Comparison of the ocular microbiome between chronic Stevens-Johnson syndrome patients and healthy subjects
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Kittipibul T, Puangsricharern V, Chatsuwan T
Journal
Scientific reports
Year
2020
Stevens - Johnson syndrome (SJS) has manifestation through the exfoliation of epidermis and mucosal tissue. Ocular surface is usually affected in acute and chronic stage. The patients are usually suffered from chronic ocular sequelae including symblepharon, limbal stem cell deficiency, etc. Furthermore, ocular microbiome may also be altered in SJS. This is prospective, age and sex matched analytical study which including 20 chronic SJS patients and 20 healthy subjects for specimen collection from inferior conjunctiva for microbiome analysis by conventional cultures and Next-Generation Sequencing (NGS) methods. Significant higher proportion of positive-cultured specimen was demonstrated in SJS group (SJS group 60%, healthy 10%, p-value = 0.001). In addition, NGS which providing high-throughput sequencing has demonstrated the greater diversity of microbial species. The higher proportion of pathogenic microorganisms including Pseudomonas spp., Staphylococcus spp., Streptococcus spp., Acinetobacter spp. was shown in SJS group. Ocular surface in SJS is usually occupied by more diverse microorganisms with increased proportion of pathogenic species. This condition may affect chronic inflammation and opportunistic infections in SJS group. In order to prevent and treat infection in these patients, appropriate antibiotics based on bacterial examination should be considered as the first-line treatment in the SJS patients.
Experiment 1
Needs review
Subjects
- Location of subjects
- Thailand
- 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
- Conjunctiva Conjunctivae,Conjunctivas,Tunica conjunctiva,Wall of conjunctival sac,Conjunctiva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Stevens-Johnson syndrome Dermatostomatitis, Stevens Johnson type,erythema multiforme Major,hypersensitivity syndrome, carbamazepine-induced, susceptibility to,severe cutaneous adverse reaction, susceptibility to,Stevens Johnson syndrome,Stevens-Johnson syndrome,Stevens-Johnson syndrome, susceptibility to,toxic Epidermal necrolysis, susceptibility to
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Stevens-Johnson Syndrome
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Stevens-Johnson Syndrome patients
- Group 0 sample size Number of subjects in the control (unexposed) group
- 20
- Group 1 sample size Number of subjects in the case (exposed) group
- 20
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Topical antibiotics within the 4 weeks prior to study entry were excluded
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
- Illumina
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)
- 0.05
- Matched on Factors on which subjects have been matched on in a case-control study
- Matched on: "age and sex" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.age and sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Needs review
Source: Figure 1
Description: Figure 1. Significant difference of taxa abundance. This figure represents the significant difference of taxonomic level of each genus comparing between SJS patients and healthy subjects. We analyzed the proportion of each genus by Mann-Whitney U test. The p-value less than 0.05 was defined as statistically significant difference.
Abundance in Group 1: increased abundance in Stevens-Johnson Syndrome
Revision editor(s): Mary Bearkland
Signature 2
Needs review
Source: Figure 1
Description: Figure 1. Significant difference of taxa abundance. This figure represents the significant difference of taxonomic level of each genus comparing between SJS patients and healthy subjects. We analyzed the proportion of each genus by Mann-Whitney U test. The p-value less than 0.05 was defined as statistically significant difference.
Abundance in Group 1: decreased abundance in Stevens-Johnson Syndrome
| NCBI | Quality Control | Links |
|---|---|---|
| Shewanella | ||
| Cohaesibacter | ||
| Clostridium | ||
| Fusibacter | ||
| Tenacibaculum | ||
| Methylophaga | ||
| Cetobacterium | ||
| Arcobacter | ||
| Vibrio |
Revision editor(s): Mary Bearkland
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