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

Your review change was submittedDuplicate this Experiment Add a new Signature

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 Control	Links
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 Control	Links
Actinomycetota
Pseudomonadota

Revision editor(s): Folakunmi

Experiment 2

Your review change was submittedDuplicate this Experiment Add a new Signature

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 Control	Links
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 Control	Links
Bacillota
Actinomycetota

Revision editor(s): Folakunmi

Experiment 3

Your review change was submittedDuplicate this Experiment Add a new Signature

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

Curated date: 2021/07/13

Curator: Madhubani Dey

Revision editor(s): WikiWorks, Madhubani Dey, Aiyshaaaa, 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 Control	Links
Pseudomonadota
Actinomycetota

Revision editor(s): Folakunmi

Signature 2