Parasitology Research

, Volume 98, Issue 5, pp 414–424

Detection of putative secreted proteins in the plant-parasitic nematode Heterodera schachtii

  • Bartel Vanholme
  • Makedonka Mitreva
  • Wim Van Criekinge
  • Marc Logghe
  • David Bird
  • James P. McCarter
  • Godelieve Gheysen
Original Paper

DOI: 10.1007/s00436-005-0029-3

Cite this article as:
Vanholme, B., Mitreva, M., Van Criekinge, W. et al. Parasitol Res (2006) 98: 414. doi:10.1007/s00436-005-0029-3

Abstract

The beet cyst nematode Heterodera schachtii is an important pathogen worldwide, but its molecular characterization has been limited to studying individual genes of interest. We undertook a high-throughput genomic approach and drastically increased the number of available sequences for this parasite. A total of 2,662 expressed sequence tags were grouped into 1,212 clusters representing a nonredundant catalog of H. schachtii genes. Implementing a bioinformatic workflow, we identified 50 sequences coding for candidate secreted proteins. All of these contain a putative signal peptide required for entry into the secretory pathway and lack any transmembrane domain. Included are previously postulated cell-wall-degrading enzymes and other parasitism-related genes. Moreover, we provide the first report of an arabinogalactan endo-1,4-β-galactosidase enzyme (EC 3.2.1.89) in animals. As sequence data increase at a rapid rate, developing high-throughput genomic screening is a necessity. The in silico approach described here is an effective way to identify putative secreted proteins and prioritize candidates for further studies.

Abbreviations

aa

amino acid

BLAST

basic local alignment search tool

CBD

cellulose-binding domain

CBP

cellulose-binding protein

cDNA

complementary DNA

EST

expressed sequence tag

HMM

hidden Markov model

J2

second stage juvenile

NN

neural network

nt

nucleotides

ORF

open reading frame

SL

spliced leader

SP

signal peptide

SPIT

secreted proteins identified from tags

SPW

standard pore water

TM

transmembrane

Copyright information

© Springer-Verlag 2005

Authors and Affiliations

  • Bartel Vanholme
    • 1
  • Makedonka Mitreva
    • 2
  • Wim Van Criekinge
    • 1
  • Marc Logghe
    • 3
  • David Bird
    • 4
  • James P. McCarter
    • 2
  • Godelieve Gheysen
    • 1
  1. 1.Molecular Biotechnology DepartmentFaculty of Bioscience Engineering, Ghent UniversityGhentBelgium
  2. 2.Department of GeneticsWashington University School of MedicineSt LouisUSA
  3. 3.DEVGEN NVZwijnaarde-GentBelgium
  4. 4.Center for the Biology of Nematode ParasitismNorth Carolina State UniversityRaleighUSA

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