Changes of saliva microbiota in nasopharyngeal carcinoma patients under chemoradiation therapy

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Reviewed Marked as Reviewed by Folakunmi on 2024-1-9

study design

case-control
time series / longitudinal observational

Citation

PMID PubMed identifier for scientific articles.

24370189

DOI Digital object identifier for electronic documents.

https://doi.org/10.1016/j.archoralbio.2013.10.011

URI

https://www.sciencedirect.com/science/article/abs/pii/S0003996913003282?via%3Dihub

Authors

Xu Y, Teng F, Huang S, Lin Z, Yuan X, Zeng X, Yang F

Journal

Archives of oral biology

Year

2014

Keywords:

Nasopharyngeal carcinoma, Oral microbiota, Pyrosequencing, Radiation therapy, Saliva

OBJECTIVE: A growing body of evidence has implicated human oral microbiota in the aetiology of oral and systemic diseases. Nasopharyngeal carcinoma (NPC), an epithelial-originated malignancy, has a complex aetiology not yet fully understood. Chemoradiation therapy of NPC can affect oral microbiota and is usually accompanied by plaque accumulation. Thus, the study aimed to understand the diversity, divergence and development of the oral microbiota in NPC patients and their associated treatment, which might provide useful insights into disease aetiology and treatment side effects. DESIGN: A longitudinal study was designed that included three Chinese adults with NPC. Saliva samples were collected at three time points: prior to the chemoradiation treatment (carcinoma baseline, or CB), 7 months post-treatment (carcinoma-after-therapy phase 1 or CA1) and 12 months post-treatment (carcinoma-after-therapy phase 2 or CA2). Pyrosequencing of the bacterial 16S ribosomal DNA (rDNA) V1-V3 hypervariable region was employed to characterise the microbiota. Saliva samples of three healthy subjects from our former study were employed as healthy controls. Principal coordinates analysis (PCoA), Metastats and random forest prediction models were used to reveal the key microbial members associated with NPC and its treatment programme. RESULTS: (1) In total, 412 bacterial species from at least 107 genera and 13 phyla were found in the saliva samples of the NPC patients. (2) PCoA revealed that not only were the microbiota from NPC patients distinct from those of healthy controls (p<0.001) but also that separation was found on the saliva microbiota between pre- and post-therapy (p<0.001) in the NPC samples. (3) At the genus level and the operational taxonomic unit (OTU) level, Streptococcus was found with lower abundance in NPC samples. (4) Chemoradiation therapy did not incur similar changes in microbiota structure among the three NPC patients; the microbiota in one of them stayed largely steady, while those in the other two showed significant alteration. CONCLUSIONS: This is the first study employing culture-independent techniques to interrogate the phylogenetic diversity, divergence and temporal development of oral microbiota in NPC patients. Our results indicated that certain bacterial taxa might be associated with NPC and that oral microbiota of NPC patients might respond to the chemoradiation therapy in a host-specific manner. Further investigation with larger sample size should help to validate the links between oral microbiota and NPC.

Experiment 1

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Curated date: 2023/08/30

Curator: Andre

Revision editor(s): Andre, Folakunmi, WikiWorks

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

Nasopharyngeal squamous cell carcinoma nasopharyngeal squamous cell carcinoma,Nasopharyngeal squamous cell carcinoma

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

Healthy controls at Baseline

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

Nasopharyngeal carcinoma patients at baseline

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

Patients who have not received treatment yet

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

3

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

3

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

30 days

Lab analysis

Sequencing type

16S

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

V1-V3

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

Roche454

Statistical Analysis

Statistical test

Metastats

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

unchanged

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

unchanged

Signature 1

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Source: Table 3

Description: Genus level comparison of the organismal composition of the saliva microbiota between Cancer patients and control groups at baseline via Metastas analysis.

Abundance in Group 1: increased abundance in Nasopharyngeal carcinoma patients at baseline

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Leptotrichia
Neisseria
Pseudomonadota
Pseudomonas

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Signature 2

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Source: Table 3

Description: Genus level comparison of the organismal composition of the saliva microbiota between Cancer patients and control groups at baseline via Metastas analysis.

Abundance in Group 1: decreased abundance in Nasopharyngeal carcinoma patients at baseline

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Streptococcus
Bacillota

Revision editor(s): Andre, WikiWorks

Experiment 2

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Differences from previous experiment shown

Subjects

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

Nasopharyngeal carcinoma patients at baseline

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

Nasopharyngeal carcinoma patients after treatment

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

Patients who have received treatment after 7 or 12 months

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

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Curated date: 2023/08/30

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Revision editor(s): Andre, Folakunmi, WikiWorks

Source: Figure 3 and within results text (under taxonomy-based characterisation of saliva microbiota, paragraph 4)

Description: Alteration of saliva microbiota between pretreatment (CB) and post-treatment (CA1 or CA2) in each patient.

Abundance in Group 1: increased abundance in Nasopharyngeal carcinoma patients after treatment

NCBI	Quality Control	Links
Streptococcus
Veillonella

Revision editor(s): Andre, Folakunmi, WikiWorks

Signature 2

EditHistoryDelete

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Reviewed Marked as Reviewed by Folakunmi on 2024-1-9

Curated date: 2023/08/30

Curator: Andre

Revision editor(s): Andre, Folakunmi, WikiWorks

Source: Figure 3 and within results text (under taxonomy-based characterisation of saliva microbiota, paragraph 4)

Description: Alteration of saliva microbiota between pretreatment (CB) and post-treatment (CA1 or CA2) in each patient.

Abundance in Group 1: decreased abundance in Nasopharyngeal carcinoma patients after treatment

NCBI	Quality Control	Links
Neisseria
Prevotella

Revision editor(s): Andre, Folakunmi, WikiWorks