Journal article
BugSigDB captures patterns of differential abundance across a broad range of host-associated microbial signatures
- Abstract:
- The literature of human and other host-associated microbiome studies is expanding rapidly, but systematic comparisons among published results of host-associated microbiome signatures of differential abundance remain difficult. We present BugSigDB, a community-editable database of manually curated microbial signatures from published differential abundance studies accompanied by information on study geography, health outcomes, host body site and experimental, epidemiological and statistical methods using controlled vocabulary. The initial release of the database contains >2,500 manually curated signatures from >600 published studies on three host species, enabling high-throughput analysis of signature similarity, taxon enrichment, co-occurrence and coexclusion and consensus signatures. These data allow assessment of microbiome differential abundance within and across experimental conditions, environments or body sites. Database-wide analysis reveals experimental conditions with the highest level of consistency in signatures reported by independent studies and identifies commonalities among disease-associated signatures, including frequent introgression of oral pathobionts into the gut.
- Publication status:
- Published
- Peer review status:
- Peer reviewed
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- Files:
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(Preview, Supplementary materials, pdf, 6.0MB, Terms of use)
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(Preview, Version of record, pdf, 5.6MB, Terms of use)
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- Publisher copy:
- 10.1038/s41587-023-01872-y
Authors
+ European Research Council
More from this funder
- Funder identifier:
- https://ror.org/0472cxd90
- Grant:
- ERC-2021-CoG-101002587
+ National Institutes of Health
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- Funder identifier:
- https://ror.org/01cwqze88
- Grant:
- 5R01CA230551
- 5U24CA180996
+ Deutsche Forschungsgemeinschaft
More from this funder
- Funder identifier:
- https://ror.org/018mejw64
- Grant:
- GE3023/1-2
- GE3023/1-1
- Publisher:
- Springer Nature
- Journal:
- Nature Biotechnology More from this journal
- Volume:
- 42
- Issue:
- 5
- Pages:
- 790-802
- Publication date:
- 2023-09-11
- Acceptance date:
- 2023-06-20
- DOI:
- EISSN:
-
1546-1696
- ISSN:
-
1087-0156
- Language:
-
English
- Pubs id:
-
1529353
- Local pid:
-
pubs:1529353
- Source identifiers:
-
1976118
- Deposit date:
-
2024-07-20
- ARK identifier:
Terms of use
- Copyright holder:
- Geistlinger et al.
- Copyright date:
- 2023
- Rights statement:
- © 2023 The Authors. Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.
- Licence:
- CC Attribution (CC BY)
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