SPP 1530: Flowering Time Control - from Natural Variation to Crop Improvement

PP-14: Staiger

The function of an autonomous pathway component in flowering time control in Arabidopsis and barley

The circadian clock regulated glycine-rich RNA-binding protein AtGRP7 (Arabidopsis thaliana gylcine-rich RNA binding protein 7) promotes floral transition in the long day plant Arabidopsis thaliana. We will compare the role of this glycine-rich RNA-binding protein in flowering time (FTi) control in Arabidopsis thaliana and the role of a homologue, HvGR-RBP1 in Hordeum vulgare. AtGRP7 is associated with several of the known flowering pathways in Arabidopsis. Global profiling of small RNAs by RNA-seq identified a suite of miRNAs including miRNAs associated with FTi control that were differentially expressed in AtGRP7-ox plants vs. wt plants. While the level of these miRNAs was reduced in AtGRP7-ox plants, the levels of the corresponding precursors were elevated, indicating that AtGRP7 affects the processing of microRNA precursor transcripts. In line with this, we could show that AtGRP7 interacts with pri-miRNAs in vivo. We will investigate in detail the impact of AtGRP7 on these FTi-related miRNAs during floral transition. The relevance of the miRNAs and their corresponding targets for the effect of AtGRP7 on FTi will be investigated. Furthermore, we will monitor differences in expression of other types of small RNAs including siRNAs in plants with altered AtGRP7 level during floral transition. In barley, we have obtained TILLING lines with mutations in HvGR-RBP1. We will characterize the flowering behaviour of these lines both in defined light-dark cycles and in the field. Furthermore, we will take a candidate gene approach to identify potential downstream targets of HvGR-RBP1 including FTi related miRNAs and provide insights into the signalling pathways through which HvGR-RBP1 influences FTi. We will address whether the role of AtGRP7 at the intersection between clock control, FTi and pathogen defense in Arabidopsis is conserved for HvGR-RBP1. Overall, the project contributes to the development of a functional cross-species network of FTi regulators, the major strategic aim of SPP1530.


Project-related publications:

Steffen A, Staiger D (2017) Chromatin marks and ambient temperature-dependent flowering strike up a novel liaison. Genome Biology, 2017 18:119 https://doi.org/10.1186/s13059-017-1259-2

Foley S,Gosai SJ, Wang D, Selamoglu N, Solitti AC, Köster T, Steffen A, Lyons E, Daldal F, Garcia BA, Staiger D, Deal RB, Gregory BD (2017). A global view of RNA-protein interactions reveals novel root hair cell fate regulators. Developmental Cell 41, 204-220.e5. http://www.sciencedirect.com/science/article/pii/S1534580717302022

Köster T, Marondedze C, Meyer K, Staiger D (2017) RNA-binding proteins revisited – the emerging Arabidopsis mRNA interactome. Trends in Plant Science 22, 512-526. http://www.sciencedirect.com/science/article/pii/S1360138517300493

Wagner L, Schmal C, Staiger D, Danisman S (2017). The Plant Leaf Movement Analyser (PALMA) - a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana. Plant Methods 13, 2 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5209843/

Jung C, Pillen K, Staiger D, Coupland G, von Korff M (2017) Editorial: Recent Advances in Flowering Time Control. Front. Plant Sci. 7: 2011. https://www.frontiersin.org/research-topics/1728/recent-advances-in-flowering-time-control

Lewinski M, Hallmann A, Staiger D (2016). Genome-wide identification and phylogenetic analysis of plant RNA binding proteins comprising both RNA recognition motifs and contiguous glycine residues. Mol Genet Genomics 291, 763-773 https://link.springer.com/article/10.1007%2Fs00438-015-1144-1

Simpson CG, Fuller J, Calixto CPG, McNicol J, Booth C, Brown JWS, Staiger D (2016). Monitoring Alternative Splicing Changes in Arabidopsis Circadian Clock Genes. Methods in Molecular Biology 1398, 119-132. https://link.springer.com/protocol/10.1007%2F978-1-4939-3356-3_11

Danisman S, Mateos J, Staiger D (2015). Time to network: The molecular blueprint of the circadian timing system in plants. In: Rhythms in Plants, Mancuso, S (ed) 257-276

Meyer K, Köster T, Staiger D (2015). Pre-mRNA Splicing in Plants: In Vivo Functions of RNA-Binding Proteins Implicated in the Splicing Process.
Biomolecules 5, 1717-1740. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4598772/

Staiger D, Simpson GG (2015). Enter exitrons.Genome Biology 16, 136. https://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0704-3

Nolte C, Staiger D (2015). RNA around the clock. Front Plant Sci, doi: 10.3389/fpls.2015.00311

Johansson M, Staiger D (2015). Time to flower: interplay between photoperiod and the circadian clock. J Exp Bot. 66(3):719-730, doi: 10.1093/jxb/eru441

Steffen A, Fischer A, Staiger D (2014). Determination of photoperiodic flowering time control in Arabidopsis and barley. Methods Mol Biol. 2014;1158:285-95. doi: 10.1007/978-1-4939-0700-7_19.

Köster T, Meyer K, Weinholdt C, Smith LM, Lummer M, Speth C, Grosse I, Weigel D, Staiger D (2014). Regulation of pri-miRNA processing by the hnRNP-like protein AtGRP7 in Arabidopsis. Nucl. Acids Res., doi: 10.1093/nar/gku716

Johansson M & Staiger D (2014).  SRR1 is essential to repress flowering in noninductive conditions in Arabidopsis thaliana. J. Exp. Bot., doi: 10.1093/jxb/eru317

Steffen A, Fischer AM, Staiger D (2014) Determination of photoperiodic flowering time control in Arabidopsis and barley. In “Plant Circadian Networks” Methods in Molecuar Biology, in press

Löhr B, Streitner C, Steffen A, Lange T, Staiger D (2014). A glycine-rich RNA-binding protein affects gibberellin biosynthesis in Arabidopsis. Mol. Biol. Rep. doi:10.1007/s11033-013-2878-7.

Streitner C, Simpson CG, Shaw P, Danisman S, Brown JW, Staiger D (2013). Small changes in ambient temperature affect alternative splicing in Arabidopsis thaliana. Plant Signal Behav 8 (7): e24638, doi: 10.4161/psb.24638

Staiger D, Shin J, Johansson M, Davis SJ (2013). The circadian clock goes genomic. Genome Biology 2013, 14:208, doi:10.1186/gb-2013-14-6-208

Staiger D, Brown JWS (2013). Alternative Splicing at the Intersection of Biological Timing, Development, and Stress Responses. Plant Cell 25, http:/​/​dx.​doi.​org/​10.​1105/​tpc.​113.​113803

Schmal C, Reimann P, Staiger D (2013). A Circadian Clock-Regulated Toggle Switch Explains AtGRP7 and AtGRP8 Oscillations in Arabidopsis thaliana. PLoS Computational Biology 9, e1002986.

Baerenfaller K, Bastow R, Beynon J, Brady S, Brendel V, Donaldson S, Dooley R, Forster M, Friesner J, Gifford D, Grotewold E, Gutierrez R, Huala E, Jaiswal P, Joshi H, Kersey P, Liu L, Loraine A, Lyons E, May S, Mayer K, MacLean D, Meyers B, Mueller L, Muller R, Muller HM, Ouellette F, Pires JC, Provart N, Staiger D., Stanzione D, Taylor J, Taylor C, Town C, Toyoda T Vaughn M, Walsh S, Ware D, Weckwerth W (2012) Taking the Next Step: Building an Arabidopsis Information Portal. Plant Cell 24, 2248-2256.

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