James Cotton

James Cotton

Senior Staff Scientist

Wellcome Sanger Institute

I am a researcher working on the genetics and genomics of eukaryotic parasites, particularly on parasites that cause neglected tropical diseases. I particularly enjoy working collaboratively, on projects that have both some implications for reducing the burder of NTDs but also raise interesting questions about the genetics or biology of the parasites themselves, or at least require some fun analyses.

For the last ten years, I have been a senior member of the parasite genomics group at the Wellcome Sanger Institute with Matt Berriman. My research has focused on building genomic data resources for eukaryotic parasites, and then using those tools to understand various aspects of parasite biology. I am particularly interested in generating large-scale data on parasite genetic variation, and in understanding parasite population genetics, evolution and epidemiology. I have worked on quite a wide range of organisms, particularly Leishmania, the nematodes Haemonchus contortus and Guinea worm (Dracunculus medinensis), and recently Schistosoma.

  • Parasites
  • Genomics
  • Neglected Tropical Diseases
  • Evolutionary Biology
  • Bioinformatics


Associate Editor
Apr 2020 – Present
Honorary Senior Lecturer
Jul 2016 – Present London
Senior Staff Scientist
Jul 2010 – Present Hinxton, UK



Recent Publications

(2021). Whole-genome sequencing of Schistosoma mansoni reveals extensive diversity with limited selection despite mass drug administration. In Nature Communications 12:4776.

PDF Cite Code DOI publisher Duncan Berger ERR code Tom Crellen Webster lab

(2021). Endosymbiont Capture, a Repeated Process of Endosymbiont Transfer with Replacement in Trypanosomatids Angomonas spp.. In Pathogens 10(6): 702.

PDF Cite DOI publisher Tomáš Skalický Yurchenko lab

(2021). Immunological factors, but not clinical features, predict visceral leishmaniasis relapse in patients co-infected with HIV. bioRxiv.

PDF Project DOI bioRxiv Yegnasew Takele

(2021). Long-read assembly and comparative evidence-based reanalysis of Cryptosporidium genome sequences reveal new biological insights. bioRxiv 428682.

PDF DOI bioRxiv Kissinger lab