Transcriptomics tool for the human Schistosoma blood flukes using microarray gene expression profiling

Geoffrey N. Gobert*, Russell McInnes, Luke Moertel, Charles Nelson, Malcolm K. Jones, Wei Hu, Donald P. McManus

*Corresponding author for this work

Research output: Contribution to journalArticle

44 Citations (Scopus)

Abstract

We report the design, fabrication, and validation of a microarray covering the majority of the Schistosoma japonicum and Schistosoma mansoni transcriptomes. The oligonucleotide microarray contains 12,166 S. mansoni and 7055 S. japonicum target sequences. A confidence threshold of ≤0.001 (P value) was used in all analyses. The cross hybridization potential of the microarray was representative of 10,362 probes detected in both channels, while 12,052 probes hybridised to S. japonicum and 11,254 probes hybridised to S. mansoni. Differential hybridisation consisted of 3422 probes to S. mansoni mRNA and 3103 probes to S. japonicum mRNA. Important biological functions, such as transport, metabolism, immune evasion and host-parasite immunological interplay, cell communication, and sexual maturation are represented on this microarray. This is the first microarray commercially manufactured for studying schistosomes, and the large size and verified quality of the resource demonstrate its power for characterising the schistosome transcriptome.

Original languageEnglish
Pages (from-to)160-172
Number of pages13
JournalExperimental Parasitology
Volume114
Issue number3
DOIs
Publication statusPublished - 01 Nov 2006
Externally publishedYes

Keywords

  • CTP
  • Cy3
  • Cy5
  • cyanine3
  • cyanine5
  • cytidine 5′-triphosphate
  • GEML
  • Gene expression
  • gene expression markup language
  • Gene Ontologies
  • GO
  • h
  • Helminth
  • hours
  • locally weighed scatter plot smoothing
  • LOWESS
  • Microarray
  • min
  • minute
  • nanogram
  • ng
  • PBS
  • phosphate buffer saline
  • photomultiplier tube
  • PMT
  • QIMR
  • Queensland Institute of Medical Research
  • reverse transcriptase
  • revolutions per minute
  • rpm
  • RT
  • s
  • Schistosoma
  • second
  • sodium chloride/sodium phosphate/EDTA buffer
  • SSPE
  • TAE
  • Transcriptome
  • Tris/acetate/EDTA buffer
  • w/v
  • weight/volume

ASJC Scopus subject areas

  • Parasitology
  • Immunology

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