Qiyun Zhu

Oct 18, 2023 | nature.com | Qiyun Zhu |Donovan H. Parks |Mads Albertsen |Philip Hugenholtz |Andrew Bartko |Aki S Havulinna | +2 more

Correction to: Nature Biotechnology https://doi.org/10.1038/s41587-023-01845-1, published online 27 July 2023. In the version of the article initially published, a portion of the Competing interests statement was missing: “R.K. is a scientific advisory board member, and consultant for BiomeSense, Inc., has equity and receives income.

Jul 27, 2023 | nature.com | Qiyun Zhu |Donovan H. Parks |Mads Albertsen |Philip Hugenholtz |Andrew Bartko |Aki S Havulinna | +2 more

AbstractStudies 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.

Jul 27, 2023 | nature.com | Metin Balaban |Qiyun Zhu |Rob Knight

AbstractPhylogenetic trees provide a framework for organizing evolutionary histories across the tree of life and aid downstream comparative analyses such as metagenomic identification. Methods that rely on single-marker genes such as 16S rRNA have produced trees of limited accuracy with hundreds of thousands of organisms, whereas methods that use genome-wide data are not scalable to large numbers of genomes.