tetano
Editor, Senior Moderator
J Genet Eng Biotechnol
. 2022 May 11;20(1):70.
doi: 10.1186/s43141-022-00352-1.
Genome sequencing reveals existence of SARS-CoV-2 B.1.1.529 variant in Egypt
Ghada Ismail[SUP] 1 2 [/SUP], Hossam Abdelghaffar[SUP] 3 4 [/SUP], Mohamed G Seadawy[SUP] 5 [/SUP], Mostafa F El-Hosseny[SUP] 6 [/SUP], Ahmed F Gad[SUP] 6 [/SUP], Amr Ageez[SUP] 7 [/SUP], Ahmed ElShafei[SUP] 8 [/SUP], Shereen Saeed Mohammed[SUP] 2 [/SUP], Marym Saied Ali[SUP] 2 [/SUP], Marwa Abd El-Rasoul El-Ashry[SUP] 1 [/SUP]
Affiliations
Abstract
Background: Several SARS-CoV-2 variants with increased transmissibility and/or potential immune escape have emerged and rapidly spread worldwide. Ongoing surveillance analyses are performed worldwide to designate new variants of concern (VOC) of coronavirus.
Main text: This report identifies the first Egyptian patient with a confirmed SARS-CoV-2 omicron variant. The patient showed positivity on reverse transcriptase-polymerase chain reaction and full genome sequencing was performed to confirm the variant. The mutations found in the variant were compared with the GISAID reference strain hCoV-19/Wuhan/WIV04/2019. Genome BLAST showed the highest similarity to omicron variants isolated in South Africa. Phylogenetic analysis revealed that the variant belongs to the 21K clade.
Conclusions: The study indicates the importance of information-sharing among global public health partners. Moreover the importance of implementation of full genome sequencing to rapidly identify and track the new SARS-CoV-2 variants.
Keywords: 21K; Egypt; Omicron variant; genome analysis.
. 2022 May 11;20(1):70.
doi: 10.1186/s43141-022-00352-1.
Genome sequencing reveals existence of SARS-CoV-2 B.1.1.529 variant in Egypt
Ghada Ismail[SUP] 1 2 [/SUP], Hossam Abdelghaffar[SUP] 3 4 [/SUP], Mohamed G Seadawy[SUP] 5 [/SUP], Mostafa F El-Hosseny[SUP] 6 [/SUP], Ahmed F Gad[SUP] 6 [/SUP], Amr Ageez[SUP] 7 [/SUP], Ahmed ElShafei[SUP] 8 [/SUP], Shereen Saeed Mohammed[SUP] 2 [/SUP], Marym Saied Ali[SUP] 2 [/SUP], Marwa Abd El-Rasoul El-Ashry[SUP] 1 [/SUP]
Affiliations
- PMID: 35543892
- DOI: 10.1186/s43141-022-00352-1
Abstract
Background: Several SARS-CoV-2 variants with increased transmissibility and/or potential immune escape have emerged and rapidly spread worldwide. Ongoing surveillance analyses are performed worldwide to designate new variants of concern (VOC) of coronavirus.
Main text: This report identifies the first Egyptian patient with a confirmed SARS-CoV-2 omicron variant. The patient showed positivity on reverse transcriptase-polymerase chain reaction and full genome sequencing was performed to confirm the variant. The mutations found in the variant were compared with the GISAID reference strain hCoV-19/Wuhan/WIV04/2019. Genome BLAST showed the highest similarity to omicron variants isolated in South Africa. Phylogenetic analysis revealed that the variant belongs to the 21K clade.
Conclusions: The study indicates the importance of information-sharing among global public health partners. Moreover the importance of implementation of full genome sequencing to rapidly identify and track the new SARS-CoV-2 variants.
Keywords: 21K; Egypt; Omicron variant; genome analysis.