Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome
The intersection between the human oral microbiome and oral health is an emerging area of study which has gained momentum over the last decade. This momentum has motivated a search for associations between the oral microbiome and oral cancer, in hopes of identifying possible biomarkers that facilita...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2022-10-01
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| Series: | Frontiers in Microbiology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2022.968304/full |
| _version_ | 1811252155234910208 |
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| author | Tabitha K. Peter Miyuraj H. H. Withanage Carissa L. Comnick Chandler Pendleton Shareef Dabdoub Shareef Dabdoub Sukirth Ganesan Sukirth Ganesan David Drake Jeffrey Banas Jeffrey Banas Xian Jin Xie Xian Jin Xie Xian Jin Xie Erliang Zeng Erliang Zeng Erliang Zeng |
| author_facet | Tabitha K. Peter Miyuraj H. H. Withanage Carissa L. Comnick Chandler Pendleton Shareef Dabdoub Shareef Dabdoub Sukirth Ganesan Sukirth Ganesan David Drake Jeffrey Banas Jeffrey Banas Xian Jin Xie Xian Jin Xie Xian Jin Xie Erliang Zeng Erliang Zeng Erliang Zeng |
| author_sort | Tabitha K. Peter |
| collection | DOAJ |
| description | The intersection between the human oral microbiome and oral health is an emerging area of study which has gained momentum over the last decade. This momentum has motivated a search for associations between the oral microbiome and oral cancer, in hopes of identifying possible biomarkers that facilitate earlier diagnosis and improved prognosis for patients with that disease. The present study examined the relationship between the microbiome in the human oral cavity and oral squamous cell carcinoma (OSCC). We searched the literature for case-control studies which focused on the relationship between the human oral microbiome and OSCC. We aggregated three types of data from these studies: bacteriome data at the genus level, predicted functional pathway data, and gene abundance data. From these data, we noted several microbial genera which may be associated with oral cancer status, including Fusobacterium. We also identified functional pathways which merit further investigation, including RNA degradation (ko03018) and primary immunodeficiency (ko05340). In addition, our analysis of gene abundance data identified the gene K06147 (ATP-binding cassette, subfamily B, bacterial) as being over abundant in OSCC samples. Our results are generalizations which identified some currents that we believe could guide further research. Our work faced several limitations related to the heterogeneity of the available data. Wide variation in methods for sample collection, methods for controlling for known behavioral risk factors, computing platform choice, and methods for case-control design all posed confounding factors in this work. We examined the current methods of data collection, data processing, and data reporting in order to offer suggestions toward the establishment of best practices within this field. We propose that these limitations should be addressed through the implementation of standardized data analytic practices that will conform to the rigor and reproducibility standards required of publicly funded research. |
| first_indexed | 2024-04-12T16:29:45Z |
| format | Article |
| id | doaj.art-fdbc7813d1964521b84319de76ccc2e2 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-04-12T16:29:45Z |
| publishDate | 2022-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-fdbc7813d1964521b84319de76ccc2e22022-12-22T03:25:11ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2022-10-011310.3389/fmicb.2022.968304968304Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiomeTabitha K. Peter0Miyuraj H. H. Withanage1Carissa L. Comnick2Chandler Pendleton3Shareef Dabdoub4Shareef Dabdoub5Sukirth Ganesan6Sukirth Ganesan7David Drake8Jeffrey Banas9Jeffrey Banas10Xian Jin Xie11Xian Jin Xie12Xian Jin Xie13Erliang Zeng14Erliang Zeng15Erliang Zeng16Division of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesDivision of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesDivision of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesDivision of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesDivision of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesCollege of Dentistry, Iowa Institute for Oral Health Research, University of Iowa, Iowa City, IA, United StatesCollege of Dentistry, Iowa Institute for Oral Health Research, University of Iowa, Iowa City, IA, United StatesDepartment of Periodontics, College of Dentistry, University of Iowa, Iowa City, IA, United StatesCollege of Dentistry, Iowa Institute for Oral Health Research, University of Iowa, Iowa City, IA, United StatesCollege of Dentistry, Iowa Institute for Oral Health Research, University of Iowa, Iowa City, IA, United StatesDepartment of Pediatric Dentistry, College of Dentistry, University of Iowa, Iowa City, IA, United StatesDivision of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesCollege of Dentistry, Iowa Institute for Oral Health Research, University of Iowa, Iowa City, IA, United StatesDepartment of Preventative and Community Dentistry, College of Dentistry, University of Iowa, Iowa City, IA, United StatesDivision of Biostatistics and Computational Biology, College of Dentistry, University of Iowa, Iowa City, IA, United StatesCollege of Dentistry, Iowa Institute for Oral Health Research, University of Iowa, Iowa City, IA, United StatesDepartment of Preventative and Community Dentistry, College of Dentistry, University of Iowa, Iowa City, IA, United StatesThe intersection between the human oral microbiome and oral health is an emerging area of study which has gained momentum over the last decade. This momentum has motivated a search for associations between the oral microbiome and oral cancer, in hopes of identifying possible biomarkers that facilitate earlier diagnosis and improved prognosis for patients with that disease. The present study examined the relationship between the microbiome in the human oral cavity and oral squamous cell carcinoma (OSCC). We searched the literature for case-control studies which focused on the relationship between the human oral microbiome and OSCC. We aggregated three types of data from these studies: bacteriome data at the genus level, predicted functional pathway data, and gene abundance data. From these data, we noted several microbial genera which may be associated with oral cancer status, including Fusobacterium. We also identified functional pathways which merit further investigation, including RNA degradation (ko03018) and primary immunodeficiency (ko05340). In addition, our analysis of gene abundance data identified the gene K06147 (ATP-binding cassette, subfamily B, bacterial) as being over abundant in OSCC samples. Our results are generalizations which identified some currents that we believe could guide further research. Our work faced several limitations related to the heterogeneity of the available data. Wide variation in methods for sample collection, methods for controlling for known behavioral risk factors, computing platform choice, and methods for case-control design all posed confounding factors in this work. We examined the current methods of data collection, data processing, and data reporting in order to offer suggestions toward the establishment of best practices within this field. We propose that these limitations should be addressed through the implementation of standardized data analytic practices that will conform to the rigor and reproducibility standards required of publicly funded research.https://www.frontiersin.org/articles/10.3389/fmicb.2022.968304/fulloral canceroral microbiomeoral squamous cell carcinomaoral healthFusobacteriumABC transport |
| spellingShingle | Tabitha K. Peter Miyuraj H. H. Withanage Carissa L. Comnick Chandler Pendleton Shareef Dabdoub Shareef Dabdoub Sukirth Ganesan Sukirth Ganesan David Drake Jeffrey Banas Jeffrey Banas Xian Jin Xie Xian Jin Xie Xian Jin Xie Erliang Zeng Erliang Zeng Erliang Zeng Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome Frontiers in Microbiology oral cancer oral microbiome oral squamous cell carcinoma oral health Fusobacterium ABC transport |
| title | Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome |
| title_full | Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome |
| title_fullStr | Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome |
| title_full_unstemmed | Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome |
| title_short | Systematic review and meta-analysis of oral squamous cell carcinoma associated oral microbiome |
| title_sort | systematic review and meta analysis of oral squamous cell carcinoma associated oral microbiome |
| topic | oral cancer oral microbiome oral squamous cell carcinoma oral health Fusobacterium ABC transport |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2022.968304/full |
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