Metatranscriptome analysis in human papillomavirus negative cervical cancers
Abstract Human papillomavirus (HPV) negative cancers are associated with symptomatic detection, late-stage diagnosis, and worse prognosis. It is thus essential to investigate all possible infectious agents and biomarkers that could early identify these HPV negative cancers. We aimed to analyze and c...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2022-09-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-022-19008-8 |
| _version_ | 1818064794592215040 |
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| author | Agustin Enrique Ure Camilla Lagheden Laila Sara Arroyo Mühr |
| author_facet | Agustin Enrique Ure Camilla Lagheden Laila Sara Arroyo Mühr |
| author_sort | Agustin Enrique Ure |
| collection | DOAJ |
| description | Abstract Human papillomavirus (HPV) negative cancers are associated with symptomatic detection, late-stage diagnosis, and worse prognosis. It is thus essential to investigate all possible infectious agents and biomarkers that could early identify these HPV negative cancers. We aimed to analyze and compare the metatranscriptome present in HPV positive and HPV negative cervical cancers. We analyzed the whole RNA sequencing files from 223 HPV negative cervical cancers (negativity established after confirming cervical cancer diagnosis, sample adequacy and subjecting specimens to PCR and unbiased RNA sequencing), 223 HPV positive tumors and 11 blank paraffin block pools (used as controls) using Kraken2 software. Overall, 84 bacterial genera were detected, with 6/84 genera showing a positive median number of reads/sample and being present in both cervical tumor groups (HPV positive and negative). Viral reads belonged to 63 different viral genera, with 6/63 genera showing a positive median annotated read/sample value. No significant difference among genera was detected except for the presence of alpha-papillomaviruses. Metatranscriptome of bacteria and viruses present in HPV positive and HPV negative cervical cancers show no significant difference, except for HPV. Further studies are needed to early identify this biologically distinct group of cervical cancers. |
| first_indexed | 2024-12-10T14:41:40Z |
| format | Article |
| id | doaj.art-aa7526248eca4ddb8c779701cd96b68a |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-10T14:41:40Z |
| publishDate | 2022-09-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-aa7526248eca4ddb8c779701cd96b68a2022-12-22T01:44:40ZengNature PortfolioScientific Reports2045-23222022-09-011211810.1038/s41598-022-19008-8Metatranscriptome analysis in human papillomavirus negative cervical cancersAgustin Enrique Ure0Camilla Lagheden1Laila Sara Arroyo Mühr2Department of Laboratory Medicine, Karolinska InstitutetDepartment of Laboratory Medicine, Karolinska InstitutetDepartment of Laboratory Medicine, Karolinska InstitutetAbstract Human papillomavirus (HPV) negative cancers are associated with symptomatic detection, late-stage diagnosis, and worse prognosis. It is thus essential to investigate all possible infectious agents and biomarkers that could early identify these HPV negative cancers. We aimed to analyze and compare the metatranscriptome present in HPV positive and HPV negative cervical cancers. We analyzed the whole RNA sequencing files from 223 HPV negative cervical cancers (negativity established after confirming cervical cancer diagnosis, sample adequacy and subjecting specimens to PCR and unbiased RNA sequencing), 223 HPV positive tumors and 11 blank paraffin block pools (used as controls) using Kraken2 software. Overall, 84 bacterial genera were detected, with 6/84 genera showing a positive median number of reads/sample and being present in both cervical tumor groups (HPV positive and negative). Viral reads belonged to 63 different viral genera, with 6/63 genera showing a positive median annotated read/sample value. No significant difference among genera was detected except for the presence of alpha-papillomaviruses. Metatranscriptome of bacteria and viruses present in HPV positive and HPV negative cervical cancers show no significant difference, except for HPV. Further studies are needed to early identify this biologically distinct group of cervical cancers.https://doi.org/10.1038/s41598-022-19008-8 |
| spellingShingle | Agustin Enrique Ure Camilla Lagheden Laila Sara Arroyo Mühr Metatranscriptome analysis in human papillomavirus negative cervical cancers Scientific Reports |
| title | Metatranscriptome analysis in human papillomavirus negative cervical cancers |
| title_full | Metatranscriptome analysis in human papillomavirus negative cervical cancers |
| title_fullStr | Metatranscriptome analysis in human papillomavirus negative cervical cancers |
| title_full_unstemmed | Metatranscriptome analysis in human papillomavirus negative cervical cancers |
| title_short | Metatranscriptome analysis in human papillomavirus negative cervical cancers |
| title_sort | metatranscriptome analysis in human papillomavirus negative cervical cancers |
| url | https://doi.org/10.1038/s41598-022-19008-8 |
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