Genome-wide identification, phylogenetic analysis, expression profiling, and proteinprotein interaction properties of TOPLESS gene family members in tomato

Yanwei Hao (1) , Xinyu Wang (1) , Xian Li (1, 2) , Carole Bassa (1, 3) , Isabelle Mila (1) , Corinne Audran (1) , Elie Maza (1) , Zhengguo Li (4) , Mondher Bouzayen (1) , Benoît van Der Rest (1) , Mohammed Zouine (1)

1 GBF - Génomique et Biotechnologie des Fruits
2 Zhejiang University
3 LRSV - Laboratoire de Recherche en Sciences Végétales
4 Chongqing University

Members of the TOPLESS gene family emerged recently as key players in gene repression in several mechanisms, especially in auxin perception. The TOPLESS genes constitute, in higher-plant genomes, a small multigenic family comprising four to 11 members. In this study, this family was investigated in tomato, a model plant for Solanaceae species and fleshy fruits. Six open reading frames predicted to encode topless-like proteins (SlTPLs) containing the canonical domains (LisH, CTLH, and two WD40 repeats) were identified in the tomato genome. Nuclear localization was confirmed for all members of the SlTPL family with the exception SlTPL6, which localized at the cytoplasm and was excluded from the nucleus. SlTPL genes displayed distinctive expression patterns in different tomato organs, with SlTPL1 showing the highest levels of transcript accumulation in all tissues tested except in ripening fruit where SlTPL3 and SlTPL4 were the most prominently expressed. To gain insight into the specificity of the different TOPLESS paralogues, a proteinprotein interaction map between TOPLESS and auxin/indole-3-acetic acid (Aux/IAA) proteins was built using a yeast two-hybrid approach. The PPI map enabled the distinction of two patterns: TOPLESS isoforms interacting with the majority of Aux/IAA, and isoforms with limited capacity for interaction with these protein partners. Interestingly, evolutionary analyses of the TOPLESS gene family revealed that the highly expressed isoforms (SlTPL1, SlTPL3, and SlTPL4) corresponded to the three TPL-related genes undergoing the strongest purifying selection, while the selection was much weaker for SlTPL6, which was expressed at a low level and encoded a protein lacking the capacity to interact with Aux/IAAs.

Mots clés: auxin signalling; co-repressor; multigenic family; tomato

Mots clés: Aux; IAA; proteinprotein interactions

Domaines: Sciences du Vivant [q-bio]; Biologie végétale

Yanwei Hao, Xinyu Wang, Xian Li, Carole Bassa, Isabelle Mila, et al.. Genome-wide identification, phylogenetic analysis, expression profiling, and proteinprotein interaction properties of TOPLESS gene family members in tomato. Journal of Experimental Botany, 2014, 65 (4), pp.1013-1023. ⟨10.1093/jxb/ert440⟩. ⟨hal-02636520⟩