tetano
Editor, Senior Moderator
BMC Res Notes
. 2021 Dec 23;14(1):466.
doi: 10.1186/s13104-021-05874-4.
Complete genome sequencing of SARS-CoV-2 strains: A pilot survey in Palestine reveals spike mutation H245N
Amer Al-Jawabreh[SUP] 1 2 [/SUP], Suheir Ereqat[SUP] 3 [/SUP], Kamal Dumaidi[SUP] 1 [/SUP], Hanan Al-Jawabreh[SUP] 2 [/SUP], Abedelmajeed Nasereddin[SUP] 4 [/SUP]
Affiliations
Abstract
Objectives: SARS-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.
Results: To 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.
Keywords: COVID-19; Complete genome sequence; Mutation; Palestine; SARS-CoV-2; Spike-H245N.
. 2021 Dec 23;14(1):466.
doi: 10.1186/s13104-021-05874-4.
Complete genome sequencing of SARS-CoV-2 strains: A pilot survey in Palestine reveals spike mutation H245N
Amer Al-Jawabreh[SUP] 1 2 [/SUP], Suheir Ereqat[SUP] 3 [/SUP], Kamal Dumaidi[SUP] 1 [/SUP], Hanan Al-Jawabreh[SUP] 2 [/SUP], Abedelmajeed Nasereddin[SUP] 4 [/SUP]
Affiliations
- PMID: 34949225
- DOI: 10.1186/s13104-021-05874-4
Abstract
Objectives: SARS-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.
Results: To 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.
Keywords: COVID-19; Complete genome sequence; Mutation; Palestine; SARS-CoV-2; Spike-H245N.