Phylogenetic Analysis of SARS-CoV-2 in Ontario

Genome sequencing, analysis and epidemiology of SARS-CoV-2 is important for understanding the evolution and spread of SARS-CoV-2 in Ontario. This interactive tool supports genomics researchers and experts, epidemiologists, virologists and public health experts explore the evolutionary relationships between SARS-CoV-2 sequences and view the genetic diversity across the entire genome.

Data in the tool can be filtered by:

Ontario Health Region
Pango lineages, including variants of concern lineages
age group
sex
genotype
country
Clades: Nextstrain and GISAID

View Phylogenetic Analysis of SARS-CoV-2 in Ontario

The data in this tool includes SARS-CoV-2 samples sequenced at Public Health Ontario and does not include samples sequenced at other laboratories at this time.

The tool is updated Thursday between 4 and 6 p.m. ET and may be unavailable at this time. View the Technical Notes for more information on what is included in the tool.

The tool is best viewed using Google Chrome, Mozilla Firefox and Microsoft Edge.

Nextstrain

This interactive tool uses the open source platform Nextstrain, which provides powerful analytic and visualization tools to support genomic analysis of pathogens like SARS-CoV-2.

To learn more about Nextstrain or support using and interpreting data in the tool, visit the Nextstrain documentation webpage for a variety of resources, tutorials and user-guides.

Find Information On...

Coronavirus Disease 2019 (COVID-19)

Documents, resources and related links for COVID-19, a respiratory illness caused by the SARS-CoV-2 virus that emerged in late 2019 and quickly spread worldwide, resulting in a global pandemic.

Variants of Concern

Resources for testing for and monitoring of COVID-19 variants of concern found in Ontario.

Ontario Respiratory Virus Tool

Provides comprehensive epidemiological information of respiratory virus activity in Ontario, including COVID-19, influenza and other respiratory viruses. Explore case/episode trends, laboratory testing, outcomes, outbreaks and projections.

Event

PHO Rounds: Respiratory Season 2026–27, Part 1: Surveillance and Testing of Respiratory Pathogens in Ontario

The first session will provide an overview of current epidemiological trends for COVID-19, influenza, and respiratory syncytial virus (RSV) activity in Ontario, Canada and internationally. The session also describes the planned approach to testing across the provincial laboratory network for respiratory viruses for the 2026–27 season.

See the Event Details

Laboratory Data Contact

Lab.Data@oahpp.ca

Updated 3 Aug 2023