The impact of NBUVB on microbial community profiling in the lesional skin of vitiligo subjects

From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-1-23
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
Authors
Yuan X, Wang L, Meng D, Wu L, Wang X, Zhang D, Luo Z, Pang Y, Liu G
Journal
Microbial pathogenesis
Year
2020
Keywords:
16S rRNA, Bacterial diversity, Cutaneous microbiome, Vitiligo
BACKGROUND: The impact of NBUVB on the cutaneous microbiota of vitiligo patients remains to be fully elucidated. METHODS: To characterize the cutaneous microbiota in vitiligo patients, cutaneous samples from 60 patients with vitiligo and after NBUVB irradiation were profiled using the Illumina MiSeq platform. Alpha diversity estimations revealed higher microbiota diversity in samples from patients with lesional skin. Beta diversity (Principal Component Analysis (PCA)) analysis showed that the bacterial community structure segregated differently between different groups. RESULTS: There was a statistically significant increase in the Sobs, ACE, and Chao indices in the NB group compared with NF group, as determined by t-test. The alpha diversity have no significant difference between NF and DB group. At the phylum level, Firmicutes, Proteobacteria and Actinobacteria were the most predominant phyla. Propionibacterium and Pseudomonas were the most predominant genera in each group. In addition, Staphylococcus, Bacillus and Prevotella were enriched in DF group compared to DB group. Propionibacterium was enriched in DB group compared to DF group. CONCLUSIONS: Our studies indicate differences in microbial community dynamics of the lesional and non-lesional sites of vitiligo subjects, with greater diversity and higher association between microbial communities of the unaffected site. And NBUVB irradiation might eliminate these differences.

Experiment 1


Reviewed Marked as Reviewed by Folakunmi on 2024-1-23

Curated date: 2021/07/13

Curator: Madhubani Dey

Revision editor(s): WikiWorks, Madhubani Dey, Folakunmi

Subjects

Location of subjects
China
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
Vitiligo VAMAS6,vitiligo,vitiligo-associated multiple autoimmune disease susceptibility 6,Vitiligo
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Vitiligo patients before narrowband UV (NBUVB) light irradiation in normal skin (NF group)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Vitiligo patients after NBUVB irradiation on normal skin (NB group)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Vitiligo patients after NBUVB irradiation on normal skin (NB group); Vitiligo patients recruited from Weifang Medical University Hospital, Shandong, China, from February 2018 to January 2019.
Group 0 sample size Number of subjects in the control (unexposed) group
15
Group 1 sample size Number of subjects in the case (exposed) group
15
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
6 months

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
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Yes

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
increased
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Richness Number of species
increased

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2023/04/24

Curator: Atrayees

Revision editor(s): Atrayees, Folakunmi

Source: within results text (Alterations in the composition of cutaneous microbiota associated with vitiligo at the phylum level, lines 7-9)

Description: Relative abundance of predominant bacteria at phylum and genus level in the NF and NB groups.

Abundance in Group 1: increased abundance in Vitiligo patients after NBUVB irradiation on normal skin (NB group)

NCBI Quality ControlLinks
Bacteroidia
Cyanobacteriota

Revision editor(s): Atrayees, Folakunmi

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2024/02/02

Curator: Folakunmi

Revision editor(s): Folakunmi

Source: within results text (Alterations in the composition of cutaneous microbiota associated with vitiligo at the phylum level, lines 7-9)

Description: Relative abundance of predominant bacteria at phylum and genus level in the NF and NB groups.

Abundance in Group 1: decreased abundance in Vitiligo patients after NBUVB irradiation on normal skin (NB group)

NCBI Quality ControlLinks
Actinomycetota
Pseudomonadota

Revision editor(s): Folakunmi

Experiment 2


Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2021/07/13

Curator: Madhubani Dey

Revision editor(s): WikiWorks, Madhubani Dey, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Normal skin of Vitiligo patients before narrowband UV (NBUVB) light irradiation (NF group)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Lesional skin of Vitiligo patients after NBUVB irradiation (DB group)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Lesional skin of Vitiligo patients after NBUVB irradiation (DB group); Vitiligo patients recruited from Weifang Medical University Hospital, Shandong, China, from February 2018 to January 2019.

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2024/02/02

Curator: Folakunmi

Revision editor(s): Folakunmi

Source: within results text (Alterations in the composition of cutaneous microbiota associated with vitiligo at the phylum level, lines 9-11)

Description: Relative abundance of predominant bacteria at phylum and genus level in the NF and DB groups.

Abundance in Group 1: increased abundance in Lesional skin of Vitiligo patients after NBUVB irradiation (DB group)

NCBI Quality ControlLinks
Bacteroidia
Pseudomonadota

Revision editor(s): Folakunmi

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2024/02/02

Curator: Folakunmi

Revision editor(s): Folakunmi

Source: within results text (Alterations in the composition of cutaneous microbiota associated with vitiligo at the phylum level, lines 9-11)

Description: Relative abundance of predominant bacteria at phylum and genus level in the NF and DB groups.

Abundance in Group 1: decreased abundance in Lesional skin of Vitiligo patients after NBUVB irradiation (DB group)

NCBI Quality ControlLinks
Bacillota
Actinomycetota

Revision editor(s): Folakunmi

Experiment 3


Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2021/07/13

Curator: Madhubani Dey

Revision editor(s): Aiyshaaaa, WikiWorks, Madhubani Dey, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Lesional skin of Vitiligo patients before irradiation (DF group)

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Richness Number of species
decreased

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2024/02/02

Curator: Folakunmi

Revision editor(s): Folakunmi

Source: within results text (Alterations in the composition of cutaneous microbiota associated with vitiligo at the phylum level, lines 12-14)

Description: Relative abundance of predominant bacteria at phylum and genus level in the DF and DB groups.

Abundance in Group 1: increased abundance in Lesional skin of Vitiligo patients after NBUVB irradiation (DB group)

NCBI Quality ControlLinks
Pseudomonadota
Actinomycetota

Revision editor(s): Folakunmi

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-2

Curated date: 2024/02/02

Curator: Folakunmi

Revision editor(s): Folakunmi

Source: within results text (Alterations in the composition of cutaneous microbiota associated with vitiligo at the phylum level, lines 12-14)

Description: Relative abundance of predominant bacteria at phylum and genus level in the DF and DB groups.

Abundance in Group 1: decreased abundance in Lesional skin of Vitiligo patients after NBUVB irradiation (DB group)

NCBI Quality ControlLinks
Bacillota

Revision editor(s): Folakunmi