A gene expression map of shoot domains reveals regulatory mechanisms

• Published in: Nature communications Vol. 10; no. 1; p. 141
• Main Authors: Tian, Caihuan, Wang, Ying, Yu, Haopeng, He, Jun, Wang, Jin, Shi, Bihai, Du, Qingwei, Provart, Nicholas J., Meyerowitz, Elliot M., Jiao, Yuling
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 11.01.2019; Nature Publishing Group; Nature Portfolio
• Subjects: 38/91; 631/449/2653/1359; 631/449/2653/2654; 631/449/2653/2655; 631/449/2653/2656; Alternative Splicing; Arabidopsis - embryology; Arabidopsis - genetics; Arabidopsis Proteins - genetics; Base Sequence; GATA Transcription Factors - genetics; Gene expression; Gene Expression Profiling; Gene Expression Regulation, Developmental - genetics; Gene Expression Regulation, Plant - genetics; Gene Regulatory Networks - genetics; Gene sequencing; Homeodomain Proteins - genetics; Humanities and Social Sciences; Leaves; Life Sciences; Meristem - genetics; Meristem - growth & development; multidisciplinary; Plant cells; Plant Leaves - growth & development; Polarity; Purification; Regulatory mechanisms (biology); Repressor Proteins - genetics; Ribonucleic acid; RNA; Science; Science (multidisciplinary); Sequence Analysis, RNA; Stem cells; Transcription factors; Transcription Factors - genetics; Vegetal Biology
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-018-08083-z

Gene regulatory networks control development via domain-specific gene expression. In seed plants, self-renewing stem cells located in the shoot apical meristem (SAM) produce leaves from the SAM peripheral zone. After initiation, leaves develop polarity patterns to form a planar shape. Here we compare translating RNAs among SAM and leaf domains. Using translating ribosome affinity purification and RNA sequencing to quantify gene expression in target domains, we generate a domain-specific translatome map covering representative vegetative stage SAM and leaf domains. We discuss the predicted cellular functions of these domains and provide evidence that dome seemingly unrelated domains, utilize common regulatory modules. Experimental follow up shows that the RABBIT EARS and HANABA TARANU transcription factors have roles in axillary meristem initiation. This dataset provides a community resource for further study of shoot development and response to internal and environmental signals. The shoot apical meristem (SAM) maintains stem cells and generates new leaves and flowers from its periphery. Here via spatially resolved translatome profiling, Tian et al. define distinct molecular signatures of different SAM and leaf domains and identify regulators of axillary meristem initiation.