Strains, functions and dynamics in the expanded Human Microbiome Project Article Swipe
Jason Lloyd‐Price
,
Anup Mahurkar
,
Ali Rahnavard
,
Jonathan Crabtree
,
Joshua Orvis
,
A. Brantley Hall
,
Arthur Brady
,
Heather H. Creasy
,
Carrie McCracken
,
Michelle Giglio
,
Daniel McDonald
,
Eric A. Franzosa
,
Rob Knight
,
Owen White
,
Curtis Huttenhower
·
YOU?
·
· 2017
· Open Access
·
· DOI: https://doi.org/10.1038/nature23889
YOU?
·
· 2017
· Open Access
·
· DOI: https://doi.org/10.1038/nature23889
The characterization of baseline microbial and functional diversity in the human microbiome has enabled studies of microbiome-related disease, diversity, biogeography, and molecular function. The National Institutes of Health Human Microbiome Project has provided one of the broadest such characterizations so far. Here we introduce a second wave of data from the study, comprising 1,631 new metagenomes (2,355 total) targeting diverse body sites with multiple time points in 265 individuals. We applied updated profiling and assembly methods to provide new characterizations of microbiome personalization. Strain identification revealed subspecies clades specific to body sites; it also quantified species with phylogenetic diversity under-represented in isolate genomes. Body-wide functional profiling classified pathways into universal, human-enriched, and body site-enriched subsets. Finally, temporal analysis decomposed microbial variation into rapidly variable, moderately variable, and stable subsets. This study furthers our knowledge of baseline human microbial diversity and enables an understanding of personalized microbiome function and dynamics.
Related Topics
Concepts
Microbiome
Human Microbiome Project
Human microbiome
Biology
Computational biology
Metagenomics
Evolutionary biology
Phylogenetic diversity
Profiling (computer programming)
Function (biology)
Phylogenetic tree
Identification (biology)
Genome
Clade
Genetics
Ecology
Gene
Computer science
Operating system
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1038/nature23889
- https://www.nature.com/articles/nature23889.pdf
- OA Status
- hybrid
- Cited By
- 1269
- References
- 70
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2756958651
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W2756958651Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.1038/nature23889Digital Object Identifier
- Title
-
Strains, functions and dynamics in the expanded Human Microbiome ProjectWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2017Year of publication
- Publication date
-
2017-09-19Full publication date if available
- Authors
-
Jason Lloyd‐Price, Anup Mahurkar, Ali Rahnavard, Jonathan Crabtree, Joshua Orvis, A. Brantley Hall, Arthur Brady, Heather H. Creasy, Carrie McCracken, Michelle Giglio, Daniel McDonald, Eric A. Franzosa, Rob Knight, Owen White, Curtis HuttenhowerList of authors in order
- Landing page
-
https://doi.org/10.1038/nature23889Publisher landing page
- PDF URL
-
https://www.nature.com/articles/nature23889.pdfDirect link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
hybridOpen access status per OpenAlex
- OA URL
-
https://www.nature.com/articles/nature23889.pdfDirect OA link when available
- Concepts
-
Microbiome, Human Microbiome Project, Human microbiome, Biology, Computational biology, Metagenomics, Evolutionary biology, Phylogenetic diversity, Profiling (computer programming), Function (biology), Phylogenetic tree, Identification (biology), Genome, Clade, Genetics, Ecology, Gene, Computer science, Operating systemTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
1269Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 122, 2024: 175, 2023: 118, 2022: 157, 2021: 215Per-year citation counts (last 5 years)
- References (count)
-
70Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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