Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection
Recent research suggests that dysbiosis of the oral microbial community is associated with head and neck cancer (HNC). It remains unclear whether this dysbiosis causes chemo-radiotherapy (CRT)-related complications. However, to address this question, it is essential to determine the most representat...
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MDPI AG
2022-12-01
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| Series: | Pathogens |
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| Online Access: | https://www.mdpi.com/2076-0817/11/12/1550 |
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| author | Dheeraj Pandey Michal Szczesniak Julia Maclean Howard Chi Ho Yim Fan Zhang Peter Graham Emad M. El-Omar Peter Wu |
| author_facet | Dheeraj Pandey Michal Szczesniak Julia Maclean Howard Chi Ho Yim Fan Zhang Peter Graham Emad M. El-Omar Peter Wu |
| author_sort | Dheeraj Pandey |
| collection | DOAJ |
| description | Recent research suggests that dysbiosis of the oral microbial community is associated with head and neck cancer (HNC). It remains unclear whether this dysbiosis causes chemo-radiotherapy (CRT)-related complications. However, to address this question, it is essential to determine the most representative oral site for microbiome sampling. In this study, our purpose was to determine the optimal site for oral sample collection and whether the presence of HNC is associated with altered oral microbiome from this site. In 21 newly diagnosed HNC patients and 27 healthy controls, microbiome samples were collected from saliva, swabs from buccal mucosa, tongue, hard palate, faucial pillars and all mucosal sites combined. Microbial DNA was extracted and underwent 16S rRNA amplicon gene sequencing. In healthy controls, analysis of observed taxonomic units detected differences in alpha- and beta-diversity between sampling sites. Saliva was found to have the highest intra-community microbial diversity and lowest within-subject (temporal) and between-subject variance. Feature intersection showed that most species were shared between all sites, with saliva demonstrating the most unique species as well as highest overlap with other sites. In HNC patients, saliva was found to have the highest diversity but differences between sites were not statistically significant. Across all sites, HNC patients had lower alpha diversity than healthy controls. Beta-diversity analysis showed HNC patients’ microbiome to be compositionally distinct from healthy controls. This pattern was confirmed when the salivary microbiome was considered alone. HNC patients exhibited reduced diversity of the oral microbiome. Salivary samples demonstrate temporal stability, have the richest diversity and are sufficient to detect perturbation due to presence of HNC. Hence, they can be used as representative oral samples for microbiome studies in HNC patients. |
| first_indexed | 2024-03-09T15:59:52Z |
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| institution | Directory Open Access Journal |
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| language | English |
| last_indexed | 2024-03-09T15:59:52Z |
| publishDate | 2022-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Pathogens |
| spelling | doaj.art-f38ce165e13e4ee784a73bf5b7d9388e2023-11-24T17:14:39ZengMDPI AGPathogens2076-08172022-12-011112155010.3390/pathogens11121550Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome CollectionDheeraj Pandey0Michal Szczesniak1Julia Maclean2Howard Chi Ho Yim3Fan Zhang4Peter Graham5Emad M. El-Omar6Peter Wu7St George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaSt George and Sutherland Clinical Campuses, School of Clinical Medicine, University of New South Wales, Sydney 2052, AustraliaRecent research suggests that dysbiosis of the oral microbial community is associated with head and neck cancer (HNC). It remains unclear whether this dysbiosis causes chemo-radiotherapy (CRT)-related complications. However, to address this question, it is essential to determine the most representative oral site for microbiome sampling. In this study, our purpose was to determine the optimal site for oral sample collection and whether the presence of HNC is associated with altered oral microbiome from this site. In 21 newly diagnosed HNC patients and 27 healthy controls, microbiome samples were collected from saliva, swabs from buccal mucosa, tongue, hard palate, faucial pillars and all mucosal sites combined. Microbial DNA was extracted and underwent 16S rRNA amplicon gene sequencing. In healthy controls, analysis of observed taxonomic units detected differences in alpha- and beta-diversity between sampling sites. Saliva was found to have the highest intra-community microbial diversity and lowest within-subject (temporal) and between-subject variance. Feature intersection showed that most species were shared between all sites, with saliva demonstrating the most unique species as well as highest overlap with other sites. In HNC patients, saliva was found to have the highest diversity but differences between sites were not statistically significant. Across all sites, HNC patients had lower alpha diversity than healthy controls. Beta-diversity analysis showed HNC patients’ microbiome to be compositionally distinct from healthy controls. This pattern was confirmed when the salivary microbiome was considered alone. HNC patients exhibited reduced diversity of the oral microbiome. Salivary samples demonstrate temporal stability, have the richest diversity and are sufficient to detect perturbation due to presence of HNC. Hence, they can be used as representative oral samples for microbiome studies in HNC patients.https://www.mdpi.com/2076-0817/11/12/1550oral microbiomedysbiosishead and neck cancersalivary microbiomechemoradiation therapy |
| spellingShingle | Dheeraj Pandey Michal Szczesniak Julia Maclean Howard Chi Ho Yim Fan Zhang Peter Graham Emad M. El-Omar Peter Wu Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection Pathogens oral microbiome dysbiosis head and neck cancer salivary microbiome chemoradiation therapy |
| title | Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection |
| title_full | Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection |
| title_fullStr | Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection |
| title_full_unstemmed | Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection |
| title_short | Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection |
| title_sort | dysbiosis in head and neck cancer determining optimal sampling site for oral microbiome collection |
| topic | oral microbiome dysbiosis head and neck cancer salivary microbiome chemoradiation therapy |
| url | https://www.mdpi.com/2076-0817/11/12/1550 |
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