Assembly and Validation of the Genome of the Nonmodel Basal Angiosperm Amborella
Assembly and Validation of the Genome of the Nonmodel Basal Angiosperm Amborella
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DOI：
10.1126/science.1241130
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发表时间：
2013-12-20
期刊：
影响因子：
56.9
通讯作者：
Barbazuk, W. Brad
中科院分区：
文献类型：
--
作者：
Chamala, Srikar;Chanderbali, Andre S.;Barbazuk, W. Brad
使用下一代测序（NGS）技术的基因组测序现在可以应用于对解决基本生物学问题至关重要的生物体，但基因组以前被认为是棘手的或过于昂贵的。然而，对于具有大而复杂的基因组的物种，到目前为止，需要广泛的遗传和物理图谱资源来指导测序工作和序列组装。由于大多数物种无法获得这些资源，因此从NGS数据组装高质量的基因组序列仍然具有挑战性。我们描述了一种策略，使用NGS，荧光原位杂交和全基因组定位组装高质量的基因组序列Amborella的apropoda，一个非模式物种的关键了解开花植物的进化。这些方法适用于许多其他生物有限的基因组资源。
Genome sequencing with next-generation sequence (NGS) technologies can now be applied to organisms pivotal to addressing fundamental biological questions, but with genomes previously considered intractable or too expensive to undertake. However, for species with large and complex genomes, extensive genetic and physical map resources have, until now, been required to direct the sequencing effort and sequence assembly. As these resources are unavailable for most species, assembling high-quality genome sequences from NGS data remains challenging. We describe a strategy that uses NGS, fluorescence in situ hybridization, and whole-genome mapping to assemble a high-quality genome sequence for Amborella trichopoda, a nonmodel species crucial to understanding flowering plant evolution. These methods are applicable to many other organisms with limited genomic resources.