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SARS-CoV-2 Molecular and Phylogenetic analysis in COVID-19 patients: A preliminary report from Iran.
Infect Genet Evol. 2020 10; 84:104387.IG

Abstract

BACKGROUND

The aim of the current study was to investigate and track the SARS-CoV-2 in Iranian Coronavirus Disease 2019 (COVID-19) patients using molecular and phylogenetic methods.

METHODS

We enrolled seven confirmed cases of COVID-19 patients for the phylogenetic assessment of the SARS-CoV-2 in Iran. The nsp-2, nsp-12, and S genes were amplified using one-step RT-PCR and sequenced using Sanger sequencing method. Popular bioinformatics software were used for sequences alignment and analysis as well as phylogenetic construction.

RESULTS

The mean age of the patients in the present study was 60.42 ± 9.94 years and 57.1% (4/7) were male. The results indicated high similarity between Iranian and Chinese strains. We could not find any particular polymorphisms in the assessed regions of the three genes. Phylogenetic trees by neighbor-joining and maximum likelihood method of nsp-2, nsp-12, and S genes showed that there are not any differences between Iranian isolates and those of other countries.

CONCLUSION

As a preliminary phylogenetic study in Iranian SARS-CoV-2 isolates, we found that these isolates are closely related to the Chinese and reference sequences. Also, no sensible differences were observed between Iranian isolates and those of other countries. Further investigations are recommended using more comprehensive methods and larger sample sizes.

Authors+Show Affiliations

Department of Virology, Iran University of Medical Sciences, Tehran, Iran.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Antimicrobial Resistant Research Center, Iran University of Medical Sciences, Tehran, Iran; Department of Infectious Diseases, Iran University of Medical Sciences, Tehran, Iran.Department of Virology, Iran University of Medical Sciences, Tehran, Iran.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Department of Virology, Iran University of Medical Sciences, Tehran, Iran; Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Antimicrobial Resistant Research Center, Iran University of Medical Sciences, Tehran, Iran; Department of Infectious Diseases, Iran University of Medical Sciences, Tehran, Iran.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran; Department of Pathology, Iran University of Medical Sciences, Tehran, Iran.Department of Social Medicine, School of Medicine, Zanjan University of Medical Sciences, Zanjan, Iran.Faculty of Science, Engineering and Computing, Kingston University, Kingston, United Kingdom.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran.Department of Nephrology, Firoozgar Hospital, Iran University of Medical Science, Tehran, Iran.School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran.Department of Virology, Iran University of Medical Sciences, Tehran, Iran; Gastrointestinal and Liver Diseases Research Center, Iran University of Medical Sciences, Tehran, Iran. Electronic address: karbalai.mh@iums.ac.ir.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

32485332

Citation

Tabibzadeh, Alireza, et al. "SARS-CoV-2 Molecular and Phylogenetic Analysis in COVID-19 Patients: a Preliminary Report From Iran." Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases, vol. 84, 2020, p. 104387.
Tabibzadeh A, Zamani F, Laali A, et al. SARS-CoV-2 Molecular and Phylogenetic analysis in COVID-19 patients: A preliminary report from Iran. Infect Genet Evol. 2020;84:104387.
Tabibzadeh, A., Zamani, F., Laali, A., Esghaei, M., Safarnezhad Tameshkel, F., Keyvani, H., Jamshidi Makiani, M., Panahi, M., Motamed, N., Perumal, D., Khoonsari, M., Ajdarkosh, H., Sohrabi, M., Ghanbari, B., Savaj, S., Mosavi-Jarrahi, A., & Karbalaie Niya, M. H. (2020). SARS-CoV-2 Molecular and Phylogenetic analysis in COVID-19 patients: A preliminary report from Iran. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases, 84, 104387. https://doi.org/10.1016/j.meegid.2020.104387
Tabibzadeh A, et al. SARS-CoV-2 Molecular and Phylogenetic Analysis in COVID-19 Patients: a Preliminary Report From Iran. Infect Genet Evol. 2020;84:104387. PubMed PMID: 32485332.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - SARS-CoV-2 Molecular and Phylogenetic analysis in COVID-19 patients: A preliminary report from Iran. AU - Tabibzadeh,Alireza, AU - Zamani,Farhad, AU - Laali,Azadeh, AU - Esghaei,Maryam, AU - Safarnezhad Tameshkel,Fahimeh, AU - Keyvani,Hossein, AU - Jamshidi Makiani,Mahin, AU - Panahi,Mahshid, AU - Motamed,Nima, AU - Perumal,Dhayaneethie, AU - Khoonsari,Mahmoodreza, AU - Ajdarkosh,Hossein, AU - Sohrabi,Masuodreza, AU - Ghanbari,Behrooz, AU - Savaj,Shokoufeh, AU - Mosavi-Jarrahi,Alireza, AU - Karbalaie Niya,Mohammad Hadi, Y1 - 2020/05/30/ PY - 2020/05/20/received PY - 2020/05/26/revised PY - 2020/05/27/accepted PY - 2020/6/3/pubmed PY - 2020/10/3/medline PY - 2020/6/3/entrez KW - COVID-19 KW - Pandemic KW - Phylogeny KW - Viral infection SP - 104387 EP - 104387 JF - Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases JO - Infect Genet Evol VL - 84 N2 - BACKGROUND: The aim of the current study was to investigate and track the SARS-CoV-2 in Iranian Coronavirus Disease 2019 (COVID-19) patients using molecular and phylogenetic methods. METHODS: We enrolled seven confirmed cases of COVID-19 patients for the phylogenetic assessment of the SARS-CoV-2 in Iran. The nsp-2, nsp-12, and S genes were amplified using one-step RT-PCR and sequenced using Sanger sequencing method. Popular bioinformatics software were used for sequences alignment and analysis as well as phylogenetic construction. RESULTS: The mean age of the patients in the present study was 60.42 ± 9.94 years and 57.1% (4/7) were male. The results indicated high similarity between Iranian and Chinese strains. We could not find any particular polymorphisms in the assessed regions of the three genes. Phylogenetic trees by neighbor-joining and maximum likelihood method of nsp-2, nsp-12, and S genes showed that there are not any differences between Iranian isolates and those of other countries. CONCLUSION: As a preliminary phylogenetic study in Iranian SARS-CoV-2 isolates, we found that these isolates are closely related to the Chinese and reference sequences. Also, no sensible differences were observed between Iranian isolates and those of other countries. Further investigations are recommended using more comprehensive methods and larger sample sizes. SN - 1567-7257 UR - https://www.unboundmedicine.com/medline/citation/32485332/SARS_CoV_2_Molecular_and_Phylogenetic_analysis_in_COVID_19_patients:_A_preliminary_report_from_Iran_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S1567-1348(20)30218-5 DB - PRIME DP - Unbound Medicine ER -