Testing models of speciation from genome sequences: divergence and asymmetric admixture in Island South-East Asian Sus species during the Plio-Pleistocene climatic fluctuations.
Testing models of speciation from genome sequences: divergence and asymmetric admixture in Island South-East Asian Sus species during the Plio-Pleistocene climatic fluctuations.
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DOI：
10.1111/mec.12958
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发表时间：
2014-11
影响因子：
4.9
通讯作者：
Lohse K
中科院分区：
文献类型：
--
作者：
Frantz LA;Madsen O;Megens HJ;Groenen MA;Lohse K
在许多温带地区，冰期促使范围收缩成为避难所，导致分化(以及潜在的物种形成)，而较温暖的时期导致范围扩大和杂交。然而，这些气候振荡对热带许多地区的影响仍然难以捉摸。在这里，我们使用三个猪(Sus)物种的基因组序列来研究这个问题，其中两个物种发现于东南亚岛屿(ISEA)的舜他陆架浅海岛屿上。先前的一项研究揭示了这些苏族物种之间的种间混合的特征(基因组生物学，14,2013，R107)。然而，这种混合的时机、方向性和程度仍不清楚。在这里，我们使用基于可能性的模型比较来更精细地解析这种混合历史，并测试它是由人类调节的还是自然发生的。我们的分析表明，舜达-陆架物种之间的种间混合很可能是不对称的，早在人类到达该地区之前就发生了。更准确地说，我们发现这些物种在晚上新世发生了分化，但大约23%的基因组在晚更新世气候转变期间受到了混合的影响。此外，我们还表明，与D-统计量相比，我们的方法提供了显著的改进，D-统计量不能提供关于混合方向的信息。
In many temperate regions, ice ages promoted range contractions into refugia resulting in divergence (and potentially speciation), while warmer periods led to range expansions and hybridization. However, the impact these climatic oscillations had in many parts of the tropics remains elusive. Here, we investigate this issue using genome sequences of three pig (Sus) species, two of which are found on islands of the Sunda-shelf shallow seas in Island South-East Asia (ISEA). A previous study revealed signatures of interspecific admixture between these Sus species (Genome biology,14, 2013, R107). However, the timing, directionality and extent of this admixture remain unknown. Here, we use a likelihood-based model comparison to more finely resolve this admixture history and test whether it was mediated by humans or occurred naturally. Our analyses suggest that interspecific admixture between Sunda-shelf species was most likely asymmetric and occurred long before the arrival of humans in the region. More precisely, we show that these species diverged during the late Pliocene but around 23% of their genomes have been affected by admixture during the later Pleistocene climatic transition. In addition, we show that our method provides a significant improvement over D-statistics which are uninformative about the direction of admixture.
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影响因子：
4.5
作者：
Bosse M;Megens HJ;Madsen O;Paudel Y;Frantz LA;Schook LB;Crooijmans RP;Groenen MA
通讯作者：
Groenen MA
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
2.5
作者：
Gongora, Jaime;Cuddahee, Rebecca E.;Larson, Greger
通讯作者：
Larson, Greger
DOI：
10.1098/rspb.2013.2733
发表时间：
2014-02-07
影响因子：
4.7
作者：
Latour, Yasmin;Perriat-Sanguinet, Marco;Ganem, Guila
通讯作者：
Ganem, Guila
影响因子：
3.3
作者：
Lohse, K.;Harrison, R. J.;Barton, N. H.
通讯作者：
Barton, N. H.