10.5061/DRYAD.042VN
Gardner, Sue E.
University of Iowa
Hillis, Stephen L.
University of Iowa
Heilmann, Kris
University of Iowa
Segre, Julia A.
National Institutes of Health
Grice, Elizabeth A.
University of Pennsylvania
Data from: The neuropathic diabetic foot ulcer microbiome is associated
with clinical factors.
Dryad
dataset
2014
2014-03-19T18:47:43Z
2014-03-19T18:47:43Z
en
https://doi.org/10.2337/db12-0771
121739259 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Nonhealing diabetic foot ulcers (DFUs) are a common and costly
complication of diabetes. Microbial burden, or "bioburden," is
believed to underlie delayed healing, although little is known of those
clinical factors that may influence microbial load, diversity, and/or
pathogenicity. We profiled the microbiomes of neuropathic nonischemic DFUs
without clinical evidence of infection in 52 individuals using
high-throughput sequencing of the bacterial 16S ribosomal RNA gene.
Comparatively, wound cultures, the standard diagnostic in the clinic,
vastly underrepresent microbial load, microbial diversity, and the
presence of potential pathogens. DFU microbiomes were heterogeneous, even
in our tightly restricted study population, but partitioned into three
clusters distinguished primarily by dominant bacteria and diversity. Ulcer
depth was associated with ulcer cluster, positively correlated with
abundance of anaerobic bacteria, and negatively correlated with abundance
of Staphylococcus. Ulcer duration was positively correlated with bacterial
diversity, species richness, and relative abundance of Proteobacteria, but
was negatively correlated with relative abundance of Staphylococcus.
Finally, poor glycemic control was associated with ulcer cluster, with
poorest median glycemic control concentrating to Staphylococcus-rich and
Streptococcus-rich ulcer clusters. Analyses of microbial community
membership and structure may provide the most useful metrics in
prospective studies to delineate problematic bioburden from benign
colonization that can then be used to drive clinical treatment.
DFU 16S SequencesContains fasta formatted sequences.DFU_16S.fastaDFU Group
FileMaps sequence identifiers to Subject IDDFU_16S.groupsDFU clinical
factorsContains all clinical factors examined and their values for each
Subject.DFU metadata Gardner et al.txt