Because the pandemic is very fast-moving, we are updating every week the results of our pan-African collaboration published in Science today at:…
SARS-CoV-2 variants in lineages in African countries
This is the work of 100s of authors from 122 African organizations, see the author list and please credit their work! See: Wilkinson et al. Science 2021 -…
In the essence of Ubuntu, which involves true capacity building and sharing of all the protocols and scripts with Africa collaborators, we are also hosting African 100s fellows in our genomics labs in Nigeria, Kenya and South Africa with support from @RockefellerFdn @RickABright
Working together to advance science in Africa -

• • •

Missing some Tweet in this thread? You can try to force a refresh

Keep Current with Tulio de Oliveira

Tulio de Oliveira Profile picture

Stay in touch and get notified when new unrolls are available from this author!

Read all threads

This Thread may be Removed Anytime!


Twitter may remove this content at anytime! Save it as PDF for later use!

Try unrolling a thread yourself!

how to unroll video
  1. Follow @ThreadReaderApp to mention us!

  2. From a Twitter thread mention us with a keyword "unroll"
@threadreaderapp unroll

Practice here first or read more on our help page!

More from @Tuliodna

9 Sep
'Although distorted by low sampling numbers and blind spots, the findings highlight that Africa must not be left behind in the global pandemic response, otherwise it could become a source for new variants'.…
So many people to thank! 100s of authors from Africa and funders to believe that we can do high-level science that influences public health response - Thanks, @RockefellerFdn @RickABright @fdesouza @illumina @thermofisher @stevensonmarkp @WHOAFRO @AfricaCDC @dsigovza
The most rewarding part of this collaboration was the holistic approach of trust and capacity building! What to say! African dream team working together @christian_happi @houzhou @Mittenavoig @EduanWilkinson @rjlessells
Read 4 tweets
27 Aug
Evolution of the C.1 lineage in South Africa with multiple Spike mutations - pre-print at:… - In this tweet thread, I highlight this lineage (assigned as C.1.2), the potential impact of the mutations, and the likelihood that this become a variant of concern
The C.1.2 has 14 mutations in Spike, including three mutations at the Receptor Binding Motif, the Y449H, E484K, and N501Y - two of the mutations have been found in three of the four variants of concern (Alpha, Beta, and Gamma).
In relationship to decrease neutralization, in addition to the E484K, there are also deletions at position 144 and positions 242-243, the 144 deletions are also seen in the Alpha and the 242-243 in the Beta, which associates with a decrease neutralization of antibodies
Read 13 tweets
23 Jul
Seems that the level4 restrictions in South Africa helped to control the third wave of #COVID19 - Reproductive number < 1 in the whole country and in most provinces.
The Western Cape and Eastern Cape seem to have peaked now, R =1
Gauteng #COVID19 cases are really in the downward path, R = 0.6
Read 5 tweets
30 Jun
NGS-SA worked hard to increase sequencing in South Africa. We know now that the explosive #COVID19 third wave is dominatedd by the Delta variant.

In this tweet thread, we present recent data (sampled up to 24 June in many provinces in SA, including Gauteng) - Tweet 1/8
This graph shows the distribution of the variants over time in the different provinces. 2/8
The third wave in Gauteng was caused by the Delta variant, thanks to @nicd_sa and @krisp_news who worked day and night on the weekend to increase genomics surveillance in Gauteng.
Graph shows Black line = Daily cases (7-day average), Yellow = Beta, Green = Delta. Tweet 3/8
Read 8 tweets
17 Jun
A Novel and Expanding SARS-CoV-2 Variant, B.1.1.318, dominates infections in Mauritius…
Mauritius is an example of controlling #COVID19 in Africa, with 1,700 infections and only 18 deaths. However, one variant seems to have caused the great majority of all of the infections
Mauritius has stopped dozens of introductions of the Beta (501Y.V2/B.1.351) and Alpha (B.1.1.7) but the B.1.1.318, which has the 484K mutation (common to Beta) and the 681H mutation (common to Alpha) has caused all local transmitted cases.
Read 14 tweets
3 Jun
In this online pre-print, we present a case of persistent SARS-CoV-2 infection with accelerated intra-host evolution in a patient with advanced HIV and antiretroviral treatment failure in South Africa.

Paper deposited at medRxiv &available at:… @sigallab
SARS-CoV-2 RT-PCR was positive for 216 days (27 weeks). At all time-points between day 0 and day 216 there was a mean Ct ranging from 16.4 to 31.6. The patient had HIV drug resistance and was not responding to therapy.
Over 30 mutations accumulated over time, many of them changing aminoacids that are common of variants of concern.
Read 15 tweets

Did Thread Reader help you today?

Support us! We are indie developers!

This site is made by just two indie developers on a laptop doing marketing, support and development! Read more about the story.

Become a Premium Member ($3/month or $30/year) and get exclusive features!

Become Premium

Too expensive? Make a small donation by buying us coffee ($5) or help with server cost ($10)

Donate via Paypal Become our Patreon

Thank you for your support!

Follow Us on Twitter!