Sebastian Duchene Garzon

Emergence, continuity, and evolution of Yersinia pestis throughout medieval and early modern Denmark.

Katherine Eaton, Ravneet K Sidhu, Jennifer Klunk, Julia A Gamble, Jesper L Boldsen, Ann G Carmichael, Nükhet Varlık, Sebastian Duchene, Leo Featherstone, Vaughan Grimes, G Brian Golding, Sharon N DeWitte, Edward C Holmes, Hendrik N Poinar

Journal article  |  2023  |  Curr Biol

The historical epidemiology of plague is controversial due to the scarcity and ambiguity of available data.1,2 A common source of ..

Evolutionary rate of SARS-CoV-2 increases during zoonotic infection of farmed mink

Ashleigh F Porter, Damian FJ Purcell, Benjamin P Howden, Sebastian Duchene

Journal article  |  2023  |  VIRUS EVOLUTION

To investigate genetic signatures of adaptation to the mink host, we characterised the evolutionary rate heterogeneity in mink-ass..

Plagued by a cryptic clock: insight and issues from the global phylogeny of Yersinia pestis

Katherine Eaton, Leo Featherstone, Sebastian Duchene, Ann GG Carmichael, Nukhet Varlik, G Brian Golding, Edward CC Holmes, Hendrik NN Poinar

Journal article  |  2023  |  COMMUNICATIONS BIOLOGY

Plague has an enigmatic history as a zoonotic pathogen. This infectious disease will unexpectedly appear in human populations and ..

Promiscuous evolution of Group A Streptococcal M and M-like proteins.

Hannah R Frost, Julien Guglielmini, Sebastian Duchêne, Jake A Lacey, Martina Sanderson-Smith, Andrew C Steer, Mark J Walker, Anne Botteaux, Mark R Davies, Pierre R Smeesters

Journal article  |  2023  |  Microbiology (Reading)

Group A Streptococcus (GAS) M and M-like proteins are essential virulence factors and represent the primary epidemiological marker..

Phylodynamic signatures in the emergence of community-associated MRSA.

Eike Steinig, Izzard Aglua, Sebastian Duchene, Michael T Meehan, Mition Yoannes, Cadhla Firth, Jan Jaworski, Jimmy Drekore, Bohu Urakoko, Harry Poka, Clive Wurr, Eri Ebos, David Nangen, Elke Müller, Peter Mulvey, Charlene Jackson, Anita Blomfeldt, Hege Vangstein Aamot, Moses Laman, Laurens Manning, et al.

Journal article  |  2022  |  Proc Natl Acad Sci U S A

Community-associated, methicillin-resistant Staphylococcus aureus (MRSA) lineages have emerged in many geographically distinct reg..

Phytest: quality control for phylogenetic analyses

Wytamma Wirth, Simon Mutch, Robert Turnbull, Sebastian Duchene

Journal article  |  2022  |  BIOINFORMATICS

MOTIVATION: The ability to automatically conduct quality control checks on phylogenetic analyses is becoming more important with t..

New rules for genomics-informed COVID-19 responses-Lessons learned from the first waves of the Omicron variant in Australia

Ashleigh F Porter, Norelle Sherry, Patiyan Andersson, Sandra A Johnson, Sebastian Duchene, Benjamin P Howden

Journal article  |  2022  |  PLOS GENETICS

Persistence of Rare Salmonella Typhi Genotypes Susceptible to First-Line Antibiotics in the Remote Islands of Samoa

Michael J Sikorski, Tracy H Hazen, Sachin N Desai, Susana Nimarota-Brown, Siaosi Tupua, Michelle Sialeipata, Savitra Rambocus, Danielle J Ingle, Sebastian Duchene, Susan A Ballard, Mary Valcanis, Sara Zufan, Jianguo Ma, Jason W Sahl, Mailis Maes, Gordon Dougan, Robert E Thomsen, Roy M Robins-Browne, Benjamin P Howden, Take K Naseri, et al.

Journal article  |  2022  |  MBIO

For decades, the remote island nation of Samoa (population ~200,000) has faced endemic typhoid fever despite improvements in water..

Lymphocytic Choriomeningitis Virus Infection, Australia

Leon Caly, Ashleigh F Porter, Joanna Chua, James P Collet, Julian D Druce, Michael G Catton, Sebastian Duchene

Journal article  |  2022  |  EMERGING INFECTIOUS DISEASES

During a mouse plague in early 2021, a farmer from New South Wales, Australia, sought treatment for aseptic meningitis and was sub..

Genomic epidemiology of Salmonella Typhi in Central Division, Fiji, 2012 to 2016

Mark R Davies, Sebastian Duchene, Mary Valcanis, Aaron P Jenkins, Adam Jenney, Varanisese Rosa, Andrew J Hayes, Aneley Getahun Strobel, Liam McIntyre, Jake A Lacey, Elizabeth J Klemm, Vanessa K Wong, Aalisha Sahukhan, Helen Thomson, Andrew Page, Dianna Hocking, Nancy Wang, Litia Tudravu, Eric Rafai, Gordon Dougan, et al.

Journal article  |  2022  |  LANCET REGIONAL HEALTH-WESTERN PACIFIC

BACKGROUND: Typhoid fever is endemic in some Pacific Island Countries including Fiji and Samoa yet genomic surveillance is not rou..