Floral induction is a crucial developmental step in higher plants. Florigen, a mobile floral activator that is synthesized in the leaf and transported to the shoot apex, was recently identified as a protein encoded by FLOWERING LOCUS T (FT) and its orthologs; the rice florigen is Heading date 3a (Hd3a) protein. The 14-3-3 proteins mediate the interaction of Hd3a with the transcription factor OsFD1 to form a ternary structure called the florigen activation complex on the promoter of OsMADS15, a rice APETALA1 ortholog. However, crucial information, including the spatiotemporal overlap among FT-like proteins and the components of florigen activation complex and downstream genes, remains unclear. Here, we confirm that Hd3a coexists, in the same regions of the rice shoot apex, with the other components of the florigen activation complex and its transcriptional targets. Unexpectedly, however, RNA-sequencing analysis of shoot apex from wild-type and RNA-interference plants depleted of florigen activity revealed that 4,379 transposable elements (TEs; 58% of all classifiable rice TEs) were expressed collectively in the vegetative and reproductive shoot apex. Furthermore, in the reproductive shoot apex, 214 TEs were silenced by florigen. Our results suggest a link between floral induction and regulation of TEs.floral transition | FT-like proteins | shoot apical meristem | transposable elements | rice F loral induction has been studied extensively over the years, and the use of molecular genetics in the model species Arabidopsis thaliana has been particularly successful in identifying genes and genetic pathways that are involved in flower development (1-3). Several key flowering genes sense environmental conditions and activate the proper expression of genes that are essential for floral induction. Once floral induction occurs, further key genes positively and negatively regulate each other in the shoot apex and activate flower identity genes, eventually leading to the formation of flowers (1-3).One of the critical molecules for floral induction is florigen, a mobile floral activator that is produced in leaves and transported to the shoot apex. Many studies now indicate that proteins encoded by Arabidopsis FLOWERING LOCUS T (FT) and its orthologs in other species are florigens (4-8). Transcription of florigen genes is tightly regulated by environmental conditions, and florigen protein is transported from leaves to the shoot apex where it induces the expression of downstream genes to ensure proper flower development. Despite its important role in floral induction, many questions about florigen remain unresolved. They include its molecular function, mechanism of transport, localization in the shoot apex, and the identities of its downstream genes.Rice is a short-day (SD) plant and has two florigens, Heading date 3a (Hd3a) and RICE FLOWERING LOCUS T1 (RFT1), which predominate, respectively, under SD and long-day (LD) conditions (7, 9). When GFP fusions of Hd3a and RFT1 are expressed under their own promoters, GFP fluorescence...