Taxonomical and Functional Profiling of Atopic Dermatitis-Associated Skin Microbiome through Whole-Genome Shotgun Sequencing
Refereed conference paper presented and published in conference proceedings


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AbstractBackground: Atopic dermatitis (AD), also known as eczema, is a common chronic skin disease characterized by Staphylococcus aureus colonization. However, other members of the skin microbiota may be equally important. AD skin microbiome has not been fully characterized.
Methods: Skin swabs at the right antecubital fossa from 50 children with AD and 50 controls were subjected to whole-genome shotgun sequencing (WGS) using Illumina HiSeq platform. The raw reads were preprocessed by quality filtering and host reads removal using KneadData (https://bitbucket.org/biobakery/kneaddata). Taxonomical and functional profiling of the metagenome are performed using MetaPhlAn2 and HUMAnN2, respectively.
Results: We obtained 239 skin metagenomes (42 controls, 89 ezun and 108 ezaf) comprising 2.46 billion microbial reads. A significantly higher proportion of human reads was found in AD skin metagenomes. AD skin has shown a lower microbial diversity. Not only S.aureus was increased (6.18% VS. 70.44% in mean proportion), but also S. hominis (12% VS. 0.07%) and Propionibacterium acnes (20.08% VS. 0.97%) were reduced in AD patients compared to controls (p-value < 0.01). In addition, 12 out of the top 20 most abundant MetaCyc pathways are significantly higher in AD metagenome, among which was L-histidine degradation. Interestingly, the enhancement of this pathway in AD may imply filaggrin (FLG) dysfunction, a histidine-rich protein frequently reported to be associated with AD susceptibility.
Conclusions: AD skin has a lower overall microbial diversity with S. aureus overrepresentation and S. hominis and P. acnes underrepresentation. The histidine degradation pathway is enhanced in AD skin and may contribute to FLG abnormality. Analysis of strain level variation is needed for a better understanding of association between skin microbiome and AD pathogenesis.
All Author(s) ListJ. HOU, W. YAU, K. TSUI, T. LEUNG
Name of ConferenceASM Microbe 2019
Start Date of Conference20/06/2019
End Date of Conference24/06/2019
Place of ConferenceSan Francisco
Country/Region of ConferenceUnited States of America
Year2019
Month6
Day20
LanguagesEnglish-United States

Last updated on 2019-27-11 at 15:21