SARS-CoV-2 Lambda variant

Last updated

Lambda variant, also known as lineage C.37, is a variant of SARS-CoV-2, the virus that causes COVID-19. [1] It was first detected in Peru in August 2020. [2] On 14 June 2021, the World Health Organization (WHO) named it Lambda variant [1] and designated it as a variant of interest. [3] It has spread to at least 30 countries [4] around the world and is known to be more resistant to neutralizing antibodies compared to other strains. [5] [6] [7] It is also suggested that the Lambda variant could be more infectious and resistant to vaccines than the Alpha and/or Gamma variant. [8] [9]

Contents

Mutations

The Lambda genome has the following amino acid mutations, all of which are in the virus's spike protein code: G75V, T76I, Δ246-252, L452Q, F490S, D614G and T859N. [10]

History

First samples of the Lambda variant were detected in Peru in August 2020 [2] and by April 2021, over eighty percent of new cases of COVID-19 in Peru were from the new variant. [1] [12] In mid-June 2021, 90.6% of new COVID-19 cases in Arequipa and 78.1% of new cases in Cusco were the Lambda variant, according to the Peruvian Ministry of Health. [13] By this time the Lambda variant had also spread throughout South America and was detected in twenty-nine countries in total, especially in Argentina, Chile and Ecuador. [12] [14] The WHO designated the Lambda variant as a "variant of interest" on 14 June 2021. [1]

On 6 July 2021, Australia reported its first case of the Lambda variant in an overseas traveler who had been in a New South Wales quarantine hotel in April. [15]

On 19 July 2021, Texas reported its first case of the Lambda variant. [16] On 22 July 2021, Florida reported 126 cumulative confirmed cases of the Lambda variant. [17] On 28 July 2021, University of Miami researchers announced random sampling showed 3 percent of COVID-19 patients in Jackson Memorial Health System and at University of Miami’s UHealth Tower were infected with it. [18] On 5 August 2021, Louisiana reported its first case of the Lambda variant. [19]

On 7 August 2021, Japan confirmed its first case of the Lambda variant, with the infected person arriving in Japan from Peru on 20 July. [20]

On 15 August 2021, the Philippines confirmed its first case of the Lambda variant. [21]

Statistics

Cases by country (Updated as of 23 August 2021) GISAID [22]
CountryConfirmed casesCollection date
Flag of Chile.svg  Chile 1,48913 July 2021
Flag of the United States.svg  United States 8485 August 2021
Flag of Peru.svg  Peru 1,48015 June 2021
Flag of Ecuador.svg  Ecuador 19420 July 2021
Flag of Mexico.svg  Mexico 18914 July 2021
Flag of Spain.svg  Spain 1247 July 2021
Flag of Argentina.svg  Argentina 11124 June 2021
Flag of Germany.svg  Germany 8713 July 2021
Flag of France.svg  France 5619 July 2021
Flag of Colombia.svg  Colombia 5129 June 2021
Flag of Israel.svg  Israel 259 May 2021
Flag of Switzerland.svg   Switzerland 825 July 2021
Flag of Canada (Pantone).svg  Canada 2621 June 2021
Flag of the Netherlands.svg  The Netherlands 311 July 2021
Flag of Saint Kitts and Nevis.svg  Saint Kitts and Nevis 106 June 2021
Flag of Belgium (civil).svg  Belgium 223 July 2021
Flag of the United Kingdom.svg  United Kingdom 810 July 2021
Flag of Italy.svg  Italy 1226 June 2021
Flag of Brazil.svg  Brazil 721 June 2021
Flag of India.svg  India 612 April 2021
Flag of Denmark.svg  Denmark 111 August 2021
Flag of Sweden.svg  Sweden 115 July 2021
Flag of South Africa.svg  South Africa 314 July 2021
Flag of Portugal.svg  Portugal 110 June 2021
Flag of Qatar.svg  Qatar 313 April 2021
Flag of Latvia.svg  Latvia 230 April 2021
Flag of Aruba.svg  Aruba 22 June 2021
Flag of Bolivia.svg  Bolivia 12 June 2021
Flag of Uruguay.svg  Uruguay 115 April 2021
Flag of Australia (converted).svg  Australia 13 April 2021
Flag of Lithuania.svg  Lithuania 119 May 2021
Flag of Norway.svg  Norway 17 July 2021
Flag of Estonia.svg  Estonia 11 April 2021
Flag of Russia.svg  Russia 121 March 2021
Flag of Finland.svg  Finland 131 May 2021
Flag of Turkey.svg  Turkey 18 February 2021
Flag of Bangladesh.svg  Bangladesh 120 March 2021
Flag of Japan.svg  Japan 17 August 2021
Flag of the Philippines.svg  Philippines 115 August 2021 [23]
Flag of Venezuela.svg  Venezuela 25 May 2021
Flag of France.svg  Mayotte 115 July 2021
Flag of El Salvador.svg  El Salvador 330 April 2021
Flag of Guatemala.svg  Guatemala 13 July 2021
Flag of Costa Rica.svg  Costa Rica 420 July 2021
World (44 countries)Total: 4,763Total as of 23 August 2021

See also

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Lineage B.1.617 is a lineage of SARS-CoV-2, the virus that causes COVID-19. It first came to international attention in late March 2021 after the newly established INSACOG performed genome sequencing on positive samples throughout various Indian states. Analysis of samples from Maharashtra had revealed that compared to December 2020, there was an increase in the fraction of samples with the E484Q and L452R mutations. Lineage B.1.617 later came to be dubbed a double mutant by news media.

