Complete genome sequencing of SARS-CoV-2 strains: A pilot survey in Palestine reveals spike mutation H245N

BMC Research Notes

Abedelmajeed Nasereddin¹  Suheir Ereqat²  Kamal Dumaidi³  Amer Al-Jawabreh⁴  Hanan Al-Jawabreh⁵ 

[1] Al-Quds Nutrition and Health Research Institute Faculty of Medicine, Al-Quds University, Abu Dis, East Jerusalem, Palestine;Biochemistry and Molecular Biology Department, Faculty of Medicine, Al-Quds University, Abu Dis, East Jerusalem, Palestine;Department of Medical Laboratory Sciences, Faculty of Allied Health Sciences, Arab American University, Jenin, Palestine;Department of Medical Laboratory Sciences, Faculty of Allied Health Sciences, Arab American University, Jenin, Palestine;Leishmaniases Research Unit, Jericho, Palestine;Leishmaniases Research Unit, Jericho, Palestine;

关键词: SARS-CoV-2;    Mutation;    Palestine;    COVID-19;    Complete genome sequence;    Spike-H245N;   

DOI  :  10.1186/s13104-021-05874-4

来源: Springer

【 摘 要 】

ObjectivesSARS-CoV-2, severe respiratory syndrome coronavirus-2, is an RNA virus that emerged from China sweeping the globe in the form of a pandemic that became an international public health concern. This pilot study aimed to describe the genetic variation and molecular epidemiology of SARS-CoV-2 in Palestine in fall 2020.ResultsTo achieve these aims, whole genome sequencing of SARS-CoV-2, phylogenetic analysis, haplotype networking and genetic diversity analysis were performed. These analyses revealed a unique spike mutation H245N that has never been reported before. The phylogenetic analysis depicted that three clusters existed in Palestinian SARS-CoV-2 genome sequences, in which cluster-I comprised the majority of clusters by 90%. Congruently, the haplotype network analysis depicted the same three clusters with a total of 39 haplotypes. The genetic diversity analysis showed that Cluster-I is highly diverse as confirmed by statistically significant mutation rate indices, Tajima’s D and Fu-Li’s-F tests (− 2.11 and 2.74, respectively), highest number of mutations (Eta = 120), highest number of haplotypes (h = 17), and highest average number of nucleotide differences between any two sequences (S = 118). The study confirmed the high genetic diversity among the Palestinian of SARS-CoV-2 which possessed high number of mutations including one which was reported for the first time.

【 授权许可】

CC BY