Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection
Background and objectivesDisease severity and prognosis of coronavirus disease 2019 (COVID-19) disease with other viral infections can be affected by the oropharyngeal microbiome. However, limited research had been carried out to uncover how these diseases are differentially affected by the orophary...
| Main Authors: | , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-06-01
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| Series: | Frontiers in Cellular and Infection Microbiology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fcimb.2023.1161763/full |
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| author | Sifen Lu Yongzhao Zhou Ya Hu Jing Wang Honghao Li Yifei Lin Denian Wang Jinghong Xian Shengmei Zhao Jinmin Ma Zhongyi Zhu Shengying Yang Qinghui Meng Yulin Kang Bojiang Chen Weimin Li Weimin Li |
| author_facet | Sifen Lu Yongzhao Zhou Ya Hu Jing Wang Honghao Li Yifei Lin Denian Wang Jinghong Xian Shengmei Zhao Jinmin Ma Zhongyi Zhu Shengying Yang Qinghui Meng Yulin Kang Bojiang Chen Weimin Li Weimin Li |
| author_sort | Sifen Lu |
| collection | DOAJ |
| description | Background and objectivesDisease severity and prognosis of coronavirus disease 2019 (COVID-19) disease with other viral infections can be affected by the oropharyngeal microbiome. However, limited research had been carried out to uncover how these diseases are differentially affected by the oropharyngeal microbiome of the patient. Here, we aimed to explore the characteristics of the oropharyngeal microbiota of COVID-19 patients and compare them with those of patients with similar symptoms.MethodsCOVID-19 was diagnosed in patients through the detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) by quantitative reverse transcription polymerase chain reaction (RT-qPCR). Characterization of the oropharyngeal microbiome was performed by metatranscriptomic sequencing analyses of oropharyngeal swab specimens from 144 COVID-19 patients, 100 patients infected with other viruses, and 40 healthy volunteers.ResultsThe oropharyngeal microbiome diversity in patients with SARS-CoV-2 infection was different from that of patients with other infections. Prevotella and Aspergillus could play a role in the differentiation between patients with SARS-CoV-2 infection and patients with other infections. Prevotella could also influence the prognosis of COVID-19 through a mechanism that potentially involved the sphingolipid metabolism regulation pathway.ConclusionThe oropharyngeal microbiome characterization was different between SARS-CoV-2 infection and infections caused by other viruses. Prevotella could act as a biomarker for COVID-19 diagnosis and of host immune response evaluation in SARS-CoV-2 infection. In addition, the cross-talk among Prevotella, SARS-CoV-2, and sphingolipid metabolism pathways could provide a basis for the precise diagnosis, prevention, control, and treatment of COVID-19. |
| first_indexed | 2024-03-13T07:56:14Z |
| format | Article |
| id | doaj.art-867645ae4dc347debb3da6c0f7f5448f |
| institution | Directory Open Access Journal |
| issn | 2235-2988 |
| language | English |
| last_indexed | 2024-03-13T07:56:14Z |
| publishDate | 2023-06-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cellular and Infection Microbiology |
| spelling | doaj.art-867645ae4dc347debb3da6c0f7f5448f2023-06-02T05:03:04ZengFrontiers Media S.A.Frontiers in Cellular and Infection Microbiology2235-29882023-06-011310.3389/fcimb.2023.11617631161763Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infectionSifen Lu0Yongzhao Zhou1Ya Hu2Jing Wang3Honghao Li4Yifei Lin5Denian Wang6Jinghong Xian7Shengmei Zhao8Jinmin Ma9Zhongyi Zhu10Shengying Yang11Qinghui Meng12Yulin Kang13Bojiang Chen14Weimin Li15Weimin Li16Precision Medicine Key Laboratory of Sichuan Province and Precision Medicine Center, West China Hospital, Sichuan University, Chengdu, Sichuan, ChinaDepartment of Integrated Care Management Center, Frontier Science Center of Disease Molecular Network, West China Hospital, Sichuan University, Chengdu, ChinaCenter of Infectious Diseases, West China Hospital, Sichuan University, Chengdu, ChinaPrecision Medicine Key Laboratory of Sichuan Province and Precision Medicine Center, West China Hospital, Sichuan University, Chengdu, Sichuan, ChinaDepartment of Hospital Management, West China Hospital, Sichuan University, Chengdu, ChinaPrecision Medicine Key Laboratory of Sichuan Province and Precision Medicine Center, West China Hospital, Sichuan University, Chengdu, Sichuan, ChinaPrecision Medicine Key Laboratory of