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References

  1. 1 2 3 4 "Tracking SARS-CoV-2 variants". World Health Organization . Retrieved 2021-06-17.
  2. 1 2 "Weekly epidemiological update on COVID-19 - 15 June 2021" (PDF) (44 ed.). World Health Organization. 15 June 2021. Retrieved 2021-08-16. Lambda has been associated with substantive rates of community transmission in multiple countries, with rising prevalence over time concurrent with increased COVID-19 incidence. The earliest sequenced samples were reported from Peru in August 2020.
  3. "Tracking SARS-CoV-2 variants". who.int. World Health Organization. Updated frequently.
  4. "Covid 19 coronavirus: Ultra-contagious Lambda variant detected in Australia". New Zealand Herald. 6 July 2021.
  5. "SARS-CoV-2 Lambda variant exhibits higher infectivity and immune resistance". bioRxiv Preprint Server for Biology. 28 July 2021.
  6. "COVID-19: Lambda variant may be more resistant to vaccines than other strains". World Is One News. 6 July 2021.
  7. "Lambda variant: What is the new strain of Covid detected in the UK?". The Independent. 6 July 2021.
  8. Mestanza, Orson (2021-08-06). "Review 2: "Infectivity and immune escape of the new SARS-CoV-2 variant of interest Lambda"". doi:10.1162/2e3983f5.31803756.Cite journal requires |journal= (help)
  9. Kimura, Izumi; Kosugi, Yusuke; Wu, Jiaqi; Yamasoba, Daichi; Butlertanaka, Erika P; Tanaka, Yuri L; Liu, Yafei; Shirakawa, Kotaro; Kazuma, Yasuhiro; Nomura, Ryosuke; Horisawa, Yoshihito (2021-07-28). "SARS-CoV-2 Lambda variant exhibits higher infectivity and immune resistance". doi:10.1101/2021.07.28.454085.Cite journal requires |journal= (help)
  10. Robertson, Sally (27 June 2021). "Lambda lineage of SARS-CoV-2 has potential to become variant of concern". news-medical.net. Retrieved 2021-07-05. The Lambda variant also contained a novel deletion (Δ246-252) and multiple nonsynonymous mutations (G75V, T76I, L452Q, F490S, D614G, and T859N) in the gene that encodes the viral spike protein.
  11. "Spike Variants: Lambda variant, aka B.1.1.1". covdb.stanford.edu. Stanford University Coronavirus Antiviral & Resistance Database. 1 July 2021. Retrieved 2021-07-05.
  12. 1 2 "WHO reports on Lambda: the new variant of COVID-19 that is affecting South America". Entrepreneur . 2021-06-17. Retrieved 2021-06-17.
  13. Acosta, Sebastián (2021-06-16). "Coronavirus en Perú | Minsa: El 90,6 % de los contagios en Arequipa se deben a la variante Lambda" [Coronavirus in Peru | Minsa: 90.6% of infections in Arequipa are due to the Lambda variant]. RPP (in Spanish). Retrieved 17 June 2021.
  14. Mendez, Rich (2021-06-16). "WHO says delta Covid variant has now spread to 80 countries and it keeps mutating". CNBC . Retrieved 2021-06-17.
  15. "Covid-19 Australia: Strain more transmissible than Delta hits Australia". News.com.au. 6 July 2021.
  16. EDT, Khaleda Rahman On 7/20/21 at 7:09 AM (2021-07-20). "Lambda COVID variant detected in Texas hospital". Newsweek. Retrieved 2021-07-22.
  17. "US, South American researchers monitoring Lambda COVID-19 variant as cases surge" . Retrieved 2021-07-29.
  18. "New evidence shows the COVID-19 Delta variant rapidly rising". news.miami.edu. Retrieved 2021-07-29.
  19. WBRZ. "First cases of COVID Lambda variant reported in North Louisiana". WBRZ. Retrieved 2021-08-06.
  20. "Japan confirms first case of lambda variant infection". The Japan Times. 2021-08-07. Retrieved 2021-08-07.
  21. Garcia, Ma. Angelica (August 15, 2021). "First lambda variant case detected in the Philippines". GMA News. Retrieved August 15, 2021.
  22. "GISAID - hCov19 Variants". www.gisaid.org. Retrieved 2021-08-23.
  23. Press Release (August 15, 2021). "DOH, UP-PGC, and UP-NIH confirm additional COVID-19 variant cases including first case of Lambda variant". Department of Health, Government of the Philippines.