The cell expansion phase contributes in determining the major characteristics of a fleshy fruit and represents two-thirds of the total fruit development in tomato (Solanum lycopersicum). So far, it has received very little attention. To evaluate the interest of a genomic scale approach, we performed an initial sequencing of approximately 1,200 cell expansion stage-related sequence tags from tomato fruit at 8, 12, and 15 d post anthesis. Interestingly, up to approximately 35% of the expressed sequence tags showed no homology with available tomato expressed sequence tags and up to approximately 21% with any known gene. Microarrays spotted with expansion phase-related cDNAs and other fruit cDNAs involved in various developmental processes were used (1) to profile gene expression in developing fruit and other plant organs and (2) to compare two growing fruit tissues engaged mostly in cell division (exocarp) or in cell expansion (locular tissue surrounding the seeds). Reverse transcription-polymerase chain reaction analysis was further used to confirm microarray results and to specify expression profiles of selected genes (24) in various tissues from expanding fruit. The wide range of genes expressed in the exocarp is consistent with a protective function and with a high metabolic activity of this tissue. In addition, our data show that the expansion of locular cells is concomitant with the expression of genes controlling water flow, organic acid synthesis, sugar storage, and photosynthesis and suggest that hormones (auxin and gibberellin) regulate this process. The data presented provide a basis for tissue-specific analyses of gene function in growing tomato fruit.After ovule fertilization, early tomato (Solanum lycopersicum) fruit development is characterized by a period of cell division followed by cell expansion, resulting in the formation of large vacuolated cells (Mohr and Stein, 1969). Cell expansion is the longest phase in fruit development and may contribute to 90% of the increase in fruit weight, depending on the cultivar. In addition, cell expansion contributes, along with ripening, to the major structural, biochemical, and physiological changes that characterize a fleshy fruit. The cell wall changes associated with cell enlargement and the continuous accumulation in the vacuole of water, sugars, organic acids, and other compounds are necessary to maintain the turgor pressure of the expanding cells. In addition, these physiological processes contribute significantly to the flavor, texture, and overall attractiveness of the ripe fruit. The succession of the different phases of tomato fruit development is not, however, as clear cut as described above. It varies greatly according to the fruit tissue considered (Joubès et al., 1999). Tomato fruit is a complex organ composed of two or more carpels separated by a radially orientated tissue called septum, which results from the fusion of two adjacent carpel walls (or pericarp). The pericarp encloses the locular cavity containing the seeds attached to a central pa...