41 New Omicron Cases Recorded From Sri Lanka – Latest SARS-CoV-2 Variant Report by Department of Immunology and Molecular Medicine.

According to the latest SARS-CoV-2 variant report issued by the Allergy Immunology and Cell Biology Unit of the Department of Immunology and Molecular Medicine of the University of Sri Jayewardenepura, 41 new cases of Omicron were detected from 176 samples. Omicron is currently detected in over 100 countries including the United States, Canada, Australia India, and South Africa, etc.

Different delta sublineages were detected in the following locations. AY.28 was detected in Divulapitiya, Giriulla,Colombo, Gampaha, Matara and Mirigama. AY.104 (Sri Lanka delta sub-lineage) was detected in Batticaloa, Colombo, Puwakpitiya, Duwulapitiyta, Galle, Gampaha, Ja Ela, Ahungalla, Kuthulgala, Matara, Madampe, Baddegama, and Thammitta. AY.106 was detected in Negombo. AY.120 was detected in Nilpathagama. AY.122 was detected in Kandy and Udugampola. AY.127 was detected in Galle. AY.1.617.2  was detected in Awissawella, Minuwagoda, Diwulapitiya, Dompe, Kandy, Kuruwita, Colombo and Negombo while AY.43 was detected in Galle and Chilaw.

It should be noted that except Omicron, B.1.411, Sri Lankan variant, B.1.1.25, B.1.258, B.1.428, B.4, B.4.7, B.1.1.365, B.1.525, B.1, B.1.1 variants are identified within Sri Lanka in the last year.

Figure 1: Change in the SARS-CoV-2 variants in Sri Lanka over time. Figure 2: Locations of samples sequenced during the past week (3nd week of December)


Phylogenetic tree of Omicron samples in Sri Lanka

Figure 3: Countries reporting Omicron as of 24th December 2021.

Table 1: Number of sequences shared by each country in the SEARO region. (excluding
samples sequenced in this round)

Figure 4: Prevalence of Omicron in different countries in the world based on sequencing data
(The current round of SL data does not appear yet in this website)

Figure 5: Sequencing of viruses carried out in Sri Lanka so far.

Figure 6: Phylogenetic tree of all SARS-CoV-2 sequences identified in Sri Lanka so far.

Sequencing report 30.12.2021

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