Significance: Few studies have asked at what spatial scale environmental stimuli regulate plant development and when during the patterning process these signals act. We have discovered that plant roots can sense microscale heterogeneity in water availability across their circumference, which causes dramatic differences in the patterning of tissues along this axis. Root branching is a target of such hydropatterning; lateral roots only form on the side of the main root contacting water in soil or agar. We show that hydropatterning is a conserved process in Arabidopsis , maize, and rice and reveal the importance of auxin biosynthesis and transport in regulating this process.

Ethylene aplenty signals soil compaction: It's tough to drive a spade through compacted soil, and plant roots seem to have the same problem when growing in compacted ground. Pandey et al. found that the problem is not, however, one of physical resistance but rather inhibition of growth through a signaling pathway. The volatile plant hormone ethylene will diffuse through aerated soil, but compacted soil reduces such diffusion, increasing the concentration of ethylene near root tissues. The cellular signaling cascades triggered by too much ethylene stop root growth. Therefore, gaseous diffusion serves as a readout of soil compaction for plant roots growing in search of productive nutrition. Science , this issue p. 276

Root branching is critical for plants to secure anchorage and ensure the supply of water, minerals, and nutrients. To date, research on root branching has focused on lateral root development in young seedlings. However, many other programs of postembryonic root organogenesis exist in angiosperms. In cereal crops, the majority of the mature root system is composed of several classes of adventitious roots that include crown roots and brace roots. In this Update, we initially describe the diversity of postembryonic root forms. Next, we review recent advances in our understanding of the genes, signals, and mechanisms regulating lateral root and adventitious root branching in the plant models Arabidopsis (Arabidopsis thaliana), maize (Zea mays), and rice (Oryza sativa). While many common signals, regulatory components, and mechanisms have been identified that control the initiation, morphogenesis, and emergence of new lateral and adventitious root organs, much more remains to be done. We conclude by discussing the challenges and opportunities facing root branching research.

X-ray microcomputed tomography (μCT) is an invaluable tool for visualizing plant root systems within their natural soil environment noninvasively. However, variations in the x-ray attenuation values of root material and the overlap in attenuation values between roots and soil caused by water and organic materials represent major challenges to data recovery. We report the development of automatic root segmentation methods and software that view μCT data as a sequence of images through which root objects appear to move as the x-y cross sections are traversed along the z axis of the image stack. Previous approaches have employed significant levels of user interaction and/or fixed criteria to distinguish root and nonroot material. RooTrak exploits multiple, local models of root appearance, each built while tracking a specific segment, to identify new root material. It requires minimal user interaction and is able to adapt to changing root density estimates. The model-guided search for root material arising from the adoption of a visual-tracking framework makes RooTrak less sensitive to the natural ambiguity of x-ray attenuation data. We demonstrate the utility of RooTrak using μCT scans of maize (Zea mays), wheat (Triticum aestivum), and tomato (Solanum lycopersicum) grown in a range of contrasting soil textures. Our results demonstrate that RooTrak can successfully extract a range of root architectures from the surrounding soil and promises to facilitate future root phenotyping efforts.