Profiles of subgingival microbiomes and gingival crevicular metabolic signatures in patients with amnestic mild cognitive impairment and Alzheimer's disease/Experiment 2
From BugSigDB
Needs review
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
- Lower first secondary molar tooth , Lower first secondary premolar tooth , Upper first secondary molar tooth , Central incisor tooth , Upper first secondary premolar tooth Lower first permanent molar tooth,Mandibular first secondary molar tooth,Lower first secondary molar tooth,lower first secondary molar tooth,Lower first permanent premolar tooth,Mandibular first secondary premolar tooth,Permanent first lower premolar tooth,Secondary first lower premolar tooth,Lower first secondary premolar tooth,lower first secondary premolar tooth,Maxillary first secondary molar tooth,Upper first permanent molar tooth,Upper first secondary molar tooth,upper first secondary molar tooth,Central incisor,Central incisor tooth,central incisor tooth,Maxillary first secondary premolar tooth,Permanent first upper premolar tooth,Secondary first upper premolar tooth,Upper first permanent premolar tooth,Upper first secondary premolar tooth,upper first secondary premolar tooth
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Alzheimer’s disease
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Amnestic mild cognitive impairment (aMCI)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with aMCI who met the previously published National Institute on Aging and Alzheimer’s Association criteria (2011) for “MCI due to AD,” with memory deficits as the only complaint of cognitive impairment.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 32
- Group 1 sample size Number of subjects in the case (exposed) group
- 32
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
Lab analysis
- Sequencing type
- 16S
- 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
- PacBio RS, RT-qPCR
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
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- 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
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- unchanged
Signature 1
Needs review
Source: Figure 3
Description:
Abundance in Group 1: increased abundance in Amnestic mild cognitive impairment (aMCI)
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomyces massiliensis | ||
| Leptotrichia buccalis |
Revision editor(s): Aananditaa
