Characterizing the gut microbiome in Parkinson's disease: an NGRC study

In Parkinson's disease (PD), gastrointestinal features are common and often precede the motor signs. To explore the association of gut microbiota with PD, we sequenced 16S rRNA V4 amplicons in 840 individuals (524 PD and 316 controls). Sequences and metadata are provided here, organized as two datasets because they differ in geographical origin of the participants, were collected at different times, were sequenced in different laboratories, differed in sequencing depth, and were analyzed separately by Wallen et al 2020 (DOI: 10.1038/s41531-020-0112-6). Dataset 1 was collected in 2014 in Seattle, WA, Albany, NY, and Atlanta, GA; sequenced at UCSD all in a single pool, uploaded to EBI-ENA (accession number ERP016332) and Qiita (study ID 10567), and reported by Hill-Burns et al in 2017 (DOI: 10.1002/mds.26942). Dataset 1 upload in EBI-ENA and Qiita included forward sequences that were demultiplexed using QIIME1 and included all sequences irrespective of count per sample. Dataset 1 uploaded here in SRA includes paired-end forward and reverse sequences that were demultiplexed using QIIME2 and excludes samples with too few sequences for analysis. Two subjects (10122.FP0016201 and 10122.GMWA.1090) in dataset 1 should be excluded from any analysis that require metadata other than case-control status. Dataset 2 was collected in 2015-2017 in Birmingham, AL, and was sequenced at HudsonAlpha Inst. in six sequencing pools. Dataset 2 is being made public here for the first time. This study was conducted by NeuroGenetics Research Consortium (NGRC). For details, and to cite the data, use DOI: 10.1038/s41531-020-0112-6.