White-nose syndrome restructures bat skin microbiomes/Experiment 2

EditHistoryDelete

Flag for review

Your review change was submittedDuplicate this ExperimentAdd a new Signature

Reviewed Marked as Reviewed by Svetlana up on 2024-6-25

Curated date: 2024/03/21

Curator: MyleeeA

Revision editor(s): MyleeeA

Subjects

Location of subjects

United States of America

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

Perimyotis subflavus

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology

Skin epidermis Epidermis,Skin,Vertebrate epidermis,Skin epidermis,skin epidermis

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Fungal infectious disease fungal infection,Fungi caused disease or disorder,Fungi disease or disorder,Fungi infection,Fungi infectious disease,infection, fungal,infections, Fungi,mycoses,mycosis,Fungal infectious disease,fungal infectious disease

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

Pseudogymnoascus Destructans (PD) Negative

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

Pseudogymnoascus Destructans (PD) positive

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

Perimyotis subflavus Bats species infected with Pseudogymnoascus destructans (Pd).

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

43

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

95

Lab analysis

Sequencing type

ITS / ITS2

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

Not specified

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

LEfSe

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)?

No

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool

2

Alpha Diversity

Pielou Quantifies how equal the community is numerically

increased

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

increased

Richness Number of species

decreased