Pipeline for imaging and automated analysis

Reference:

Deja-Muylle A.,  Parizot B.,  Motte H.,  Beeckman T.,(2020), Exploiting natural variation in root system architecture via genome-wide association studies, Journal of Experimental Botany, Volume 71, Issue 8, 2379–2389.

Unlike most animals, plants have the capacity to constantly develop new organs post-embryonically throughout their lifespan. A prime example of this feature is the de novo formation of lateral roots . Lateral roots are formed in a regular pattern along the primary root axis. This regular pattern is ensured by a periodic specification of founder cells. In this project, we aim at dissecting the gene regulatory networks underlying this event in Arabidopsis using cutting edge technologies. 

Plant parasitic nematodes (PPNs) cause severe biotic stress in plants and pose a serious threat to several crops worldwide. More specifically, nematode infections can lead to the formation of root galls or damage the root, as well as to aboveground symptoms such as leaf chlorosis and necrosis, possible wilting, stunted and patchy growth, and predisposition to various pathogenic fungi.

Root system architecture and physiology are pivotal in efficiently extracting nutrients from the soil. Roots spread out and delve deep into the soil to access various nutrient sources. Lateral roots and root hairs enhance the surface area available for absorption. Conversely, nutrient availability and deficiencies influence root system architecture in diverse ways.

Compelling fossil evidence revealed that roots evolved in a stepwise manner and independently in Lycophytes and Euphyllophytes. Lateral root branching appeared in euphyllophyte (Equisetopsida, ferns and lignophytes) lineage during the middle Devonian and early carboniferous periods.

Lateral root (LR) branching appeared in euphyllophyte clade (ferns and seed plants). In the model plant Arabidopsis thaliana, LRs originate from pericycle cells. In ferns, it is generally assumed that LRs are originally formed from the endodermal cell layer.