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Case Report

Possible Intraindividual Evolution of SARS-CoV-2 in Nasopharyngeal and Anal Swab in an Octogenarian: A Case Report

by
Jamal Zaini
1,*,
Andika Chandra Putra
2,3,
Asep Muhamad Ridwanuloh
4,
Zahrah Saniyyah
2,
Budi Haryanto
5,
Ahmad Rusdan Handoyo Utomo
6,7,
Anik Budhi Dharmayanthi
4,
Anggia Prasetyoputri
4,
Ade Andriani
4,
Hariyatun Hariyatun
4,
Isa Nuryana
4,
Syam Budi Iryanto
4,
Sugiyono Saputra
4,
Andri Wardiana
4 and
Ratih Asmana Ningrum
4
1
Department of Pulmonology and Respiratory Medicine, Faculty of Medicine, Universitas Indonesia, Persahabatan National Respiratory Referral Hospital, Jakarta Timur 13230, Indonesia
2
Faculty of Medicine, Universitas Yarsi, Jakarta Pusat 10510, Indonesia
3
Persahabatan National Respiratory Referral Hospital, Jakarta Timur 13230, Indonesia
4
National Research and Innovation Agency Republic of Indonesia, Jalan Raya Bogor KM 46 Cibinong, Bogor 16911, Jawa Barat, Indonesia
5
Department of Microbiology, Persahabatan National Respiratory Referral Hospital, Jakarta Timur 13230, Indonesia
6
Graduate School of Biomedical Science Master Program, Universitas Yarsi, 10510, Jakarta Pusat, Indonesia
7
Dharmais Hospital National Cancer Center, Jakarta 11480, Indonesia
*
Author to whom correspondence should be addressed.
GERMS 2022, 12(2), 298-303; https://doi.org/10.18683/germs.2022.1332
Submission received: 11 November 2021 / Revised: 30 April 2022 / Accepted: 20 May 2022 / Published: 30 June 2022

Abstract

Introduction: COVID-19 is an emerging infectious disease that remains to be further investigated. Case report: Here, we describe a case of COVID-19 in an octogenarian woman with comorbidities who slowly recovered during hospitalization, but died due to sudden cardiac death after 2 weeks of hospitalization. Her nasopharyngeal and anal swabs returned positive for SARS-CoV-2 by RT-PCR on day 7 of hospitalization. The NGS showed possible intraindividual evolution of virus. The sample from the nasopharyngeal swab yielded a B.1470 variant classified as clade GH. This variant showed mutation in the spike gene D614G; N gene; NS3 gene; NSP2 gene and NSP12 gene. The sample from the anal swab showed similar mutation but with additional point mutation in spike gene S12F and was classified as B.1.465 variant. Conclusions: The possibility of the gastrointestinal tract that served as reservoir for virus mutation accumulation should also be considered and the potential impact of viral fecal transmission in the environment should be further investigated.
Keywords: SARS-CoV-2; evolution; anal swab; octogenarian SARS-CoV-2; evolution; anal swab; octogenarian

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MDPI and ACS Style

Zaini, J.; Putra, A.C.; Ridwanuloh, A.M.; Saniyyah, Z.; Haryanto, B.; Utomo, A.R.H.; Dharmayanthi, A.B.; Prasetyoputri, A.; Andriani, A.; Hariyatun, H.; et al. Possible Intraindividual Evolution of SARS-CoV-2 in Nasopharyngeal and Anal Swab in an Octogenarian: A Case Report. GERMS 2022, 12, 298-303. https://doi.org/10.18683/germs.2022.1332

AMA Style

Zaini J, Putra AC, Ridwanuloh AM, Saniyyah Z, Haryanto B, Utomo ARH, Dharmayanthi AB, Prasetyoputri A, Andriani A, Hariyatun H, et al. Possible Intraindividual Evolution of SARS-CoV-2 in Nasopharyngeal and Anal Swab in an Octogenarian: A Case Report. GERMS. 2022; 12(2):298-303. https://doi.org/10.18683/germs.2022.1332

Chicago/Turabian Style

Zaini, Jamal, Andika Chandra Putra, Asep Muhamad Ridwanuloh, Zahrah Saniyyah, Budi Haryanto, Ahmad Rusdan Handoyo Utomo, Anik Budhi Dharmayanthi, Anggia Prasetyoputri, Ade Andriani, Hariyatun Hariyatun, and et al. 2022. "Possible Intraindividual Evolution of SARS-CoV-2 in Nasopharyngeal and Anal Swab in an Octogenarian: A Case Report" GERMS 12, no. 2: 298-303. https://doi.org/10.18683/germs.2022.1332

APA Style

Zaini, J., Putra, A. C., Ridwanuloh, A. M., Saniyyah, Z., Haryanto, B., Utomo, A. R. H., Dharmayanthi, A. B., Prasetyoputri, A., Andriani, A., Hariyatun, H., Nuryana, I., Iryanto, S. B., Saputra, S., Wardiana, A., & Ningrum, R. A. (2022). Possible Intraindividual Evolution of SARS-CoV-2 in Nasopharyngeal and Anal Swab in an Octogenarian: A Case Report. GERMS, 12(2), 298-303. https://doi.org/10.18683/germs.2022.1332

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