title: Potato expressed sequence tag generation and analysis using standard and unique cDNA libraries.
abstract: To help develop an understanding of the genes that govern the developmental characteristics of the potato (Solanum tuberosum), as well as the genes associated with responses to specified pathogens and storage conditions, The Canadian Potato Genome Project (CPGP) carried out 5' end sequencing of regular, normalized and full-length cDNA libraries of the Shepody potato cultivar, generating over 66,600 expressed sequence tags (ESTs). Libraries sequenced represented tuber developmental stages, pathogen-challenged tubers, as well as leaf, floral developmental stages, suspension cultured cells and roots. All libraries analysed to date have contributed unique sequences, with the normalized libraries high on the list. In addition, a low molecular weight library has enhanced the 3' ends of our sequence assemblies. Using the combined assembly dataset, unique tuber developmental, cold storage and pathogen-challenged sequences have been identified. A comparison of the ESTs specific to the pathogen-challenged tuber and foliar libraries revealed minimal overlap between these libraries. Mixed assemblies using over 189,000 potato EST sequences from CPGP and The Institute for Genomics Research (TIGR) has revealed common sequences, as well as CPGP- and TIGR-unique sequences.
authors.affiliation: Canadian Potato Genome Project, BioAtlantech Unit, 921 College Hill Road, Fredericton, New Brunswick, E3B 6Z9, Canada. bflinn@bioatlantech.nb.ca
authors.forename: Barry
authors.initials: B
authors.lastname: Flinn
authors.forename: Charlotte
authors.initials: C
authors.lastname: Rothwell
authors.forename: Rebecca
authors.initials: R
authors.lastname: Griffiths
authors.forename: Martin
authors.initials: M
authors.lastname: Lägue
authors.forename: David
authors.initials: D
authors.lastname: DeKoeyer
authors.forename: Ravinder
authors.initials: R
authors.lastname: Sardana
authors.forename: Patrice
authors.initials: P
authors.lastname: Audy
authors.forename: Claudia
authors.initials: C
authors.lastname: Goyer
authors.forename: Xiu-Qing
authors.initials: XQ
authors.lastname: Li
authors.forename: Gefu
authors.initials: G
authors.lastname: Wang-Pruski
authors.forename: Sharon
authors.initials: S
authors.lastname: Regan
mesh_terms: D018076:DNA, Complementary / Q000737:chemistry / Q000235:genetics; D020224:Expressed Sequence Tags; D018507:Gene Expression Regulation, Developmental; D018506:Gene Expression Regulation, Plant; D015723:Gene Library; D023281:Genomics / Q000379:methods; D017422:Sequence Analysis, DNA; D011198:Solanum tuberosum / Q000235:genetics* / Q000254:growth & development
chemical_list: D018076:DNA, Complementary