4/ As with all pathogens on Pathoplexus, Marburg data can be uploaded as Open (immediately public + sent to INSDC) or Restricted-Use (up to 1 year). We hope this launch supports current response efforts and future preparedness. 🌍🌎🌏
3/ Jean Pierre Musabyimana (Rwanda Biomedical Centre) welcomed the addition, saying: “Having Pathoplexus support the inclusion of the Marburg virus will tremendously benefit our work in Rwanda and the region.”
2/ Our Executive Board prioritised adding Marburgvirus in light of the recent Ethiopia outbreak and community support.
Pathoplexus provides straightforward methods to upload, compare, and share sequences.
www.who.int/emergencies/...
A screenshot of the front page of Pathoplexus' website, showing the addition of a tile for Marburg Virus.
1/ 🚀 Pathoplexus now supports Marburg virus (MARV) and Ravn virus (RAVN) (sister viruses in the same genus). MARV has two main clades and causes severe disease with reported fatality rates of 24–88%.
You can read more detail about adding Marburg here: pathoplexus.org/news/2025-11...
12/ 🔗 Read the full update here → pathoplexus.org/news/2025-11...
#PathogenGenomics #OpenData #OpenScience #PublicHealth #Bioinformatics
11/ 📌 Thank you to YOU - our submitters, users, partners and community - for helping us make Pathoplexus what it is.
If you haven’t checked in lately: log in, explore the new features, cite your SeqSets (yes, DOIs matter!), and let us know what you’d like to see next. 🎉💬💻
10/ 🤝 New members:
Please join us in welcoming our eight 8 members from Portugal, UK, Uganda (×2), Spain, Ireland (×2), and Bangladesh. Their expertise will help steer Pathoplexus to even greater heights.
pathoplexus.org/about/members
9/ 🏆 Awards & collaborations:
We’re excited to share that Loculus was awarded the SIB Remarkable Output 2024 - recognised for enabling efficient & secure sharing of pathogen genomic data: bsky.app/profile/sib....
Loculus is also joining the Pathogen Data Network!
Photographs of the PHA4GE pre-conference workshops. Showing first a photo of the workshop organizers, Patricia, Emma, Arthur, Stephen, and Chaoran. Then a photo of Stephen helping a workshop participant, and a photo of Chaoran helping a workshop participant.
8/ 🎤 Talks & media:
We’ve been on the road!
• A 2-part Pathoplexus feature on the MicroBinfie Podcast
• Tutorials at BC2, presentations at the IMMEM conference & the PHA4GE Conference & pre-workshop
Next up: See us at the Viruses in Silico (@evbc.bsky.social ) lecture series (27 Nov 16:00 CET)
A screenshot of the Tools page in RSV-A on Pathoplexus, highlighting GenSpectrum, Nextstrain, and some simple plots
7/ 🛠️ Tech improvements (cont.):
• Better UI banners for restricted sequences
• A new “Tools” tab - which highlights external apps/tools that use Pathoplexus data! If you’ve built one and want yours included, let us know! 👂🏻
Screenshot showing the search panel in Pathoplexus, showing that one can now select, for example, two Submitting Groups and two Countries in your sequence search
6/ 🛠️ Tech improvements:
• Support for accented characters in author names
• New means2id field for measles sequence upload, linking to the MeaNS2 database
• Improved groups pages highlight uploads per pathogen
• Multiple choice searches for better filtering!
5/ 🌐 Community & partnerships:
We’re proud to now be an institutional member of the International Pathogen Surveillance Network (IPSN) convened by the World Health Organization @who.int - strengthening our global ties and commitment to equitable pathogen data sharing. 🌐🤝
4/ 🧬 On RSV:
We updated our classification pipeline — switching from Taxon ID 11250 to 1868215 (Orthopneumovirus) to capture more human RSV sequences. This added ~2,325 RSV-A and ~1,335 RSV-B sequences to our system!
3/ 📊 Data growth (cont.):
• 68 new Ebola Zaire virus sequences from DRC (including the first samples from the recent outbreak)
• ~1,326 RSV-A & ~1,642 RSV-B sequences from global labs (USA, Australia, Switzerland)
👉 Showing the power of open, shared data.
