Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
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DOI：
10.1038/s41564-017-0012-7
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发表时间：
2017-11-01
影响因子：
28.3
通讯作者：
Tyson, Gene W.
中科院分区：
文献类型：
--
作者：
Parks, Donovan H.;Rinke, Christian;Tyson, Gene W.
培养微生物的挑战限制了目前可用的微生物基因组的系统发育多样性。这是解决的测序通量和计算技术的进步，允许从宏基因组的基因组的培养无关的恢复。在这里，我们报告了从超过1,500个公共宏基因组中重建7,903个细菌和古细菌基因组。所有的基因组估计是>= 50%完整，近一半是>= 90%完整的30%，并提供了17个细菌和三个古细菌候选门的第一个代表。我们还从Patescibacteria superphylum（也称为候选门辐射）中回收了245个基因组，并发现该组的相对多样性随不同的蛋白质标记集而变化。该数据集的规模和质量表明，从宏基因组中恢复基因组为探索微生物暗物质提供了一条有利的途径。
Challenges in cultivating microorganisms have limited the phylogenetic diversity of currently available microbial genomes. This is being addressed by advances in sequencing throughput and computational techniques that allow for the cultivation-independent recovery of genomes from metagenomes. Here, we report the reconstruction of 7,903 bacterial and archaeal genomes from >1,500 public metagenomes. All genomes are estimated to be >= 50% complete and nearly half are >= 90% complete with 30% and provide the first representatives of 17 bacterial and three archaeal candidate phyla. We also recovered 245 genomes from the Patescibacteria superphylum (also known as the Candidate Phyla Radiation) and find that the relative diversity of this group varies substantially with different protein marker sets. The scale and quality of this data set demonstrate that recovering genomes from metagenomes provides an expedient path forward to exploring microbial dark matter.