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

M. Mitreva, A. A. Elling, M. Dante, A. P. Kloek, A. Kalyanaraman, S. Aluru, S. W. Clifton, D. Mc K. Bird, T. J. Baum, J. P. McCarter

Research output: Contribution to journalReview articlepeer-review

33 Scopus citations

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.

Original languageEnglish
Pages (from-to)138-148
Number of pages11
JournalMolecular Genetics and Genomics
Volume272
Issue number2
DOIs
StatePublished - Sep 2004

Keywords

  • Comparative genomics
  • Expressed sequence tags (ESTs)
  • Gene expression
  • Parasite
  • Pratylenchus

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