Kovach AI
通讯作者：
Kovach AI
DOI：
10.2307/4083496
发表时间：
1969
期刊：
The Auk
影响因子：
--
作者：
J. Murray
通讯作者：
J. Murray
影响因子：
10.7
作者：
Coffman, Alec J.;Hsieh, Ping Hsun;Gutenkunst, Ryan N.
通讯作者：
Gutenkunst, Ryan N.
影响因子：
4.1
作者：
Klicka, John;Barker, F. Keith;Bryson, Robert W., Jr.
通讯作者：
Bryson, Robert W., Jr.