News > Pathoplexus June Update: Outbreak Response, Global Firsts, and a Growing Community
By the Pathoplexus Team - 30 June 2026
Since our last full update in March, Pathoplexus has continued to grow rapidly - with two new pathogens added in response to active outbreaks, hundreds of new sequences from labs across the globe, and a number of exciting firsts for our community. Here, we’ll focus on the new sequences added and some community achievements and talks, and follow up soon with a full post on new technical features and improvements!
Read on for the full update!
As covered in recent dedicated posts, Pathoplexus has added two new pathogens since March in response to active outbreaks:
Andes virus (ANDV), the hantavirus responsible for the current outbreak linked to the MV Hondius, was added on 9 May 2026. Four teams from four countries submitted genomes within days of launch — you can read more in our original ANDV news post.
Ebola Bundibugyo virus (BDBV), added on 19 May 2026 in response to the concurrent BDBV outbreak in the DRC and Uganda. Teams in both countries shared the first near-complete genomes through Pathoplexus within days of outbreak confirmation - read more in our original BDBV news post.
Pathoplexus now hosts over 16,274 directly-submitted sequences. Since our last update in March we’ve received over 5,700 new uploads from a range of organisms and from around the world - including several important firsts.
A summary of our new uploads include:
3,296 new dengue sequences, from DengSeq, Instituto Todos pela Saúde, Brazil (2,259); Molecular Epidemiology Laboratory of Infectious Diseases, University of São Paulo (USP), Brazil (806); GEVOP, ILMD-FioCruz, Instituto Todos pela Saúde, Brazil (192); Institute of Epidemiology, Disease Control and Research (IEDCR), Bangladesh (27); DeZi Project, Angola (6) - the first dengue sequences from Angola; Decode, Institut Pasteur de Dakar, Senegal, from Guinea (4); Unité des Virus Émergents, Aix-Marseille Université, France (2) - the first direct uploads from Martinique
576 new mpox sequences, from Central Public Health Laboratories, Uganda (511) - first mpox sequences uploaded to Pathoplexus from Uganda, shared as part of a genomic characterisation of the 2024/2025 Mpox outbreak in Uganda; Genomics and Bioinformatics Unit @ INSA, Portugal (24); National Institutes of Health, Pakistan (22); NVRL Ireland (7); Genomics Division, ITER, Spain (5); SP_NML_PHAC, Canada (2); MCL, ICMR-NIV Pune, India (2); Virus National Reference Laboratory, Medical University of Vienna, Austria (1); Statens Serum Institut, Denmark (1); Norwegian Institute of Public Health, Norway (1)
510 new RSV-A sequences, from Shared Hospital Laboratory, Sunnybrook Hospital, Toronto, Canada (153); WHO Influenza Collaborating Center, Australia (108); National Emerging Infectious Diseases Laboratory (NEIDL), Boston University, USA (94); NVRL Ireland (93); Respiratory Virus Unit, Hospital Universitari Vall d’Hebron, Barcelona, Spain (53); GEVOP, ILMD-FioCruz, Instituto Todos pela Saúde, Brazil (5); Revisa - Rede de Vigilância Ampliada, Instituto Todos pela Saúde, Brazil (4)
460 new RSV-B sequences, from Shared Hospital Laboratory, Sunnybrook Hospital, Toronto, Canada (186); WHO Influenza Collaborating Center, Australia (124); NVRL Ireland (70); National Emerging Infectious Diseases Laboratory (NEIDL), Boston University, USA (34); Respiratory Virus Unit, Hospital Universitari Vall d’Hebron, Barcelona, Spain (32); GEVOP, ILMD-FioCruz, Instituto Todos pela Saúde, Brazil (10); Revisa - Rede de Vigilância Ampliada, Instituto Todos pela Saúde, Brazil (4)
467 new HMPV sequences, from Respiratory Virus Unit, Hospital Universitari Vall d’Hebron, Barcelona, Spain (452); Revisa - Rede de Vigilância Ampliada, Instituto Todos pela Saúde, Brazil (15)
429 new measles sequences, from PHAC-NML-MMR, Canada (357); Institute of Epidemiology, Disease Control and Research (IEDCR), Bangladesh (39); International Centre for Diarrhoeal Disease Research, Bangladesh (icddr,b) (18) - first direct upload from Bangladesh; Center for Vaccines & Immunology, NICD, South Africa (11); Decode, Institut Pasteur de Dakar, Senegal (2); Tanzania National Public Health Laboratory (2)
On choosing to share measles genomes via Pathoplexus, Dr. Md. Abdullah Omar Nasif, Virologist at the Institute of Epidemiology, Disease Control & Research (IEDCR) in Dhaka, Bangladesh, said:
“The intuitive, user-friendly submission system of Pathoplexus helped us to prepare and submit the Measles genome sequence data rapidly during the ongoing, large-scale Measles outbreak in Bangladesh. The fast, almost immediate release of the sequences helps us to share the findings in real-time with the global scientific community. This represents a significant advancement of genomic data sharing and enhances the utility of pathogen genomics during public health emergencies.”
