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Kelpie: generating full-length ‘amplicons’ from whole-metagenome datasets

机译:Kelpie:从整个元基因组数据集中生成全长的扩增子

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摘要

IntroductionWhole-metagenome sequencing can be a rich source of information about the structure and function of entire metagenomic communities, but getting accurate and reliable results from these datasets can be challenging. Analysis of these datasets is founded on the mapping of sequencing reads onto known genomic regions from known organisms, but short reads will often map equally well to multiple regions, and to multiple reference organisms. Assembling metagenomic datasets prior to mapping can generate much longer and more precisely mappable sequences but the presence of closely related organisms and highly conserved regions makes metagenomic assembly challenging, and some regions of particular interest can assemble poorly. One solution to these problems is to use specialised tools, such as Kelpie, that can accurately extract and assemble full-length sequences for defined genomic regions from whole-metagenome datasets.
机译:简介完整的基因组测序可以作为有关整个宏基因组学社区的结构和功能的丰富信息来源,但是要从这些数据集中获得准确可靠的结果可能是具有挑战性的。这些数据集的分析建立在将测序读段映射到已知生物体的已知基因组区域上的基础上,但是短读段通常会同样好地映射到多个区域和多个参考生物体。在制图之前组装宏基因组数据集可以生成更长,更精确的可映射序列,但是紧密相关的生物体和高度保守的区域的存在使宏基因组组装具有挑战性,并且某些特别感兴趣的区域组装能力很差。解决这些问题的一种方法是使用专门的工具,例如Kelpie,它可以从全基因组数据集中准确地提取和组装用于确定基因组区域的全长序列。

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