Large scale RNAi screen in Tribolium reveals novel target genes for pest control and the proteasome as prime target.

Autor: Ulrich J; Johann-Friedrich-Blumenbach-Institut, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077, Göttingen, Germany. julia.ulrich@biologie.uni-goettingen.de., Dao VA; Institut für Entwicklungsbiologie, Universität zu Köln, Zülpicher Straße 47b, 50674, Cologne, Germany. daovananh.bio@gmail.com., Majumdar U; Department Biologie, Entwicklungsbiologie, Friedrich-Alexander-Universität Erlangen-Nürnberg, Staudtstraße 5, 91058, Erlangen, Germany. majumdar.upalparna@gmail.com., Schmitt-Engel C; Johann-Friedrich-Blumenbach-Institut, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077, Göttingen, Germany. christian.schmitt-engel@gmx.de., Schwirz J; Johann-Friedrich-Blumenbach-Institut, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077, Göttingen, Germany. Jonas_Schwirz@web.de., Schultheis D; Department Biologie, Entwicklungsbiologie, Friedrich-Alexander-Universität Erlangen-Nürnberg, Staudtstraße 5, 91058, Erlangen, Germany. dorothea.schultheis@gmx.de., Ströhlein N; Department Biologie, Entwicklungsbiologie, Friedrich-Alexander-Universität Erlangen-Nürnberg, Staudtstraße 5, 91058, Erlangen, Germany. nadi.stroehlein@fau.de., Troelenberg N; Department Biologie, Entwicklungsbiologie, Friedrich-Alexander-Universität Erlangen-Nürnberg, Staudtstraße 5, 91058, Erlangen, Germany. Nicole.Troelenberg@gmx.de., Grossmann D; Johann-Friedrich-Blumenbach-Institut, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077, Göttingen, Germany. DaniCory@aol.com., Richter T; Department Biologie, Entwicklungsbiologie, Friedrich-Alexander-Universität Erlangen-Nürnberg, Staudtstraße 5, 91058, Erlangen, Germany. trichter@biologie.uni-erlangen.de., Dönitz J; Johann-Friedrich-Blumenbach-Institut, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077, Göttingen, Germany. juergen.doenitz@ibeetle-base.uni-goettingen.de., Gerischer L; Institut für Mathematik und Informatik, Ernst Moritz Arndt Universität Greifswald, Walther-Rathenau-Straße 47, 17487, Greifswald, Germany. lizzy.gerischer@gmail.com., Leboulle G; Institut für Biologie, Neurobiologie, Freie Universität Berlin, Königin-Luise-Str. 28/30, 14195, Berlin, Germany. gerleb@zedat.fu-berlin.de., Vilcinskas A; Institut für Phytopathologie und Angewandte Zoologie, Justus-Liebig-Universität Gießen, Heinrich-Buff-Ring 26-32, D-35392, Gießen, Germany. Andreas.Vilcinskas@agrar.uni-giessen.de., Stanke M; Institut für Mathematik und Informatik, Ernst Moritz Arndt Universität Greifswald, Walther-Rathenau-Straße 47, 17487, Greifswald, Germany. mario.stanke@uni-greifswald.de., Bucher G; Johann-Friedrich-Blumenbach-Institut, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077, Göttingen, Germany. gbucher1@uni-goettingen.de.
Jazyk: angličtina
Zdroj: BMC genomics [BMC Genomics] 2015 Sep 03; Vol. 16, pp. 674. Date of Electronic Publication: 2015 Sep 03.
DOI: 10.1186/s12864-015-1880-y
Abstrakt: Background: Insect pest control is challenged by insecticide resistance and negative impact on ecology and health. One promising pest specific alternative is the generation of transgenic plants, which express double stranded RNAs targeting essential genes of a pest species. Upon feeding, the dsRNA induces gene silencing in the pest resulting in its death. However, the identification of efficient RNAi target genes remains a major challenge as genomic tools and breeding capacity is limited in most pest insects impeding whole-animal-high-throughput-screening.
Results: We use the red flour beetle Tribolium castaneum as a screening platform in order to identify the most efficient RNAi target genes. From about 5,000 randomly screened genes of the iBeetle RNAi screen we identify 11 novel and highly efficient RNAi targets. Our data allowed us to determine GO term combinations that are predictive for efficient RNAi target genes with proteasomal genes being most predictive. Finally, we show that RNAi target genes do not appear to act synergistically and that protein sequence conservation does not correlate with the number of potential off target sites.
Conclusions: Our results will aid the identification of RNAi target genes in many pest species by providing a manageable number of excellent candidate genes to be tested and the proteasome as prime target. Further, the identified GO term combinations will help to identify efficient target genes from organ specific transcriptomes. Our off target analysis is relevant for the sequence selection used in transgenic plants.
Databáze: MEDLINE
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