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Greengenes2 unifies microbial data in a single reference tree

McDonald, Daniel ; Jiang, Yueyu ; Balaban, Metin ; Cantrell, Kalen ; Zhu, Qiyun ; Gonzalez, Antonio ; Morton, James T ; Nicolaou, Giorgia ; Parks, Donovan H ; Karst, Søren M ; Albertsen, Mads ; Hugenholtz, Philip ; DeSantis, Todd ; Song, Se Jin ; Bartko, Andrew ; Havulinna, Aki S ; Jousilahti, Pekka ; Cheng, Susan ; Inouye, Michael ; Niiranen, Teemu ; Jain, Mohit ; Salomaa, Veikko ; Lahti, Leo ; Mirarab, Siavash ; Knight, Rob

Nature biotechnology, 2024-05, Vol.42 (5), p.715-718 [Periódico revisado por pares]

United States: Nature Publishing Group

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Título:
Greengenes2 unifies microbial data in a single reference tree
Autor: McDonald, Daniel ; Jiang, Yueyu ; Balaban, Metin ; Cantrell, Kalen ; Zhu, Qiyun ; Gonzalez, Antonio ; Morton, James T ; Nicolaou, Giorgia ; Parks, Donovan H ; Karst, Søren M ; Albertsen, Mads ; Hugenholtz, Philip ; DeSantis, Todd ; Song, Se Jin ; Bartko, Andrew ; Havulinna, Aki S ; Jousilahti, Pekka ; Cheng, Susan ; Inouye, Michael ; Niiranen, Teemu ; Jain, Mohit ; Salomaa, Veikko ; Lahti, Leo ; Mirarab, Siavash ; Knight, Rob
Assuntos: Bacteria - classification ; Bacteria - genetics ; Biotechnology ; Brief Communication ; Communication ; Computer engineering ; Databases, Genetic ; Genomes ; Genomics ; Metagenome - genetics ; Metagenomics ; Microorganisms ; Nucleotide sequence ; Phenotypes ; Phylogenetics ; Phylogeny ; RNA, Ribosomal, 16S - genetics ; rRNA 16S ; Taxonomy ; Trees
É parte de: Nature biotechnology, 2024-05, Vol.42 (5), p.715-718
Notas: ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
Descrição: 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.
Editor: United States: Nature Publishing Group
Idioma: Inglês

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Greengenes2 unifies microbial data in a single reference tree

United States: Nature Publishing Group

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