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Mol Ecol

Title:		"Genomics of hybrid poplar (Populus trichocarpax deltoides) interacting with forest tent caterpillars (Malacosoma disstria): normalized and full-length cDNA libraries, expressed sequence tags, and a cDNA microarray for the study of insect-induced defences in poplar"
Author(s):		Ralph S; Oddy C; Cooper D; Yueh H; Jancsik S; Kolosova N; Philippe RN; Aeschliman D; White R; Huber D; Ritland CE; Benoit F; Rigby T; Nantel A; Butterfield YS; Kirkpatrick R; Chun E; Liu J; Palmquist D; Wynhoven B; Stott J; Yang G; Barber S; Holt RA; Siddiqui A; Jones SJ; Marra MA; Ellis BE; Douglas CJ; Ritland K; Bohlmann J;
Address:		"Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada, V6T 1Z3"
Journal Title:		Mol Ecol
Year:		2006
Volume:		15
Issue:		5
Page Number:		1275 - 1297
DOI:		10.1111/j.1365-294X.2006.02824.x
ISSN/ISBN:		0962-1083 (Print) 0962-1083 (Linking)
Abstract:		"As part of a genomics strategy to characterize inducible defences against insect herbivory in poplar, we developed a comprehensive suite of functional genomics resources including cDNA libraries, expressed sequence tags (ESTs) and a cDNA microarray platform. These resources are designed to complement the existing poplar genome sequence and poplar (Populus spp.) ESTs by focusing on herbivore- and elicitor-treated tissues and incorporating normalization methods to capture rare transcripts. From a set of 15 standard, normalized or full-length cDNA libraries, we generated 139,007 3'- or 5'-end sequenced ESTs, representing more than one-third of the c. 385,000 publicly available Populus ESTs. Clustering and assembly of 107,519 3'-end ESTs resulted in 14,451 contigs and 20,560 singletons, altogether representing 35,011 putative unique transcripts, or potentially more than three-quarters of the predicted c. 45,000 genes in the poplar genome. Using this EST resource, we developed a cDNA microarray containing 15,496 unique genes, which was utilized to monitor gene expression in poplar leaves in response to herbivory by forest tent caterpillars (Malacosoma disstria). After 24 h of feeding, 1191 genes were classified as up-regulated, compared to only 537 down-regulated. Functional classification of this induced gene set revealed genes with roles in plant defence (e.g. endochitinases, Kunitz protease inhibitors), octadecanoid and ethylene signalling (e.g. lipoxygenase, allene oxide synthase, 1-aminocyclopropane-1-carboxylate oxidase), transport (e.g. ABC proteins, calreticulin), secondary metabolism [e.g. polyphenol oxidase, isoflavone reductase, (-)-germacrene D synthase] and transcriptional regulation [e.g. leucine-rich repeat transmembrane kinase, several transcription factor classes (zinc finger C3H type, AP2/EREBP, WRKY, bHLH)]. This study provides the first genome-scale approach to characterize insect-induced defences in a woody perennial providing a solid platform for functional investigation of plant-insect interactions in poplar"
Keywords:		"Animals DNA, Complementary/genetics Enzymes/genetics Evolution, Molecular Expressed Sequence Tags Gene Library Genotype Insect Proteins/genetics Lepidoptera/classification/*genetics/pathogenicity Nucleic Acid Hybridization Oligonucleotide Array Sequence A;"
Notes:		"MedlineRalph, Steven Oddy, Claire Cooper, Dawn Yueh, Hesther Jancsik, Sharon Kolosova, Natalia Philippe, Ryan N Aeschliman, Dana White, Rick Huber, Dezene Ritland, Carol E Benoit, Francois Rigby, Tracey Nantel, Andre Butterfield, Yaron S N Kirkpatrick, Robert Chun, Elizabeth Liu, Jerry Palmquist, Diana Wynhoven, Brian Stott, Jeffrey Yang, George Barber, Sarah Holt, Robert A Siddiqui, Asim Jones, Steven J M Marra, Marco A Ellis, Brian E Douglas, Carl J Ritland, Kermit Bohlmann, Jorg eng Research Support, Non-U.S. Gov't England 2006/04/22 Mol Ecol. 2006 Apr; 15(5):1275-97. doi: 10.1111/j.1365-294X.2006.02824.x"