@article{1bdf7c40cdd4421da5cefb555114e046,
title = "Comparative genomics of the major parasitic worms",
abstract = "Parasitic nematodes (roundworms) and platyhelminths (flatworms) cause debilitating chronic infections of humans and animals, decimate crop production and are a major impediment to socioeconomic development. Here we report a broad comparative study of 81 genomes of parasitic and non-parasitic worms. We have identified gene family births and hundreds of expanded gene families at key nodes in the phylogeny that are relevant to parasitism. Examples include gene families that modulate host immune responses, enable parasite migration though host tissues or allow the parasite to feed. We reveal extensive lineage-specific differences in core metabolism and protein families historically targeted for drug development. From an in silico screen, we have identified and prioritized new potential drug targets and compounds for testing. This comparative genomics resource provides a much-needed boost for the research community to understand and combat parasitic worms.",
keywords = "Animals, Genome/genetics, Genomics/methods, Helminths/genetics, Humans, Nematoda/genetics, Phylogeny",
author = "{International Helminth Genomes Consortium} and Avril Coghlan and Rahul Tyagi and Cotton, {James A.} and Nancy Holroyd and Rosa, {Bruce A.} and Tsai, {Isheng Jason} and Laetsch, {Dominik R.} and Beech, {Robin N.} and Day, {Tim A.} and Kymberlie Hallsworth-Pepin and Ke, {Huei Mien} and Kuo, {Tzu Hao} and Lee, {Tracy J.} and John Martin and Maizels, {Rick M.} and Prudence Mutowo and Philip Ozersky and John Parkinson and Reid, {Adam J.} and Rawlings, {Neil D.} and Ribeiro, {Diogo M.} and Swapna, {Lakshmipuram Seshadri} and Eleanor Stanley and Taylor, {David W.} and Wheeler, {Nicolas J.} and Mostafa Zamanian and Xu Zhang and Fiona Allan and Allen, {Judith E.} and Kazuhito Asano and Babayan, {Simon A.} and Germanus Bah and Helen Beasley and Bennett, {Hayley M.} and Bisset, {Stewart A.} and Estela Castillo and Joseph Cook and Cooper, {Philip J.} and Teresa Cruz-Bustos and Carmen Cu{\'e}llar and Eileen Devaney and Doyle, {Stephen R.} and Eberhard, {Mark L.} and Aidan Emery and Eom, {Keeseon S.} and Gilleard, {John S.} and Daria Gordon and Yvonne Harcus and Bhavana Harsha and Hawdon, {John M.}",
note = "Funding Information: We thank: the WSI DNA Pipeline teams, particularly C. Griffiths, N. Park, L. Shirley, M. Quail, D. Willey and M. Jones; WSI Pathogen Informatics, especially J. Keane; T.D. Otto for bioinformatics advice; MGI faculty and staff, especially M. Schmidt, C. Fronick, M. Cordes, T. Miner, R. Fulton and other members of the Project Management, Resource Bank, Library Construction and Data Production teams; D. Hughes, M. Muffato at the European Bioinformatics Institute, for support running Maker and Ensembl Compara; and K. Gharbi and his staff at Edinburgh Genomics for support; V. Gelmedin, R. Fujiwara, F. Brazil, the late Purnomo (University of Indonesia, Jakarta), J. Ahringer, E.S. Hern{\'a}ndez Redondo, F. Jackson, E. Redman, A. Ito, J. Salda{\~n}a, M. Fernanda Dominguez, W. Gause, M. Badets, I.E. Samonte, A. Koehler, M. Nielsen, L.S. Mansfield, T. Sonstegard for sample preparation. The work was supported by funding from Wellcome (206194), Medical Research Council (MR/L001020/1), and Biotechnology and Biological Sciences Research Council (BB/K020048/1) to M.B., and US National Institutes of Health (NIH)–National Human Genome Research Institute grant number U54HG003079, National Institute of Allergy and Infectious Diseases grant number AI081803, and National Institute of General Medical Sciences grant number GM097435 to M.M. Genome sequencing and analysis in Edinburgh was supported by EU SICA award 242131 {\textquoteleft}Enhanced Protective Immunity Against Filariasis{\textquoteright} (EPIAF) (to D.W.T.). S.A. Babayan. was also supported by the EU project EPIAF. G. Koutsovoulos was supported by a BBSRC/Edinburgh University PhD scholarship and D.R.L. by a joint Edinburgh University/James Hutton Institute PhD scholarship. J.E.A. was supported by MRC grant MR/K01207X/1. J.P. and S.S. were supported by the National Institutes of Health/NIAID (R21 AI126466) and the Natural Sciences and Engineering Research Council of Canada (RGPIN-2014-06664). Additional computing resources were provided through Compute Canada by the University of Toronto SciNet HPC Consortium. R.M.M. was supported by a Wellcome Investigator Award (ref. 106122) and Wellcome core funding to the Wellcome Centre for Molecular Parasitology (Ref 104111). J.B.M. was supported by the Scottish Government RESAS. T.S. was supported by the Institute of Parasitology, BC CAS (RVO: 60077344). A.R.L. and P.M. were supported by a Strategic Award from Wellcome (WT104104/Z/14/Z) and the Member States of the European Molecular Biology Laboratory (EMBL). Schistosome samples were obtained from the SCAN repository (Wellcome grant 104958). Publisher Copyright: {\textcopyright} 2018, The Author(s).",
year = "2019",
month = jan,
day = "1",
doi = "10.1038/s41588-018-0262-1",
language = "English",
volume = "51",
pages = "163--174",
journal = "Nature Genetics",
issn = "1061-4036",
publisher = "Springer Nature",
number = "1",
}