Molecular Genetics and Genomics

, Volume 272, Issue 2, pp 138–148

A survey of SL1-spliced transcripts from the root-lesion nematode Pratylenchus penetrans

Authors

    • Genome Sequencing Center, Department of GeneticsWashington University School of Medicine
  • A. A. Elling
    • Interdepartmental Genetics ProgramIowa State University
    • Department of Plant PathologyIowa State University
  • M. Dante
    • Genome Sequencing Center, Department of GeneticsWashington University School of Medicine
  • A. P. Kloek
    • Divergence Inc.
  • A. Kalyanaraman
    • Department of Electrical and Computer EngineeringIowa State University
  • S. Aluru
    • Department of Electrical and Computer EngineeringIowa State University
  • S W. Clifton
    • Genome Sequencing Center, Department of GeneticsWashington University School of Medicine
  • D. McK. Bird
    • The Center for the Biology of Nematode ParasitismNorth Carolina State University
  • T. J. Baum
    • Interdepartmental Genetics ProgramIowa State University
    • Department of Plant PathologyIowa State University
  • J. P. McCarter
    • Genome Sequencing Center, Department of GeneticsWashington University School of Medicine
    • Divergence Inc.
Original Paper

DOI: 10.1007/s00438-004-1054-0

Cite this article as:
Mitreva, M., Elling, A.A., Dante, M. et al. Mol Genet Genomics (2004) 272: 138. doi:10.1007/s00438-004-1054-0

Abstract

Plant-parasitic nematodes are important and cosmopolitan pathogens of crops. Here, we describe the generation and analysis of 1928 expressed sequence tags (ESTs) of a splice-leader 1 (SL1) library from mixed life stages of the root-lesion nematode Pratylenchus penetrans. The ESTs were grouped into 420 clusters and classified by function using the Gene Ontology (GO) hierarchy and the Kyoto KEGG database. Approximately 80% of all translated clusters show homology to Caenorhabditis elegans proteins, and 37% of the C. elegans gene homologs had confirmed phenotypes as assessed by RNA interference tests. Use of an SL1-PCR approach, while ensuring the cloning of the 5′ ends of mRNAs, has demonstrated bias toward short transcripts. Putative nematode-specific and Pratylenchus -specific genes were identified, and their implications for nematode control strategies are discussed.

Keywords

PratylenchusExpressed sequence tags (ESTs)Comparative genomicsGene expressionParasite

Supplementary material

supp_tbls.pdf (252 kb)
sTables (PDF 252 KB)
supp_figs.pdf (24 kb)
sFigures (PDF 25 KB)

Copyright information

© Springer-Verlag 2004