B.1.351 2023-01-31
Description
Table 1 | Summary of B.1.351 data
Statistic | Information |
---|---|
Countries with sequences | 123 |
Sequence count | 32396 |
Countries | South Africa 6176, Philippines 3018, United States of America 2849, Sweden 2572, Germany 2278, France 2129, Reunion 1219, Finland 1180, Belgium 1056, Luxembourg 841, Canada 779, United Kingdom 700, Netherlands 680, Turkey 565, Qatar 444, Norway 440, Malawi 362, Spain 350, Malaysia 337, Austria 270, Mozambique 265, Zimbabwe 262, Zambia 239, Switzerland 231, India 226, Botswana 218, Israel 208, Angola 203, Kenya 185, Djibouti 126, Denmark 116, Italy 97, Singapore 96, Portugal 90, Japan 89, Hong Kong 82, Thailand 81, Czech Republic 72, Pakistan 72, Ireland 70, Eswatini 70, Australia 64, Canary Islands 60, Rwanda 50, Namibia 47, Poland 44, United Arab Emirates 40, Bangladesh 38, Estonia 35, Mayotte 34, Croatia 34, Lesotho 34, Equatorial Guinea 33, Slovenia 31, Russia 30, Slovakia 30, New Zealand 29, South Korea 24, Seychelles 21, Cote d'Ivoire 20, Mexico 19, Sudan 18, Greece 18, Kyrgyzstan 18, Indonesia 17, Ghana 17, Uganda 15, Costa Rica 14, Latvia 14, Cameroon 12, Democratic Republic of the Congo 12, Brazil 11, Lithuania 10, Mauritius 10, Gabon 10, Tanzania 10, China 7, Oman 7, Romania 7, Saudi Arabia 7, Liberia 6, Suriname 5, Sri Lanka 5, Burundi 5, Taiwan 4, Somalia 4, Benin 4, Aruba 4, Guam 4, Chile 4, Iran 4, Guadeloupe 4, Togo 3, Malta 3, Bahrain 3, South Sudan 3, Jordan 3, Senegal 3, Bulgaria 3, French Guiana 2, Tunisia 2, Ethiopia 2, Martinique 2, Vietnam 1, Kuwait 1, Iceland 1, Sint Maarten 1, Argentina 1, Iraq 1, Central African Republic 1, Morocco 1, Brunei 1, Cambodia 1, Guatemala 1, Nigeria 1, Guinea-Bissau 1, North Macedonia 1, Antigua and Barbuda 1, Niger 1, Puerto Rico 1, Panama 1, Nicaragua 1, Georgia 1 |
First detected | South Africa |
Earliest sample date | 2020-09-01 |
Defining SNPs | aa:E:P71L aa:N:T205I aa:orf1a:K1655N aa:S:D80A aa:S:D215G aa:S:K417N aa:S:A701V aa:S:N501Y aa:S:E484K |
Figure 1 | Cumulative sequence count over time B.1.351
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.1.351 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.1.351 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.1.351
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.1.351 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.1.351 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.1.351 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.
Figure 9 | Air traffic by destination B.1.351
The number of ticketed origin-to-destination journeys from South African airports to destinations outside of South Africa during October 2020.
Colours indicate numbers of published genomes of B.1.351 deposited on GISAID. Grey bars indicate countries that have reported the presence of the variant but have not yet published B.1.351 sequences on GISAID. White bars indicate countries with no reports of B.1.351.
Flight data come from the International Air Transportation Association that capture anonymized, passenger-level flight itinerary data, comprising both commercial flights and scheduled charter flights. These data account for ~90% of global air travel volumes, with the remaining volumes modelled using market intelligence. We report data from destinations including >5,000 passengers.
Note that flight data reflects final-destination on a booked journey, we cannot account for instances where two separate tickets were purchased.
Table 2 | Reported B.1.351 imports | Country count: 68
Table 3 | Raw data for figures
Country | Earliest sequence | Number of variant sequences | Total sequences since first variant sequence |
---|---|---|---|
United States Of America | 2020-09-10 | 2935 | 4060742 |
Philippines | 2021-01-31 | 3033 | 21014 |
South Africa | 2020-09-01 | 6195 | 38319 |
Canada | 2020-12-19 | 875 | 420522 |
Finland | 2020-12-19 | 1188 | 43398 |
Italy | 2021-01-29 | 144 | 146428 |
Greece | 2021-01-14 | 58 | 25372 |
Thailand | 2021-02-05 | 82 | 28562 |
France | 2020-12-22 | 2969 | 491696 |
Norway | 2020-12-27 | 441 | 72042 |
Sweden | 2020-11-08 | 2587 | 227363 |
United Kingdom | 2020-12-10 | 915 | 2664908 |
India | 2020-12-30 | 258 | 175877 |
Singapore | 2021-02-07 | 204 | 27797 |
Belgium | 2020-12-20 | 1107 | 161450 |
