TY - JOUR
T1 - Tissue- and cell-type specific transcriptome profiling of expanding tomato fruit provides insights into metabolic and regulatory specialization and cuticle formation
AU - Matas, Antonio J.
AU - Yeats, Trevor H.
AU - Buda, Gregory J.
AU - Zheng, Yi
AU - Chatterjee, Subhasish
AU - Tohge, Takayuki
AU - Ponnala, Lalit
AU - Adato, Avital
AU - Aharoni, Asaph
AU - Stark, Ruth
AU - Fernie, Alisdair R.
AU - Fei, Zhangjun
AU - Giovannoni, James J.
AU - Rose, Jocelyn K. C.
N1 - National Science Foundation [DBI-0606595, IOS-0923312, MCB-0843627]; U.S.-Israel Binational Agricultural Research and Development Fund [IS-4234-09]; USDA Cooperative State Research, Education, and Extension Service [2006-35304-17323]; Cornell University [NYC-184462]; Spanish Ministerio de Educacion y Ciencia; European Research CouncilWe thank Mike Scanlon for use of the laser microdissection system and advice, Karl Niklas for helpful discussion, Tal Isaacson, Gloria LopezCasado, Ami Levi, Geoffrey Vermont, and Jonathan Fuller for technical assistance, and Xian Shun for assistance with FTIR analysis. This work was supported by grants from the National Science Foundation (Plant Genome Program DBI-0606595 and IOS-0923312 Molecular and Cellular Biophysics, MCB-0843627), the U.S.-Israel Binational Agricultural Research and Development Fund (IS-4234-09), the USDA Cooperative State Research, Education, and Extension Service (Grant 2006-35304-17323), and a Cornell University Agricultural Experiment Station-Hatch grant (NYC-184462). A.J.M. was supported by a Spanish Ministerio de Educacion y Ciencia Fulbright fellowship. A. Aharoni is the incumbent of the Adolpho and Evelyn Blum Career Development Chair. Work in the Aharoni lab was supported by the European Research Council Project SAMIT (FP7 program).
PY - 2011/11
Y1 - 2011/11
N2 - 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.
AB - 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.
UR - http://www.scopus.com/inward/record.url?scp=84855184956&partnerID=8YFLogxK
U2 - https://doi.org/10.1105/tpc.111.091173
DO - https://doi.org/10.1105/tpc.111.091173
M3 - مقالة
SN - 1040-4651
VL - 23
SP - 3893
EP - 3910
JO - Plant Cell
JF - Plant Cell
IS - 11
ER -