Regulation of flowering time in natural conditions

SynthSys is the University of Edinburgh's research organisation in interdisciplinary, Synthetic and Systems Biology, founded in 2012 as the successor to the Centre for Systems Biology at Edinburgh (CSBE).

Project to test effects of temperature cycles on expression of Arabidopsis florigen gene FT, and whether these are mediated by temperature-dependent leaf development or temperature-specific FT expression, or both. Re-used and extended Arabidopsis Framework Model v1 to address this question. Led by Hannah Kinmonth-Schultz in Kim and Imaizumi labs, collaborating with Millar lab.

Project to test effects of natural compared to growth chamber 16:8 LD cycles, on expression of Arabidopsis flowering-time genes, and to define the genetic mechanisms and environmental triggers involved. Led by Young-Hun Song and Akane Kubota in the Imaizumi lab, with collaborators testing plants in parallel in Zurich and Edinburgh.

Assays for model composition here, in order to share model files; potentially training and validation data in other Studies.

Model files for FMv1.5. The model is based on FMv1 of Chew et al. PNAS 2014, which is also in FAIRDOMHub and linked to the Model record as an 'Attribution'. FMv1 was extended in this work by Hannah Kinmonth-Schultz and Daniel Seaton, in Matlab.

Data used for training or testing of the model

Model associated with the following:

Hannah A Kinmonth-Schultz, Melissa J S MacEwen, Daniel D Seaton, Andrew J Millar, Takato Imaizumi, Soo-Hyung Kim, An explanatory model of temperature influence on flowering through whole-plant accumulation of FLOWERING LOCUS T in Arabidopsis thaliana, in silico Plants, Volume 1, Issue 1, 2019, diz006, https://doi.org/10.1093/insilicoplants/diz006

ZIP file of Andrew Millar's pictures showing the growth location and setup on 8th June 2016, for plants that were later harvested at the summer solstice in 2016. Location was at the South edge of King's Buildings campus, outside the shelter belt of trees (so they did not shade the plot). The plot is surrounded by access fencing that also cuts some of the wind, established by UoE greenhouse staff led by Dr. Sophie Haupt. The plants were set up and grown by Sarah Hodge, under a light shade of 4 ...

The samples that were subsequently harvested for RNA extraction in Takato's summer study; pictures from Young Hun and Akane

Approximate dates of plant growth and harvesting by Sarah Hodge and Andrew Millar, University of Edinburgh

This is just a placeholder, to be edited

Approximate dates of plant growth and harvesting by Imaizumi lab, University of Washington in Seattle