2/ 📊 Data growth:
We now host over 8,900 directly-submitted sequences! Highlights since August include:
• ~1,464 new Mpox virus sequences from labs in DRC, Portugal, Ireland, Togo, Canada, Senegal & more
• 7 new West Nile virus sequences from Italy & France
Graph showing the change in number of directly submitted sequences to Pathoplexus since August 2024. 0 in Aug 2024 to almost 9000 today.
1/ 🚀 Big thanks to our community - since August we’ve added thousands of new sequences, rolled out major new features, and welcomed fresh faces into the #Pathoplexus world. Let’s dive into what’s new.👇🏻
Read the full update: pathoplexus.org/news/2025-11...
We encourage anyone interested in using these data for publications or preprints to reach out to the authors directly. Restricted-Use sharing protects their work and encourages collaborations, while ensuring the sequences are available for public health when needed most.
7/7
Restricted-Use sequences cannot be used for publications or preprints without permission from the data generators. This ensures credit and collaboration, while still supporting urgent response.
6/7
Restricted-Use sequences can be used immediately for public health, outbreak response, and preparedness. This is the main purpose of this option: enabling rapid access when it matters most.
5/7
Screenshot of the Pathoplexus Data Use Terms, focusing on 4.2, Restricted Use Data introduction
Since these sequences are likely to attract interest, it’s worth highlighting again what ‘Restricted-Use’ means on Pathoplexus.
Data Use Terms for Restricted-Use data: pathoplexus.org/about/terms-...
4/7
Screenshot of the search page on Pathoplexus showing the first 4 sequences: their Pathoplexus accession, sample date, collection country and subdivision, authors, affiliations, and length.
We’re grateful these sequences were shared on Pathoplexus. The authors have chosen to share them as ‘Restricted-Use’ - enabling rapid access for public health, while limiting use in publications/preprints.
View the sequences here: pathoplexus.org/ebola-zaire/...
3/7
Screenshot of list of authors, which can be seen in the post link in the first tweet
Behind these sequences are the dedicated teams leading the public health response, sampling, testing, & sequencing. With thanks to Placide Mbala-Kingebeni & team at Institute National de Recherche Biomedicale DRC @inrb_kinshasa.
See the post for a full author list.
2/7
Amid the concerning news of a new Ebola Zaire outbreak in DRC, teams on the ground have already managed to sample, sequence, and share data. This rapid turnaround is a testament to their commitment and capacity to respond.
Read more: virological.org/t/the-16th-e...
1/7
It's our birthday! Super proud of what this little database has become in the past year.
Today we launched support for measles and a bunch of new features 👇
We are so grateful to our contributors, curators, members & partners worldwide ❤️
Here’s to Year 2 - and an even more connected, equitable future for pathogen genomics! 🎊
Read our whole post here: pathoplexus.org/news/2025-08...
10/10
An abstract image showing a world map made of small, colorful lines, as featured on ETH4D website, overlayed with the ETH4D logo itself.
📢 We’re also celebrating a successful ETH4D Research Challenge grant with ETH Zurich @ethz.ch & Stephen Kanyerezi (Uganda) @kanyerezi30.bsky.social to grow Pathoplexus & Loculus – with workshops, training, user feedback & community building.
9/10
💡 New tech:
🔁GISAID accessions can now be linked in metadata for supported pathogens
🖱️Drag your mouse over checkboxes to quickly select multiple sequences
🔎Find sequences faster than ever with the new Accession search at the top of the home page
8/10
Other news:
We’ve received
🧬 256 new direct mpox sequences from Sierra Leone, Portugal, Germany, Côte d’Ivoire, DRC, Ireland & Central African Republic
🧬 308 new direct West Nile sequences from California & Nebraska, USA
7/10
Why now?
• Measles cases have surged in the US in 2025 - real-time genomic tracking is vital
• Global travel + declining vaccination rates raise outbreak risk
• More labs are sequencing MeV than ever before- enabling insights into spread & evolution
6/10
A screenshot of the Pathoplexus homepage, now showing Measles among the other pathogens supported.
🎉 New in August: Measles virus joins Pathoplexus!
Following strong community support, we added MeV data submission (with Open & Restricted-Use options, as always) and powerful search & data access for MeV
pathoplexus.org/measles/search
5/10