Australia | 2020-12-26 | 83 | 144148 |
Germany | 2020-12-21 | 2332 | 857629 |
Portugal | 2020-12-26 | 107 | 41249 |
Estonia | 2021-02-17 | 35 | 14098 |
Spain | 2020-12-24 | 1540 | 185130 |
Denmark | 2021-01-04 | 126 | 586817 |
Malawi | 2020-11-25 | 362 | 944 |
Malaysia | 2020-12-01 | 339 | 33075 |
Switzerland | 2020-12-14 | 313 | 139674 |
Botswana | 2020-11-21 | 225 | 2765 |
Qatar | 2020-12-29 | 444 | 3980 |
Bangladesh | 2020-11-01 | 464 | 5610 |
China | 2020-12-31 | 7 | 10516 |
Czech Republic | 2021-02-16 | 76 | 53174 |
Netherlands | 2020-12-22 | 683 | 148081 |
Reunion | 2021-01-07 | 3180 | 17688 |
Turkey | 2021-01-21 | 578 | 99332 |
Pakistan | 2021-03-15 | 73 | 4408 |
Angola | 2020-09-25 | 203 | 910 |
Zimbabwe | 2020-09-01 | 262 | 660 |
Austria | 2021-01-12 | 275 | 51720 |
Luxembourg | 2021-01-15 | 841 | 45747 |
Mexico | 2021-04-03 | 19 | 70958 |
Ivory Coast | 2021-02-11 | 20 | 616 |
Japan | 2020-12-19 | 104 | 517668 |
Taiwan | 2021-03-24 | 5 | 2469 |
Vietnam | 2021-05-08 | 1 | 6772 |
Brazil | 2021-03-07 | 11 | 185149 |
New Zealand | 2021-01-06 | 29 | 28269 |
Mayotte | 2021-01-07 | 369 | 1190 |
Djibouti | 2021-03-15 | 126 | 706 |
Kenya | 2020-12-25 | 185 | 6545 |
Indonesia | 2021-01-25 | 21 | 42046 |
Croatia | 2021-02-09 | 34 | 39918 |
Rwanda | 2020-12-28 | 50 | 495 |
Lithuania | 2021-03-02 | 10 | 35296 |
Kuwait | 2021-06-21 | 1 | 568 |
Mozambique | 2020-09-28 | 265 | 1057 |
Israel | 2020-12-17 | 210 | 113331 |
Iceland | 2021-02-28 | 2 | 7268 |
Russia | 2021-01-19 | 30 | 52743 |
Zambia | 2020-12-01 | 239 | 873 |
Ireland | 2020-12-22 | 73 | 91290 |
Romania | 2021-03-24 | 8 | 16445 |
Poland | 2021-02-08 | 46 | 85452 |
Cameroon | 2021-01-05 | 12 | 938 |
Oman | 2021-01-27 | 7 | 412 |
Eswatini | 2020-11-23 | 70 | 805 |
South Korea | 2020-12-26 | 38 | 79524 |
Sri Lanka | 2021-03-02 | 7 | 2591 |
Hong Kong | 2020-12-27 | 84 | 12359 |
Bahrain | 2021-04-04 | 20 | 9659 |
Democratic Republic Of The Congo | 2021-01-22 | 12 | 470 |
Togo | 2021-02-05 | 4 | 582 |
Slovakia | 2021-02-08 | 30 | 43114 |
United Arab Emirates | 2020-12-20 | 40 | 742 |
Sudan | 2021-03-07 | 18 | 234 |
Ghana | 2021-01-06 | 21 | 2971 |
Lesotho | 2020-12-16 | 34 | 154 |
Madagascar | 2020-11-03 | 271 | 540 |
Slovenia | 2021-02-09 | 31 | 72048 |
Equatorial Guinea | 2021-01-12 | 34 | 49 |
Saudi Arabia | 2021-04-15 | 14 | 610 |
Costa Rica | 2021-02-10 | 14 | 8754 |
Latvia | 2021-03-08 | 14 | 24588 |
Uganda | 2021-02-13 | 15 | 823 |
Namibia | 2021-03-17 | 47 | 594 |
Somalia | 2021-02-28 | 4 | 12 |
Benin | 2021-03-23 | 4 | 878 |
Gabon | 2021-01-27 | 10 | 512 |
Argentina | 2021-04-24 | 1 | 13618 |
Iraq | 2021-02-26 | 1 | 832 |
Suriname | 2021-03-19 | 5 | 831 |
Tunisia | 2021-04-20 | 4 | 895 |
Kyrgyzstan | 2021-05-04 | 18 | 230 |
Malta | 2021-04-09 | 3 | 672 |
Aruba | 2021-02-25 | 4 | 3631 |
Liberia | 2021-03-31 | 6 | 87 |
Burundi | 2021-05-27 | 5 | 72 |
South Sudan | 2021-03-31 | 3 | 123 |
Central African Republic | 2021-02-11 | 1 | 58 |
Morocco | 2021-06-17 | 1 | 1360 |
Guam | 2021-04-05 | 4 | 872 |
Brunei | 2021-01-20 | 1 | 4936 |
Cambodia | 2021-05-31 | 1 | 3496 |
Chile | 2021-04-06 | 4 | 36244 |
Iran | 2021-04-03 | 4 | 1852 |
Guadeloupe | 2021-02-23 | 4 | 2090 |
Jordan | 2021-03-07 | 5 | 778 |
Ethiopia | 2021-02-22 | 2 | 497 |
Guatemala | 2021-04-19 | 1 | 3575 |
Nigeria | 2021-07-26 | 1 | 3703 |
Senegal | 2021-01-09 | 3 | 2200 |
Bulgaria | 2021-06-09 | 3 | 17185 |
North Macedonia | 2021-03-10 | 1 | 596 |
Niger | 2021-05-03 | 1 | 44 |
Puerto Rico | 2021-03-30 | 1 | 12836 |
Panama | 2021-01-12 | 1 | 5350 |
Nicaragua | 2021-05-02 | 1 | 429 |
Georgia | 2021-05-23 | 1 | 2525 |
Tanzania | 2021-01-23 | 10 | 13 |
Data source and processing
The data on this page is recent as of 2023-01-31, 22:14 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 3.1.20, pangoLEARN version 2022-02-02.
Pangolin assigns B.1.351 to sequences with at least 5 of the 9 defining B.1.351 SNPs – defined here.
Caveat: Most locations outside the original focus have not reported sustained transmission and many cases have known travel links to the focal location. Increasing numbers of international cases is currently likely due to increased surveillance and vigilance.
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 publication in Wellcome Open Research here describing this web tracker.