Sichuan Province and Precision Medicine Center, West China Hospital, Sichuan University, Chengdu, Sichuan, ChinaDepartment of Clinical Research Management, West China Hospital, Sichuan University, Chengdu, ChinaDepartment of Clinical Research Management, West China Hospital, Sichuan University, Chengdu, ChinaBeijing Genomics Institution (BGI)-PathoGenesis Pharmaceutical Technology, Beijing Genomics Institution (BGI)-Shenzhen, Shenzhen, ChinaBeijing Genomics Institution (BGI)-PathoGenesis Pharmaceutical Technology, Beijing Genomics Institution (BGI)-Shenzhen, Shenzhen, ChinaDepartment of Computer and Software, Jincheng College of Chengdu, Chengdu, ChinaBeijing Milu Ecological Research Center, Beijing Research Institute of Science and Technology, Beijing, ChinaInstitute of Environmental Information, Chinese Research academy of Environmental Sciences, Beijing, ChinaPrecision Medicine Key Laboratory of Sichuan Province and Precision Medicine Center, West China Hospital, Sichuan University, Chengdu, Sichuan, ChinaPrecision Medicine Key Laboratory of Sichuan Province and Precision Medicine Center, West China Hospital, Sichuan University, Chengdu, Sichuan, ChinaDepartment of Integrated Care Management Center, Frontier Science Center of Disease Molecular Network, West China Hospital, Sichuan University, Chengdu, ChinaBackground and objectivesDisease severity and prognosis of coronavirus disease 2019 (COVID-19) disease with other viral infections can be affected by the oropharyngeal microbiome. However, limited research had been carried out to uncover how these diseases are differentially affected by the oropharyngeal microbiome of the patient. Here, we aimed to explore the characteristics of the oropharyngeal microbiota of COVID-19 patients and compare them with those of patients with similar symptoms.MethodsCOVID-19 was diagnosed in patients through the detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) by quantitative reverse transcription polymerase chain reaction (RT-qPCR). Characterization of the oropharyngeal microbiome was performed by metatranscriptomic sequencing analyses of oropharyngeal swab specimens from 144 COVID-19 patients, 100 patients infected with other viruses, and 40 healthy volunteers.ResultsThe oropharyngeal microbiome diversity in patients with SARS-CoV-2 infection was different from that of patients with other infections. Prevotella and Aspergillus could play a role in the differentiation between patients with SARS-CoV-2 infection and patients with other infections. Prevotella could also influence the prognosis of COVID-19 through a mechanism that potentially involved the sphingolipid metabolism regulation pathway.ConclusionThe oropharyngeal microbiome characterization was different between SARS-CoV-2 infection and infections caused by other viruses. Prevotella could act as a biomarker for COVID-19 diagnosis and of host immune response evaluation in SARS-CoV-2 infection. In addition, the cross-talk among Prevotella, SARS-CoV-2, and sphingolipid metabolism pathways could provide a basis for the precise diagnosis, prevention, control, and treatment of COVID-19.https://www.frontiersin.org/articles/10.3389/fcimb.2023.1161763/fullCOVID-19Prevotellametatranscriptomic sequencingoropharyngeal microbiomeSARS-CoV-2 infectionsphingolipid metabolism |
| spellingShingle | Sifen Lu Yongzhao Zhou Ya Hu Jing Wang Honghao Li Yifei Lin Denian Wang Jinghong Xian Shengmei Zhao Jinmin Ma Zhongyi Zhu Shengying Yang Qinghui Meng Yulin Kang Bojiang Chen Weimin Li Weimin Li Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection Frontiers in Cellular and Infection Microbiology COVID-19 Prevotella metatranscriptomic sequencing oropharyngeal microbiome SARS-CoV-2 infection sphingolipid metabolism |
| title | Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection |
| title_full | Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection |
| title_fullStr | Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection |
| title_full_unstemmed | Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection |
| title_short | Metatranscriptomic analysis revealed Prevotella as a potential biomarker of oropharyngeal microbiomes in SARS-CoV-2 infection |
| title_sort | metatranscriptomic analysis revealed prevotella as a potential biomarker of oropharyngeal microbiomes in sars cov 2 infection |
| topic | COVID-19 Prevotella metatranscriptomic sequencing oropharyngeal microbiome SARS-CoV-2 infection sphingolipid metabolism |
| url | https://www.frontiersin.org/articles/10.3389/fcimb.2023.1161763/full |
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