20 new Andes virus [Hantavirus] sequences, including some sequences from previous surveillance and outbreaks, which are critical for our overall understanding of the virus. The sequences are from, from Programa Hantavirus y Zoonosis, Universidad del Desarrollo - Clínica Alemana, Chile (9) - the first direct upload from Chile and Public Health Agency of Sweden (1); and from the recent MC Hondius outbreak: ErasmusMC Viroscience, Netherlands (2); NICD, South Africa (2); SP_NML_PHAC, Canada (2); Instituto de Salud Carlos III, Spain (2); Institut Pasteur de Dakar, Senegal (1); Institut Pasteur, France (1)
16 new Ebola Bundibugyo sequences related to the ongoing outbreak in the Democratic Republic of Congo (DRC) and Uganda,, from Institut National de Recherche Biomédicale (INRB), DRC (14); Central Public Health Laboratories, Uganda (1); Charité - Universitätsmedizin, Germany (1)
11 new West Nile virus sequences, from Genomics and Bioinformatics Unit @ INSA, Portugal (7); Spiez Laboratory, Switzerland (4) - the first West Nile sequences submitted from Switzerland.
7 new Marburg virus sequences - the first direct uploads of Marburg, from Ethiopia, via Wolday Lab, McMaster University, Canada
Dr Maysa Niazy, postdoctoral fellow from the Department of Medicine at the ]Michael G Decroote Institute for Infectious Disease Research (IDDR)](https://iidr.mcmaster.ca/), at McMaster University in Canada, shared that:
“Generating and sharing high-quality genomic data during outbreaks is essential for understanding viral evolution, tracking transmission, and supporting timely public health responses. We chose to share these Marburg virus genomes through Pathoplexus to facilitate open access, collaboration, and the development of improved genomic surveillance approaches. Making these data available allows researchers worldwide to build on this work and strengthen preparedness for future outbreaks.”
3 new Ebola Zaire sequences, from Institut National de Recherche Biomédicale (INRB), DRC
2 new yellow fever virus sequences - the first direct uploads of yellow fever, from Gambia by Decode, Institut Pasteur de Dakar, Senegal
On the first direct submissions of Yellow Fever sequences to Pathoplexus, Dr Idrissa Dieng, a research scientist from Institute Pasteur de Dakar and Deputy Head of the Measles and Rubella National Reference Center, told us:
“With our team namely Decode we sequenced these Gambian Yellow Fever samples because Africa’s genomic map still has too many blind spots. A 2019 study called it out: a glaring scarcity of publicly available YFV sequences from the continent. That data drought stalls outbreak tracking, muddles transmission routes, and weakens elimination strategies. Uploading to Pathoplexus isn’t just about depositing data, it’s about lighting a fire under African viral genomics, one sequence at a time.”
We continue to be grateful to community members who flag and help resolve issues with sequence data:
Remember that you can always check our minutes from General Assemblies and Executive Board meetings, as well as Executive Board resolutions.