Greengenes2 将微生物数据统一在一个单一的参考树中。
Greengenes2 unifies microbial data in a single reference tree.
机构信息
Department of Pediatrics, University of California San Diego School of Medicine, La Jolla, CA, USA.
Department of Electrical and Computer Engineering, University of California San Diego, La Jolla, CA, USA.
出版信息
Nat Biotechnol. 2024 May;42(5):715-718. doi: 10.1038/s41587-023-01845-1. Epub 2023 Jul 27.
Studies using 16S rRNA and shotgun metagenomics typically yield different results, usually attributed to PCR amplification biases. We introduce Greengenes2, a reference tree that unifies genomic and 16S rRNA databases in a consistent, integrated resource. By inserting sequences into a whole-genome phylogeny, we show that 16S rRNA and shotgun metagenomic data generated from the same samples agree in principal coordinates space, taxonomy and phenotype effect size when analyzed with the same tree.
使用 16S rRNA 和鸟枪法宏基因组学的研究通常会产生不同的结果，这通常归因于 PCR 扩增偏差。我们引入了 Greengenes2，这是一个参考树，它将基因组和 16S rRNA 数据库统一在一个一致的、集成的资源中。通过将序列插入全基因组系统发育树中，我们表明，用相同的树进行分析时，来自相同样本的 16S rRNA 和鸟枪法宏基因组数据在主坐标空间、分类和表型效应大小上是一致的。
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