Skin microbiota in health and disease: From sequencing to biology

Skin microbiome differences relate to the grade of acne vulgaris

(2019) Chun‐xi Li et al.   JOURNAL OF DERMATOLOGY

TARgeting the cutaneous microbiota in atopic dermatitis by coal tar via AHR-dependent induction of antimicrobial peptides.

(2019) Jos P.H. Smits et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Microbe-host interplay in atopic dermatitis and psoriasis

(2019) Nanna Fyhrquist et al.   Nature Communications

A generic workflow for Single Locus Sequence Typing (SLST) design and subspecies characterization of microbiota

(2019) Thomas H. A. Ederveen et al.   Scientific Reports

3D skin models for 3R research: The potential of 3D reconstructed skin models to study skin barrier function

(2018) Hanna Niehues et al.   EXPERIMENTAL DERMATOLOGY

Longitudinal Study of the Psoriasis-Associated Skin Microbiome during Therapy with Ustekinumab in a Randomized Phase 3b Clinical Trial

(2018) Michael A. Loesche et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Best practices for analysing microbiomes

(2018) Rob Knight et al.   NATURE REVIEWS MICROBIOLOGY

Atopic dermatitis

(2018) Stephan Weidinger et al.   Nature Reviews Disease Primers

Co-occurrence of Anaerobes in Human Chronic Wounds

(2018) Yongwook Choi et al.   MICROBIAL ECOLOGY

Adhesion of Staphylococcus aureus to Corneocytes from Atopic Dermatitis Patients Is Controlled by Natural Moisturizing Factor Levels

(2018) Cécile Feuillie et al.   mBio

The microbiome in patients with atopic dermatitis

(2018) Amy S. Paller et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Microbial strain-level population structure and genetic diversity from metagenomes

(2017) Duy Tin Truong et al.   GENOME RESEARCH

Gram-positive anaerobe cocci are underrepresented in the microbiome of filaggrin-deficient human skin

(2017) Patrick L.J.M. Zeeuwen et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Reply to Meisel et al.

(2017) Patrick L.J.M. Zeeuwen et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Psoriasis-Associated Late Cornified Envelope (LCE) Proteins Have Antibacterial Activity

(2017) Hanna Niehues et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Temporal Stability in Chronic Wound Microbiota Is Associated With Poor Healing

(2017) Michael Loesche et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis

(2017) Teruaki Nakatsuji et al.   Science Translational Medicine

Cutaneous Burn Injury Promotes Shifts in the Bacterial Microbiome in Autologous Donor Skin

(2017) Jennifer K. Plichta et al.   SHOCK

Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis

(2017) Adrian Tett et al.   npj Biofilms and Microbiomes

Temporal Stability of the Human Skin Microbiome

(2016) Julia Oh et al.   CELL

Skin Microbiome Surveys Are Strongly Influenced by Experimental Design

(2016) Jacquelyn S. Meisel et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Strain-level microbial epidemiology and population genomics from shotgun metagenomics

(2016) Matthias Scholz et al.   NATURE METHODS

Revised Estimates for the Number of Human and Bacteria Cells in the Body

(2016) Ron Sender et al.   PLOS BIOLOGY

Whole metagenome profiling reveals skin microbiome-dependent susceptibility to atopic dermatitis flare

(2016) Kern Rei Chng et al.   Nature Microbiology

Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data: Fig. 1.

(2015) Kathrin P. Aßhauer et al.   BIOINFORMATICS

ConStrains identifies microbial strains in metagenomic datasets

(2015) Chengwei Luo et al.   NATURE BIOTECHNOLOGY

Analysis of the chronic wound microbiota of 2,963 patients by 16S rDNA pyrosequencing

(2015) Randall D. Wolcott et al.   WOUND REPAIR AND REGENERATION

The vocabulary of microbiome research: a proposal

(2015) Julian R. Marchesi et al.   Microbiome

Microbiota of Demodex mites from rosacea patients and controls

(2014) Nathalia Murillo et al.   MICROBIAL PATHOGENESIS

Biogeography and individuality shape function in the human skin metagenome

(2014) Julia Oh et al.   NATURE

A Novel High-Resolution Single Locus Sequence Typing Scheme for Mixed Populations of Propionibacterium acnes In Vivo

