DOI: 10.5061/dryad.d41v4
title: Data from: Metatranscriptomics of the human oral microbiome during health and disease

description: The human microbiome plays important roles in health, but when disrupted
 these same indigenous microbes can cause disease. The composition of the
 microbiome changes during the transition from health to disease; however,
 these changes are often not conserved among patients. Since
 microbiome-associated diseases like periodontitis cause similar patient
 symptoms despite inter-patient variability in microbial community
 composition, we hypothesized that human-associated microbial communities
 undergo conserved changes in metabolism during disease. Here we used
 patient-matched healthy and diseased samples to compare gene expression of
 160,000 genes in healthy and diseased periodontal communities. We show
 that healthy and diseased communities exhibit defined differences in
 metabolism that are conserved between patients. In contrast, individual
 species metabolic gene expression was highly variable between patients.
 These results demonstrate that despite high inter-patient variability in
 microbial composition, diseased communities display conserved metabolic
 profiles that are generally accomplished by a patient-specific cohort of
 microbes.
description: Periodontitis diseased
 sample, patient 1, 16S rRNA sequencesBacterial 16S rRNA
 sequences from patient 1 diseased periodontal sites. Sequences are read 1
 and read 2 from MiSeq sequencing joined with the script
 fastq-join.PJD1.join.fastqPeriodontitis diseased sample, patient 2, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 2 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD2.join.fastqPeriodontitis diseased sample, patient 3, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 3 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD3.join.fastqPeriodontitis diseased sample, patient 4, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 4 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD4.join.fastqPeriodontitis diseased sample, patient 5, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 5 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD5.join.fastqPeriodontitis diseased sample, patient 6, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 6 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD6.join.fastqPeriodontitis diseased sample, patient 7, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 7 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD7.join.fastqPeriodontitis diseased sample, patient 8, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 8 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD8.join.fastqPeriodontitis diseased sample, patient 9, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 9 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD9.join.fastqPeriodontitis diseased sample, patient 10, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 10 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJD10.join.fastqPaired healthy sample, patient 1, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 1 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH1.join.fastqPaired healthy sample, patient 2, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 2 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH2.join.fastqPaired healthy sample, patient 3, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 3 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH3.join.fastqPaired healthy sample, patient 4, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 4 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH4.join.fastqPaired healthy sample, patient 5, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 5 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH5.join.fastqPaired healthy sample, patient 6, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 6 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH6.join.fastqPaired healthy sample, patient 7, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 7 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH7.join.fastqPaired healthy sample, patient 8, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 8 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH8.join.fastqPaired healthy sample, patient 9, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 9 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH9.join.fastqPaired healthy sample, patient 10, 16S rRNA sequencesBacterial 16S rRNA sequences from patient 10 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.PJH10.join.fastqPeriodontitis diseased sample, patient 1, 16S rRNA gene sequencesBacterial 16S rRNA gene sequences from patient 1 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.D1_16dnajoin.fastqPeriodontitis diseased sample, patient 2, 16S rRNA gene sequencesBacterial 16S rRNA gene sequences from patient 2 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.D2_16dnajoin.fastqPeriodontitis diseased sample, patient 3, 16S rRNA gene sequencesBacterial 16S rRNA gene sequences from patient 3 diseased periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join.D3_16dnajoin.fastq.tar.gzPaired healthy sample, patient 1, 16S rRNA gene sequencesBacterial 16S rRNA gene sequences from patient 1 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join. This file has been compressed.H1_16dnajoin.fastq.tar.gzPaired healthy sample, patient 2, 16S rRNA gene sequencesBacterial 16S rRNA gene sequences from patient 2 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join. This file has been compressed.H2_16dnajoin.fastq.tar.gzPaired healthy sample, patient 3, 16S rRNA gene sequencesBacterial 16S rRNA gene sequences from patient 3 healthy periodontal sites. Sequences are read 1 and read 2 from MiSeq sequencing joined with the script fastq-join. This file has been compressed.H3_16dnajoin.fastq.tar.gz