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Dictyocaulus viviparus genome, variome and transcriptome elucidate lungworm biology and support future intervention

McNulty, Samantha N. and Strübe, Christina and Rosa, Bruce A. and Martin, John C. and Tyagi, Rahul and Choi, Young-Jun and Wang, Qi and Hallsworth Pepin, Kymberlie and Zhang, Xu and Ozersky, Philip and Wilson, Richard K. and Sternberg, Paul W. and Gasser, Robin B. and Mitreva, Makedonka (2016) Dictyocaulus viviparus genome, variome and transcriptome elucidate lungworm biology and support future intervention. Scientific Reports, 6 . Art. No. 20316. ISSN 2045-2322. PMCID PMC4746573. https://resolver.caltech.edu/CaltechAUTHORS:20160216-122511118

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Abstract

The bovine lungworm, Dictyocaulus viviparus (order Strongylida), is an important parasite of livestock that causes substantial economic and production losses worldwide. Here we report the draft genome, variome, and developmental transcriptome of D. viviparus. The genome (161 Mb) is smaller than those of related bursate nematodes and encodes fewer proteins (14,171 total). In the first genome-wide assessment of genomic variation in any parasitic nematode, we found a high degree of sequence variability in proteins predicted to be involved host-parasite interactions. Next, we used extensive RNA sequence data to track gene transcription across the life cycle of D. viviparus, and identified genes that might be important in nematode development and parasitism. Finally, we predicted genes that could be vital in host-parasite interactions, genes that could serve as drug targets, and putative RNAi effectors with a view to developing functional genomic tools. This extensive, well-curated dataset should provide a basis for developing new anthelmintics, vaccines, and improved diagnostic tests and serve as a platform for future investigations of drug resistance and epidemiology of the bovine lungworm and related nematodes.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1038/srep20316DOIArticle
http://www.nature.com/articles/srep20316PublisherArticle
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4746573/PubMed CentralArticle
ORCID:
AuthorORCID
Sternberg, Paul W.0000-0002-7699-0173
Additional Information:© 2016 Macmillan Publishers Limited. This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ Received: 10 July 2015. Accepted: 26 October 2015. Published: 09 February 2016. This article is dedicated to the memory of Professor Thomas Schnieder. The genome sequencing and annotation work was funded by US National Institutes of Health (NIH)–National Human Genome Research Institute grant U54HG003079 to R.K.W. Comparative genome analysis was funded by NIH/NIAID grant AI081803 to M.M and by Agriculture and Food Research Initiative Competitive Grant no. (2013-67015-21230) from the USDA National Institute of Food and Agriculture. R.B.G’s research was supported by the Australian Research Council (ARC), the National Health and Medical Research Council (NHMRC) of Australia, Alexander von Humboldt Foundation as well as by a Victorian Life Sciences Computation Initiative (VLSCI) grant number VR0007 on its Peak Computing Facility at the University of Melbourne, an initiative of the Victorian Government. We thank the faculty and staff of The McDonnell Genome Institute at Washington University who contributed to this study. Author Contributions: M.M., R.B.G., P.W.S., R.K.W. and C.S. conceived and planned the project. S.N.M. and M.M. led the project, analysis, and manuscript preparation. C.S. provided materials. K.H.P., X.Z., J.C.M. and P.O. were involved in sequence data production, genome assembly, annotation, and data submission to relevant repositories. S.N.M., B.A.R., R.T., Y.C. and Q.W. performed genome-based comparative analyses, host-parasite interaction analyses, variome analyses, and differential expression analyses. S.N.M., B.A.R., R.B.G. and M.M. drafted and edited the manuscript. The authors declare no competing financial interests.
Funders:
Funding AgencyGrant Number
NIHU54HG003079
NIHAI081803
Department of Agriculture2013-67015-21230
Australian Research CouncilUNSPECIFIED
National Health and Medical Research Council (NHMRC)UNSPECIFIED
Alexander von Humboldt FoundationUNSPECIFIED
Victorian Life Sciences Computation Initiative (VLSCI)VR0007
PubMed Central ID:PMC4746573
Record Number:CaltechAUTHORS:20160216-122511118
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20160216-122511118
Official Citation:Dictyocaulus viviparus genome, variome and transcriptome elucidate lungworm biology and support future intervention Samantha N. McNulty, Christina Strübe[…]Makedonka Mitreva Scientific Reports 6, 20316
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:64510
Collection:CaltechAUTHORS
Deposited By: Ruth Sustaita
Deposited On:17 Feb 2016 17:04
Last Modified:03 Oct 2019 09:38

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