(2014) Christian F. P. Scholz et al.   PLoS One

Dialogue between skin microbiota and immunity

(2014) Y. Belkaid et al.   SCIENCE

A Comprehensive Pathophysiology of Dandruff and Seborrheic Dermatitis – Towards a More Precise Definition of Scalp Health

(2013) J Schwartz et al.   ACTA DERMATO-VENEREOLOGICA

Microbiome and skin diseases

(2013) Patrick L.J.M. Zeeuwen et al.   Current Opinion in Allergy and Clinical Immunology

Pathoscope: Species identification and strain attribution with unassembled sequencing data

(2013) O. E. Francis et al.   GENOME RESEARCH

Propionibacterium acnes Strain Populations in the Human Skin Microbiome Associated with Acne

(2013) Sorel Fitz-Gibbon et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Potential role of microorganisms in the pathogenesis of rosacea

(2013) Anna D. Holmes   JOURNAL OF THE AMERICAN ACADEMY OF DERMATOLOGY

Topographic diversity of fungal and bacterial communities in human skin

(2013) Keisha Findley et al.   NATURE

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Metagenomic species profiling using universal phylogenetic marker genes

(2013) Shinichi Sunagawa et al.   NATURE METHODS

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

Pan-Genome and Comparative Genome Analyses of Propionibacterium acnes Reveal Its Genomic Diversity in the Healthy and Diseased Human Skin Microbiome

(2013) S. Tomida et al.   mBio

PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes

(2013) Nicola Segata et al.   Nature Communications

Microbiomic Signatures of Psoriasis: Feasibility and Methodology Comparison

(2013) Alexander Statnikov et al.   Scientific Reports

Community differentiation of the cutaneous microbiota in psoriasis

(2013) Alexander V Alekseyenko et al.   Microbiome

Biofilms and Inflammation in Chronic Wounds

(2013) Ge Zhao et al.   Advances in Wound Care

Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis

(2012) H. H. Kong et al.   GENOME RESEARCH

Metabolic Reconstruction for Metagenomic Data and Its Application to the Human Microbiome

(2012) Sahar Abubucker et al.   PLoS Computational Biology

Microbiome dynamics of human epidermis following skin barrier disruption

(2012) Patrick LJM Zeeuwen et al.   GENOME BIOLOGY

Individual genome assembly from complex community short-read metagenomic datasets

(2011) Chengwei Luo et al.   ISME Journal

The skin microbiome

(2011) Elizabeth A. Grice et al.   NATURE REVIEWS MICROBIOLOGY

Antimicrobial Peptides in Healthy Skin and Atopic Dermatitis

(2011) Jens-M. Schröder   ALLERGOLOGY INTERNATIONAL

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

The potential role of microorganisms in the development of rosacea

(2010) Elizabeth Lazaridou et al.   JOURNAL DER DEUTSCHEN DERMATOLOGISCHEN GESELLSCHAFT

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

The UNITE database for molecular identification of fungi - recent updates and future perspectives

(2010) Kessy Abarenkov et al.   NEW PHYTOLOGIST

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Topographical and Temporal Diversity of the Human Skin Microbiome

(2009) E. A. Grice et al.   SCIENCE

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

Genetically Programmed Differences in Epidermal Host Defense between Psoriasis and Atopic Dermatitis Patients

(2008) Patrick L. J. M. Zeeuwen et al.   PLoS One

Comparative Analysis of Human Gut Microbiota by Barcoded Pyrosequencing

(2008) Anders F. Andersson et al.   PLoS One

Substantial Alterations of the Cutaneous Bacterial Biota in Psoriatic Lesions

(2008) Zhan Gao et al.   PLoS One

A simple, fast, and accurate method of phylogenomic inference

(2008) Martin Wu et al.   GENOME BIOLOGY