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Background  Flower development directly affects fruit production in tomato. Despite the framework mediated by ABC genes have been established in Arabidopsis, the spatiotemporal precision of floral development in tomato has not been well examined.    Results  Here, we analyzed a novel tomato  stamenless like flower  ( slf ) mutant in which the development of stamens and carpels is disturbed, with carpelloid structure formed in the third whorl and ectopic formation of floral and shoot apical meristem in the fourth whorl. Using bulked segregant analysis (BSA), we assigned the causal mutation to the gene  Solanum lycopersicum GT11  ( SlGT11 ) that encodes a transcription factor belonging to Trihelix gene family.  SlGT11  is expressed in the early stages of the flower and the expression becomes more specific to the primordium position corresponding to stamens and carpels in later stages of the floral development. Further RNAi silencing of  SlGT11  verifies the defective phenotypes of the  slf  mutant. The carpelloid stamen in  slf  mutant indicates that SlGT11 is required for B-function activity in the third whorl. The failed termination of floral meristem and the occurrence of floral reversion in  slf  indicate that part of the C-function requires SlGT11 activity in the fourth whorl. Furthermore, we find that at higher temperature, the defects of  slf  mutant are substantially enhanced, with petals transformed into sepals, all stamens disappeared, and the frequency of ectopic shoot/floral meristem in fourth whorl increased, indicating that SlGT11 functions in the development of the three inner floral whorls. Consistent with the observed phenotypes, it was found that B, C and an E-type MADS-box genes were in part down regulated in  slf  mutants.    Conclusions  Together with the spatiotemporal expression pattern, we suggest that  SlGT11  functions in floral organ patterning and maintenance of floral determinacy in tomato.    Supplementary Information  The online version contains supplementary material available at 10.1186/s12870-020-02760-2.

SlGT11 controls floral organ patterning and floral determinacy in tomato