title: Sequencing and de novo assembly of the transcriptome of the glassy-winged sharpshooter (Homalodisca vitripennis).
abstract: BACKGROUND
  The glassy-winged sharpshooter Homalodisca vitripennis (Hemiptera: Cicadellidae), is a xylem-feeding leafhopper and important vector of the bacterium Xylella fastidiosa; the causal agent of Pierce's disease of grapevines. The functional complexity of the transcriptome of H. vitripennis has not been elucidated thus far. It is a necessary blueprint for an understanding of the development of H. vitripennis and for designing efficient biorational control strategies including those based on RNA interference.
  
  
  RESULTS
  Here we elucidate and explore the transcriptome of adult H. vitripennis using high-throughput paired end deep sequencing and de novo assembly. A total of 32,803,656 paired-end reads were obtained with an average transcript length of 624 nucleotides. We assembled 32.9 Mb of the transcriptome of H. vitripennis that spanned across 47,265 loci and 52,708 transcripts. Comparison of our non-redundant database showed that 45% of the deduced proteins of H. vitripennis exhibit identity (e-value ≤1(-5)) with known proteins. We assigned Gene Ontology (GO) terms, Kyoto Encyclopedia of Genes and Genomes (KEGG) annotations, and potential Pfam domains to each transcript isoform. In order to gain insight into the molecular basis of key regulatory genes of H. vitripennis, we characterized predicted proteins involved in the metabolism of juvenile hormone, and biogenesis of small RNAs (Dicer and Piwi sequences) from the transcriptomic sequences. Analysis of transposable element sequences of H. vitripennis indicated that the genome is less expanded in comparison to many other insects with approximately 1% of the transcriptome carrying transposable elements.
  
  
  CONCLUSIONS
  Our data significantly enhance the molecular resources available for future study and control of this economically important hemipteran. This transcriptional information not only provides a more nuanced understanding of the underlying biological and physiological mechanisms that govern H. vitripennis, but may also lead to the identification of novel targets for biorationally designed control strategies.
authors: Department of Plant Pathology, University of California Davis, Davis, California, United States of America.
authors: Raja Sekhar
authors: RS
authors: Nandety
authors: Shizuo G
authors: SG
authors: Kamita
authors: Bruce D
authors: BD
authors: Hammock
authors: Bryce W
authors: BW
authors: Falk
mesh_terms: D000818:Animals; D020869:Gene Expression Profiling; D023281:Genomics; D006430:Hemiptera / Q000235:genetics* / Q000378:metabolism; D019476:Insect Proteins / Q000235:genetics / Q000378:metabolism; D007605:Juvenile Hormones / Q000378:metabolism; D053858:Metabolic Networks and Pathways; D009928:Organ Specificity; D034741:RNA, Small Interfering / Q000096:biosynthesis / Q000235:genetics; D012689:Sequence Homology, Nucleic Acid
chemical_list: D019476:Insect Proteins; D007605:Juvenile Hormones; D034741:RNA, Small Interfering