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

doi:10.1016/j.exppara.2006.03.003

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 journal › Article › peer-review

48 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 language	English
Pages (from-to)	160-172
Number of pages	13
Journal	Experimental Parasitology
Volume	114
Issue number	3
DOIs	https://doi.org/10.1016/j.exppara.2006.03.003
Publication status	Published - 01 Nov 2006
Externally published	Yes

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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10.1016/j.exppara.2006.03.003

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title = "Transcriptomics tool for the human Schistosoma blood flukes using microarray gene expression profiling",

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.",

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author = "Gobert, {Geoffrey N.} and Russell McInnes and Luke Moertel and Charles Nelson and Jones, {Malcolm K.} and Wei Hu and McManus, {Donald P.}",

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doi = "10.1016/j.exppara.2006.03.003",

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AU - McInnes, Russell

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AU - Nelson, Charles

AU - Jones, Malcolm K.

AU - Hu, Wei

AU - McManus, Donald P.

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AB - 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.

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ER -

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

Abstract

Keywords

ASJC Scopus subject areas

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