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Bioinformatic exploration of RIO protein kinases of parasitic and free-living nematodes

Breugelmans, Bert and Jex, Aaron R. and Korhonen, Pasi K. and Mangiola, Stefano and Young, Neil D. and Sternberg, Paul W. and Boag, Peter R. and Hofmann, Andreas and Gasser, Robin B. (2014) Bioinformatic exploration of RIO protein kinases of parasitic and free-living nematodes. International Journal for Parasitology , 44 (11). pp. 827-836. ISSN 0020-7519 . http://resolver.caltech.edu/CaltechAUTHORS:20140728-143519002

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Abstract

Despite right open reading frame kinases being essential for life, their functions, substrates and cellular pathways remain enigmatic. In the present study, gene structures were characterised for 26 right open reading frame kinase from draft genomes of parasitic and free-living nematodes. RNA-seq transcription profiles of right open reading frame kinase genes were investigated for selected parasitic nematodes and showed that these kinases are transcribed in developmental stages that infect their mammalian host. Three-dimensional structural models of Caenorhabditis elegans right open reading frame kinases were predicted, and elucidated functional domains and conserved regions in nematode homologs. These findings provide prospects for functional studies of RIO kinase genes in C. elegans and an opportunity for the design and validation of nematode-specific inhibitors of these enzymes in socioeconomic parasitic worms.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1016/j.ijpara.2014.06.005DOIArticle
http://www.sciencedirect.com/science/article/pii/S0020751914001490PublisherArticle
Additional Information:© 2014 Published by Elsevier Ltd. on behalf of Australian Society for Parasitology Inc. Received 1 May 2014, Revised 17 June 2014, Accepted 18 June 2014, Available online 17 July 2014. This project was funded by the National Health and Medical Research Council (NHMRC) of Australia, and the Australian Research Council (ARC). This project was also supported by a Victorian Life Sciences Computation Initiative (VLSCI), Australia, grant number VR0007 on its Peak Computing Facility at the University of Melbourne, Australia an initiative of the Victorian Government. Other support from the Australian Academy of Science, the Australian-American Fulbright Commission, Alexander von Humboldt Foundation, Germany, Melbourne Water Corporation, Australia (R.B.G.) is gratefully acknowledged, as is funding from the Howard Hughes Medical Institute (HHMI), USA, and National Institutes of Health (NIH), USA (P.W.S.). N.D.Y is an NHMRC Early Career Research Fellow (ECRF). Thanks to Brendan Ansell for discussions and advice on the use of i-TASSER. We also acknowledge the contributions of all staff at WormBase (www.wormbase.org). Data for S. ratti (GenBank assembly ID: GCA_000208845.1) and B. malayi (RNA-seq, PRJEB2709) were kindly provided by the Wellcome Trust Sanger Institute, UK (http://www.ebi.ac.uk/ena/data/view/PRJEB2709). We acknowledge the use of the program I-TASSER – © 2013 The Regents of the University of Michigan, USA.
Funders:
Funding AgencyGrant Number
National Health and Medical Research Council (NHMRC) of AustraliaUNSPECIFIED
Australian Research Council (ARC)UNSPECIFIED
Victorian Life Sciences Computation Initiative (VLSCI), Australia, grantVR0007
Australian Academy of ScienceUNSPECIFIED
Australian-American Fulbright CommissionUNSPECIFIED
Alexander von Humboldt FoundationUNSPECIFIED
Melbourne Water Corporation, AustraliaUNSPECIFIED
Howard Hughes Medical Institute (HHMI)UNSPECIFIED
NIHUNSPECIFIED
NHMRC Early Career Research Fellow (ECRF)UNSPECIFIED
Subject Keywords:Parasitic nematode; RIO kinase; Structure; Function
Record Number:CaltechAUTHORS:20140728-143519002
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:20140728-143519002
Official Citation:Bert Breugelmans, Aaron R. Jex, Pasi K. Korhonen, Stefano Mangiola, Neil D. Young, Paul W. Sternberg, Peter R. Boag, Andreas Hofmann, Robin B. Gasser, Bioinformatic exploration of RIO protein kinases of parasitic and free-living nematodes, International Journal for Parasitology, Volume 44, Issue 11, 1 October 2014, Pages 827-836, ISSN 0020-7519, http://dx.doi.org/10.1016/j.ijpara.2014.06.005. (http://www.sciencedirect.com/science/article/pii/S0020751914001490)
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:47534
Collection:CaltechAUTHORS
Deposited By: Ruth Sustaita
Deposited On:29 Jul 2014 17:51
Last Modified:20 Nov 2014 17:52

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