title: Tissue- and cell-type specific transcriptome profiling of expanding tomato fruit provides insights into metabolic and regulatory specialization and cuticle formation.
abstract: Tomato (Solanum lycopersicum) is the primary model for the study of fleshy fruits, and research in this species has elucidated many aspects of fruit physiology, development, and metabolism. However, most of these studies have involved homogenization of the fruit pericarp, with its many constituent cell types. Here, we describe the coupling of pyrosequencing technology with laser capture microdissection to characterize the transcriptomes of the five principal tissues of the pericarp from tomato fruits (outer and inner epidermal layers, collenchyma, parenchyma, and vascular tissues) at their maximal growth phase. A total of 20,976 high-quality expressed unigenes were identified, of which more than half were ubiquitous in their expression, while others were cell type specific or showed distinct expression patterns in specific tissues. The data provide new insights into the spatial distribution of many classes of regulatory and structural genes, including those involved in energy metabolism, source-sink relationships, secondary metabolite production, cell wall biology, and cuticle biogenesis. Finally, patterns of similar gene expression between tissues led to the characterization of a cuticle on the inner surface of the pericarp, demonstrating the utility of this approach as a platform for biological discovery.
authors: Department of Plant Biology, Cornell University, Ithaca, New York 14853, USA.
authors: Antonio J
authors: AJ
authors: Matas
authors: Trevor H
authors: TH
authors: Yeats
authors: Gregory J
authors: GJ
authors: Buda
authors: Yi
authors: Y
authors: Zheng
authors: Subhasish
authors: S
authors: Chatterjee
authors: Takayuki
authors: T
authors: Tohge
authors: Lalit
authors: L
authors: Ponnala
authors: Avital
authors: A
authors: Adato
authors: Asaph
authors: A
authors: Aharoni
authors: Ruth
authors: R
authors: Stark
authors: Alisdair R
authors: AR
authors: Fernie
authors: Zhangjun
authors: Z
authors: Fei
authors: James J
authors: JJ
authors: Giovannoni
authors: Jocelyn K C
authors: JK
authors: Rose
mesh_terms: D002473:Cell Wall / Q000378:metabolism; D016000:Cluster Analysis; D003577:Cytochrome P-450 Enzyme System / Q000235:genetics; D004734:Energy Metabolism / Q000235:genetics; D005638:Fruit / Q000166:cytology* / Q000235:genetics* / Q000254:growth & development; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D061346:Laser Capture Microdissection / Q000379:methods; D018551:Solanum lycopersicum / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D009928:Organ Specificity; D019441:Plant Epidermis / Q000235:genetics; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism
chemical_list: D014157:Transcription Factors; D003577:Cytochrome P-450 Enzyme System