TobEA: an atlas of tobacco gene expression from seed to senescence.

Edwards, Kieron D; Bombarely, Aureliano; Story, Geraint W; Allen, Fraser; Mueller, Lukas A; Coates, Steve A; Jones, Louise

TobEA: an atlas of tobacco gene expression from seed to senescence.

cam.issuedOnline	2010-02-26
dc.contributor.author	Edwards, Kieron D
dc.contributor.author	Bombarely, Aureliano
dc.contributor.author	Story, Geraint W
dc.contributor.author	Allen, Fraser
dc.contributor.author	Mueller, Lukas A
dc.contributor.author	Coates, Steve A
dc.contributor.author	Jones, Louise
dc.date.accessioned	2011-06-16T16:08:11Z
dc.date.available	2011-06-16T16:08:11Z
dc.date.issued	2010-02-26
dc.date.updated	2011-06-16T16:08:11Z
dc.description	RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are.
dc.description.abstract	BACKGROUND: Transcriptomics has resulted in the development of large data sets and tools for the progression of functional genomics and systems biology in many model organisms. Currently there is no commercially available microarray to allow such expression studies in Nicotiana tabacum (tobacco). RESULTS: A custom designed Affymetrix tobacco expression microarray was generated from a set of over 40k unigenes and used to measure gene expression in 19 different tobacco samples to produce the Tobacco Expression Atlas (TobEA). TobEA provides a snap shot of the transcriptional activity for thousands of tobacco genes in different tissues throughout the lifecycle of the plant and enables the identification of the biological processes occurring in these different tissues. 772 of 2513 transcription factors previously identified in tobacco were mapped to the array, with 87% of them being expressed in at least one tissue in the atlas. Putative transcriptional networks were identified based on the co-expression of these transcription factors. Several interactions in a floral identity transcription factor network were consistent with previous results from other plant species. To broaden access and maximise the benefit of TobEA a set of tools were developed to provide researchers with expression information on their genes of interest via the Solanaceae Genomics Network (SGN) web site. The array has also been made available for public use via the Nottingham Arabidopsis Stock Centre microarray service. CONCLUSIONS: The generation of a tobacco expression microarray is an important development for research in this model plant. The data provided by TobEA represents a valuable resource for plant functional genomics and systems biology research and can be used to identify gene targets for both fundamental and applied scientific applications in tobacco.
dc.identifier.citation	BMC Genomics 2010, 11:142
dc.identifier.eissn	1471-2164
dc.identifier.issn	1471-2164
dc.identifier.uri	http://www.dspace.cam.ac.uk/handle/1810/237861
dc.language.iso	eng
dc.publisher	Springer Science and Business Media LLC
dc.publisher.url	http://dx.doi.org/10.1186/1471-2164-11-142
dc.rights	All Rights Reserved
dc.rights.holder	Edwards et al.; licensee BioMed Central Ltd.
dc.rights.uri	https://www.rioxx.net/licenses/all-rights-reserved/
dc.subject	Chromosome Mapping
dc.subject	Cluster Analysis
dc.subject	Gene Expression Profiling
dc.subject	Gene Expression Regulation, Developmental
dc.subject	Gene Expression Regulation, Plant
dc.subject	Gene Library
dc.subject	Gene Regulatory Networks
dc.subject	Genes, Plant
dc.subject	Genome, Plant
dc.subject	Oligonucleotide Array Sequence Analysis
dc.subject	RNA, Plant
dc.subject	Seeds
dc.subject	Nicotiana
dc.subject	User-Computer Interface
dc.title	TobEA: an atlas of tobacco gene expression from seed to senescence.
dc.type	Article
dc.type.version	Published Version
dcterms.dateAccepted	2010-02-26
prism.publicationName	BMC Genomics
pubs.declined	2017-10-11T13:54:29.570+0100
rioxxterms.versionofrecord	10.1186/1471-2164-11-142