GPS, the Global Pneumococcal Sequencing project funded by @gatesfoundation is sequencing 50,000 pneumococci to monitor global vaccine implementation and impact.
Joined January 2014
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17 Aug 2022
Have you read about our #GPS_project study on how genomic surveillance can have real impact on improving #pneumococcal vaccines? If not, perhaps put it on your reading list now! thelancet.com/journals/lanmi…
17 Aug 2022
We are very excited to share our #GPS_project study out in @LancetMicrobe – showing how genomic surveillance can have real impact on improving #pneumococcal vaccines. thelancet.com/journals/lanmi… 1/14
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New paper! @nicd_sa team traces the global expansion of GPSC3 within serotype 8 following the introduction of the PCV13 in South Africa 🇿🇦. An increase in invasive disease incidence of non-vaccine type serotype 8 is observed after PCV introduction.
microbiologyresearch.org/con…
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Apr 14
GPS Pipeline v1.2.0 is here!
We have just released a major update to the GPS Pipeline, focusing on stability and accuracy improvements.
Upgrade today for a more robust Streptococcus pneumoniae genomes analysis experience: github.com/GlobalPneumoSeq/g…
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Apr 14
Key changes in v1.2.0:
- Improved stability
- Reduced ERY resistant false positive
- Updated to the latest PopPUNK GPS Database v11
- MLST database last update date is now viewable
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Apr 13
The latest version of PopPUNK GPS Database v11 for assigning GPSC of S. pneumoniae is now available.
It can assign more lineages with a greatly reduced database size (12 → 4.5GB). (PopPUNK v2.7.7 or above required)
Download: github.com/GlobalPneumoSeq#d…
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Mar 20
GPS funded placement awardee Dr Fatima Dakroub has published her finding in Microbial Genomics, highlighting the replacement of PCV13 with PCV10 (Pneumosil) will reduce the coverage of circulating serotypes in Lebanon.
pmc.ncbi.nlm.nih.gov/article…
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Mar 20
Key findings:
1. GPSC10-24F and GPSC12-3 have significantly increased after PCV13
2. AMR reduced after PCV rolled out
Collaboration between the Center for Infectious Diseases Research at the American University of Beirut and the GPS Project at the @sangerinstitute
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The science of GBS vaccines is advancing rapidly, but how do we implement them? In Plenary 4, we look at the evidence and economics behind the rollout.
#ISSAD2026 #GBS #GlobalHealth
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GlobalPneumoSeq retweeted
Feb 10
Got S. pneumoniae FASTQ read files? 🧬
Once you have run the GPS Pipeline, how do you visualise the results? 👁️
Check out our new tutorial on moving from FASTQ to interactive phylogenetics in @MyMicroreact ! 🌲
Step-by-step guide: github.com/GlobalPneumoSeq/f…
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24 Dec 2025
In this festive season, we wish everyone a joyful and lovely holiday to spend with your loved ones ❤️
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Dr Dorota Jamrozy (Wellcome Sanger Institute) is joining #ISSAD2026!
As scientific lead for the Juno Study, she'll present critical data on the genetics & evolution of Group B Streptococcus (GBS).
From Evidence to Action.
Register: issad.org/registration
#ISSAD2026 #GBS
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12 Dec 2025
[🚨new paper 🚨] @nicd_sa team reported the 16-year adult IPD cases before and after PCV in South Africa 🇿🇦 , showing
1. Significant decrease in vaccine serotype lineages
2. significant increases in GPSC26-12F
3. GPSC5 (23F->35B)
6. GPSC9 (14->15A)
microbiologyresearch.org/con…
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12 Dec 2025
GPSC5 (23F->35B) also observed in children under five in South Africa 🇿🇦
nature.com/articles/s41467-0…
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12 Dec 2025
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GlobalPneumoSeq retweeted
6 Dec 2025
Antibiotic resistance is a global crisis. Our study reveals how Streptococcus pneumoniae acquires macrolide resistance during colonization—driven by bacterial clustering, inside and outside the host, and key metabolic pathways. New targets to slow AMR.
sciencedirect.com/science/ar…
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2 Dec 2025
[🚨Data release🚨] The #GPS_project database Monocle is now having 40k pneumococcal genomes and detailed metadata !
Thanks @HarryHung at @sangerinstitute and Simran Utreja at CDC to put them together!
data-viewer.monocle.sanger.a…
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21 Nov 2025
Performing GPSC/lineage-specific analysis?
We have made assemblies and annotations for 73 common GPSCs more accessible than ever:
github.com/GlobalPneumoSeq/g…
Annotations were generated using Bakta v1.11.4 with the v6.0 full database.
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8 Nov 2025
This paper is out on Microbial Genomics @MicrobioSoc !
microbiologyresearch.org/con…
1 May 2025
Do you need a #bioinformatic tool to detect almost all serotypes in #penumococci ?
The new SeroBA v2.0 can detect 102 of 107 pneumococcal serotypes biorxiv.org/content/10.1101/…
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1 Oct 2025
It’s such a pleasure to see that #GPS_project 🩻funded by @gatesfoundation has been featured in this AMR article by @sangerinstitute , showing our global efforts on evaluating AMR after vaccine 💉 rollout.
sangerinstitute.blog/2025/10…
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