Curated and harmonized gut microbiome 16S rRNA amplicon data from dietary fiber intervention studies in humans

Cynthia I Rodriguez; Ali Keshavarzian; Bruce R Hamaker; Feitong Liu; Genelle R Lunken; Heather Rasmussen; Hongwei Zhou; Julien Tap; Kelly S Swanson; Maria Ukhanova; Marion Leclerc; Martin Gotteland; Paola Navarrete; Petia Kovatcheva-Datchary; Wendy J Dahl; Jennifer B H Martiny

doi:10.1038/s41597-023-02254-4

Curated and harmonized gut microbiome 16S rRNA amplicon data from dietary fiber intervention studies in humans

Sci Data. 2023 Jun 2;10(1):346. doi: 10.1038/s41597-023-02254-4.

Authors

Cynthia I Rodriguez¹, Ali Keshavarzian², Bruce R Hamaker³, Feitong Liu⁴, Genelle R Lunken⁵, Heather Rasmussen⁶, Hongwei Zhou^{7

8}, Julien Tap⁹, Kelly S Swanson¹⁰, Maria Ukhanova¹¹, Marion Leclerc^{9

12}, Martin Gotteland^{13

14}, Paola Navarrete¹⁵, Petia Kovatcheva-Datchary¹⁶, Wendy J Dahl¹⁷, Jennifer B H Martiny¹⁸

Affiliations

¹ Dept. of Ecology and Evolutionary Biology, University of California, Irvine, USA. cirodri1@uci.edu.
² Rush Center for Integrated Microbiome and Chronobiology, Rush University Medical Center, Chicago, USA.
³ Whistler Center for Carbohydrate Research and Department of Food Science, Purdue University, West Lafayette, USA.
⁴ H&H Group, H&H Research, China Research and Innovation Center, Beijing, China.
⁵ BC Children's Hospital Research Institute, Vancouver, USA.
⁶ University of Nebraska-Lincoln, Department of Nutrition and Health Sciences, Lincoln, USA.
⁷ Microbiome Medicine Center, Department of Laboratory Medicine, Zhujiang Hospital, Southern Medical University, Guangzhou, USA.
⁸ State Key Laboratory of Organ Failure Research, Southern Medical University, Guangzhou, China.
⁹ Universite Paris-Saclay, INRAE, MICALIS Institute, Yvette, Jouy-en-Josas, France.
¹⁰ University of Illinois at Urbana-Champaign, Department of Animal Sciences, Champaign, USA.
¹¹ University of Florida, School of Medicine, Gainesville, USA.
¹² Pendulum therapeutics, San Francisco, USA.
¹³ Department of Nutrition, Faculty of Medicine, University of Chile, Santiago, Chile.
¹⁴ Institute of Nutrition and Food Technology (INTA), University of Chile, Santiago, Chile.
¹⁵ Laboratory of Microbiology and Probiotics, Institute of Nutrition and Food Technology (INTA), University of Chile, Santiago, Chile.
¹⁶ Institute for Molecular Infection Biology, University of Würzburg, Würzburg, Germany.
¹⁷ University of Florida, Food Science and Human Nutrition Department, Gainesville, USA.
¹⁸ Dept. of Ecology and Evolutionary Biology, University of California, Irvine, USA.

Abstract

Next generation amplicon sequencing has created a plethora of data from human microbiomes. The accessibility to this scientific data and its corresponding metadata is important for its reuse, to allow for new discoveries, verification of published results, and serving as path for reproducibility. Dietary fiber consumption has been associated with a variety of health benefits that are thought to be mediated by gut microbiota. To enable direct comparisons of the response of the gut microbiome to fiber, we obtained 16S rRNA sequencing data and its corresponding metadata from 11 fiber intervention studies for a total of 2,368 samples. We provide curated and pre-processed genetic data and common metadata for comparison across the different studies.

Publication types

Dataset

MeSH terms

Dietary Fiber
Gastrointestinal Microbiome*
Humans
Microbiota* / genetics
RNA, Ribosomal, 16S / genetics
Reproducibility of Results

Substances

Dietary Fiber
RNA, Ribosomal, 16S