Salivary microbiome profiles for different clinical phenotypes of pituitary adenomas by single-molecular long-read sequencing

Study information

Reviewed Marked as Reviewed by Svetlana up on 2024-7-26

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

37800955

DOI Digital object identifier for electronic documents.

10.1128/spectrum.00234-23

URI

Authors

Ji X, Li P, Guo Q, Guan L, Gao P, Wu B, Cheng H, Xiao J, Ye L

Journal

Microbiology spectrum

Year

2023

Keywords:

clinical phenotype, diagnostics, pituitary adenomas, saliva microbiome

The gut and salivary microbiomes have been widely reported to be significantly associated with a number of neurological disorders. The stability of the microbiome in the oral cavity makes it a potentially ideal sample that can be conveniently obtained for the investigation of microbiome-based pathogenesis in diseases. In the present study, we used a single-molecule long-read sequencing technique to study the distribution of the salivary microbiota in patients with pituitary adenoma (PA) and healthy individuals, as well as among four clinical phenotypes of PA. We found that the diversity of salivary microbes was more abundant in PA patients than in healthy individuals. We also observed some unique genera in different PA phenotypes. The bioinformatics-based functional predictions identified potential links between microbes and different clinical phenotypes of PA. This study improves the existing understanding of the pathogenesis of PA and may provide diagnostic and therapeutic targets for PA.

Experiment 1

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Reviewed Marked as Reviewed by Svetlana up on 2024-7-26

Curated date: 2024/03/19

Curator: Scholastica

Revision editor(s): Scholastica

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: Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Pituitary Gland Adenoma adenoma of pituitary,adenoma of pituitary gland,adenoma of the pituitary,adenoma of the pituitary gland,adenoma, anterior lobe pituitary gland, benign,pituitary adenoma,pituitary gland adenoma,PTAD,Pituitary Gland Adenoma,pituitary Gland Adenoma

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: Patients with pituitary adenomas (PA)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Patients with pituitary adenomas (PA) which included four clinical phenotypes: adrenocorticotropic hormone-secreting PA (n = 6), growth hormone-secreting PA (n = 9), prolactin-secreting PA (n = 18), and nonfunctioning PA (n = 9)

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: 42

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: Not specified

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: PacBio RS

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

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

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

Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample: unchanged

Signature 1

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Curated date: 2024/03/19

Curator: Scholastica

Revision editor(s): Scholastica

Source: Fig 2D

Description: Differential abundance of microbes in patients with pituitary adenomas (PA) versus healthy individual

Abundance in Group 1: increased abundance in Patients with pituitary adenomas (PA)

NCBI	Quality Control	Links
Actinomyces
Arachnia
Butyrivibrio
Cardiobacterium
Corynebacterium
Lancefieldella
Mogibacterium
Oribacterium
Peptostreptococcus
Porphyromonas
Rothia
Schaalia
Shuttleworthella
Tannerella

Revision editor(s): Scholastica

Signature 2

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Reviewed Marked as Reviewed by Svetlana up on 2024-7-26

Curated date: 2024/03/19

Curator: Scholastica

Revision editor(s): Scholastica

Source: Fig 2D

Description: Differential abundance of microbes in patients with pituitary adenomas (PA) versus healthy individual

Abundance in Group 1: decreased abundance in Patients with pituitary adenomas (PA)

NCBI	Quality Control	Links
Aggregatibacter
Alloprevotella
Bacteroides
Bergeyella
Campylobacter
Casaltella
Centipeda
Dialister
Fusobacterium
Haemophilus
Klebsiella
Megasphaera
Neisseria
Prevotellamassilia
Shigella
Simonsiella
Veillonella

Revision editor(s): Scholastica