B.1.525 2021-02-20



Description

International lineage with variants of biological significance E484K, Q677H, F888L and a similar suite of deletions to B.1.1.7.

This webpage is generated using publically available sequence data from GISAID, shared by international sequencing efforts.

Table 1 | Summary of B.1.525 data

Statistic Information
Countries reported 2
Countries with sequences 19
Sequence count 266
Countries Denmark 75, United Kingdom 62, Nigeria 49, United States of America 30, Italy 9, France 6, Canada 5, Ghana 5, Belgium 5, Netherlands 4, Australia 3, Japan 3, Spain 2, Finland 2, Jordan 2, Singapore 1, Switzerland 1, Germany 1, Mayotte 1
First detected Multiple
Earliest sample date 2020-12-15
Defining SNPs aa:orf1ab:L4715F
aa:S:Q52R
aa:S:E484K
aa:S:Q677H
aa:S:F888L
aa:E:L21F
aa:E:I82T
del:11288:9
del:21765:6
del:28278:3

Figure 1 | Cumulative sequence count over time B.1.525

Bars show the number of new sequences on GISAID over time, binned by epi-week. The line shows the cumulative number of sequences over time.


Figure 2 | Date of earliest_B.1.525 detected

Schematic map showing the date of the first sequence sample date in each country containing the lineage. Darker countries have earlier first sample dates.


Figure 3 | Map of B.1.525 sequence counts

Map showing the logged number of sequences of the variant in each country. Countries with more sequences are shown in darker colours.


Figure 4 | Sequence count per country B.1.525

The number of sequences of the lineage recorded in each country. The height of the bar is the logged number and the numbers above the bar are the raw counts.


Figure 5 | Frequency B.1.525 in sequences produced since first new variant reported per country

The overall frequency of the lineage, defined as the number of sequences assigned the lineage divided by the total number of sequences from that country in the time since the variant was first sequenced in that country.


Figure 6 | B.1.525 count per continent

Seven day rolling average of sequence counts per continent. Please note that recent declines may be due to delay in reporting rather than reflecting a change in the underlying virus population.


Figure 7 | Rolling average B.1.525 frequency per continent

Seven day rolling average of frequency of sequences of the lineage of interest. Frequency is calculated by dividing the number of sequences of the lineage of interest by the total sequences for each continent for each day.



Table 3 | Raw data for figures.

Country Earliest sequence Number of variant sequences Total sequences since first variant sequence
United Kingdom 2020-12-15 62 107702
Nigeria 2020-12-20 49 196
United States Of America 2021-01-08 30 36364
Italy 2021-02-03 9 1891
Spain 2021-01-25 2 893
Denmark 2021-01-11 75 13698
Canada 2021-01-13 5 476
Australia 2021-01-17 3 115
Ghana 2021-01-06 5 95
Netherlands 2021-02-02 4 1330
Singapore 2021-01-31 1 89
Finland 2021-01-20 2 262
Japan 2021-01-29 3 27
Belgium 2021-01-19 5 2857
Switzerland 2021-01-22 1 2657
Germany 2021-02-04 1 115
France 2021-01-06 6 2820
Mayotte 2021-01-29 1 76
Jordan 2021-01-07 2 11

Data source and processing

The data on this page is recent as of 2021-02-20, 12:59 GMT. All SARS-CoV-2 sequences were downloaded from GISAID and genomes were de-duplicated based on GISAID sequence name – note that the publically available metadata may not fully allow us to de-duplicate by patient. Full data processing pipeline found here. The sequences were then assigned lineages with pangolin 2.3.2, pangoLEARN version 2021-02-18.

Acknowledgements

Created by: Áine O'Toole and Verity Hill, Rambaut Group, University of Edinburgh. Flight volume data from Kamran Khan, Isaac Bogoch, Alexander Watts, Oliver Pybus, Moritz Kraemer. Sequences sourced from GISAID, full acknowledgements table here.

We have a pre-print up on virological here describing this web tracker.