Supplementary Material for:

Staphylococcus aureus and Staphylococcus epidermidis strain diversity underlying pediatric atopic dermatitis

Allyson L. Byrd, Clay Deming, Sara K. B. Cassidy, Oliver J. Harrison, Weng-Ian Ng, Sean Conlan, Yasmine Belkaid, Julia A. Segre,* Heidi H. Kong*

*Corresponding author. Email: jsegre{at}mail.nih.gov (J.A.S.); konghe{at}mail.nih.gov (H.H.K.)

Published 5 July 2017, Sci. Transl. Med. 9, eaal4651 (2017)
DOI: 10.1126/scitranslmed.aal4651

This PDF file includes:

• Materials and Methods
• Fig. S1. Seven sites sampled bilaterally on pediatric AD patients and control children.
• Fig. S2. Full multikingdom taxonomic classifications for AD patients and controls.
• Fig. S3. Full Malassezia species classifications for AD patients and controls.
• Fig. S4. Full eukaryotic virus classifications for AD patients and controls.
• Fig. S5. Full bacterial taxonomic classifications for AD patients and controls.
• Fig. S6. Relative abundance of staphylococcal species in relation to total bacterial population for all sites in AD patients and controls.
• Fig. S7. Correlation of various staphylococcal species mean relative abundance and objective SCORAD for all sites of patients.
• Fig. S8. Relative abundance of staphylococcal species for all sites in AD patients and controls.
• Fig. S9. S. aureus clades for AD patients and controls.
• Fig. S10. S. epidermidis clades for AD patients and controls.
• Fig. S11. Histologic and cutaneous innate immune cell responses with AD isolate association in a murine model.
• Fig. S12. CD45⁺ cutaneous immune responses with AD isolate association in a murine model.
• Table S1. Subject Tanner stage and disease severity for samples used in this study.
• Table S2. Clinical metadata for the subjects in this study.
• References (69–75)

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Other Supplementary Material for this manuscript includes the following:

• Table S3 (Microsoft Excel format). Metadata table for all samples in this study.
• Table S4 (Microsoft Excel format). Multikingdom relative abundances (coverage, >1% of the reference genome).
• Table S5 (Microsoft Excel format). Malassezia relative abundance.
• Table S6 (Microsoft Excel format). Bacteria relative abundances (coverage, >1% of the reference genome).
• Table S7 (Microsoft Excel format). Staphylococcus species relative abundances.
• Table S8 (Microsoft Excel format). S. aureus clade abundances.
• Table S9 (Microsoft Excel format). S. aureus pangenome analysis for isolates cultured and sequenced in this study.
• Table S10 (Microsoft Excel format). S. epidermidis strain relative abundances.

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