Microbiome dynamics of human epidermis following skin barrier disruption

Study information

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

study design

prospective cohort

Citation

PMID PubMed identifier for scientific articles.

23153041

DOI Digital object identifier for electronic documents.

10.1186/gb-2012-13-11-r101

URI

Authors

Zeeuwen PL, Boekhorst J, van den Bogaard EH, de Koning HD, van de Kerkhof PM, Saulnier DM, van Swam II, van Hijum SA, Kleerebezem M, Schalkwijk J, Timmerman HM

Journal

Genome biology

Year

2012

BACKGROUND: Recent advances in sequencing technologies have enabled metagenomic analyses of many human body sites. Several studies have catalogued the composition of bacterial communities of the surface of human skin, mostly under static conditions in healthy volunteers. Skin injury will disturb the cutaneous homeostasis of the host tissue and its commensal microbiota, but the dynamics of this process have not been studied before. Here we analyzed the microbiota of the surface layer and the deeper layers of the stratum corneum of normal skin, and we investigated the dynamics of recolonization of skin microbiota following skin barrier disruption by tape stripping as a model of superficial injury. RESULTS: We observed gender differences in microbiota composition and showed that bacteria are not uniformly distributed in the stratum corneum. Phylogenetic distance analysis was employed to follow microbiota development during recolonization of injured skin. Surprisingly, the developing neo-microbiome at day 14 was more similar to that of the deeper stratum corneum layers than to the initial surface microbiome. In addition, we also observed variation in the host response towards superficial injury as assessed by the induction of antimicrobial protein expression in epidermal keratinocytes. CONCLUSIONS: We suggest that the microbiome of the deeper layers, rather than that of the superficial skin layer, may be regarded as the host indigenous microbiome. Characterization of the skin microbiome under dynamic conditions, and the ensuing response of the microbial community and host tissue, will shed further light on the complex interaction between resident bacteria and epidermis.

Experiment 1

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing

Subjects

Location of subjects: United States of America

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Skin of body Entire integument,Entire skin,Integument,Integumental organ,Pelt,Skin,Skin organ,Skin of body,skin of body

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Psoriasis Other and unspecified pityriasis,OTHER PSORIASIS,Other psoriasis and similar disorders,Other psoriasis and similar disorders (disorder),Other psoriasis and similar disorders excluding psoriatic arthropathy,Palmoplantaris Pustulosis,PITYRIASIS NEC & NOS,PSORIAS RELATED DIS NEC,Psoriases,psoriasis,Psoriasis and similar disorders,Psoriasis and similar disorders (disorder),Psoriasis and similar disorders (navigational concept),Psoriasis and similar disorders NOS,Psoriasis and similar disorders NOS (disorder),Pustular Psoriasis of Palms and Soles,PUSTULAR PSORIASIS OF PALMS SOLES,Pustulosis of Palms and Soles,PUSTULOSIS OF PALMS SOLES,Pustulosis Palmaris et Plantaris,Psoriasis

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Female

Group 1 name Corresponds to the case (exposed) group for case-control studies: Psoriasis Male

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: tape stripping method involves the repeated application of adhesive tape to the skin surface, thereby removing stratum corneum layers, it creates a superficial wound showing slight skin irritation (erythema) and loss of barrier function (transepidermal water loss)

Group 0 sample size Number of subjects in the control (unexposed) group: 6

Group 1 sample size Number of subjects in the case (exposed) group: 6

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Roche454

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

Statistical test: Mann-Whitney (Wilcoxon)

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.1

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: No

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness: increased

Chao1 Abundance-based estimator of species richness: increased

Signature 1

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

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Source: Figure 4

Description: Difference in microbial community composition of upper buttok skin between males and females

Abundance in Group 1: increased abundance in Psoriasis Male

NCBI	Quality Control	Links
Streptococcaceae
Streptococcus
Aerococcaceae
Clostridia
Eubacteriales
Clostridiaceae
Finegoldia
Peptostreptococcaceae
Anaerococcus
Veillonellaceae
Veillonella
Sporacetigenium
Corynebacteriaceae
Corynebacterium
Actinomycetales
Dermabacteraceae
Brachybacterium
Rothia
Actinomycetota
Actinomycetes
Microbacteriaceae
Microbacterium
Dermacoccus
Flavobacteriia
Flavobacteriales
Flavobacteriaceae
Capnocytophaga
Acinetobacter
Dermabacter
Eremococcus

Revision editor(s): WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Source: Figure 4

Description: Difference in microbial community composition of upper buttok skin between males and females

Abundance in Group 1: decreased abundance in Psoriasis Male

NCBI	Quality Control	Links
Lactobacillaceae
Lactobacillus
Propionibacteriaceae
Propionibacterium
Bifidobacteriales
Bifidobacteriaceae
Gardnerella
Pseudomonadota
Gammaproteobacteria
Pseudomonadales
Moraxellaceae
Enhydrobacter
Brevibacteriaceae
Brevibacterium

Revision editor(s): WikiWorks