Tag: Systems Biology

I really enjoyed this review article, which very successfully introduces the reader to the why and how of how to apply network science to plant science. Bassel never veers off into abstraction or “math-speak”, but instead roots his explanations in familiar biological or ordinary terms. As an example,…

Most plants depend on microbial partners (symbionts) to help them take up nutrients from the soil. Lu and Hedin set out to identify how these plant-symbiont partnerships contribute to plant distributions and biogeochemical cycles, using an evolution-based modelling approach. The model takes into account…

Potato is susceptible to many pathogens. To facilitate breeding programs, Ramšak et al. combined transcriptomic data from potato/virus interactions with a defense network model developed mainly from Arabidopsis. Their model revealed a previously undescribed interaction between ethylene and salicylate…

In this excellent review, Lavarenne et al. provide an accessible introduction to the tools and objectives of gene regulatory network (GRN) analysis. They include a glossary, show diagrams displaying different stages of GRN analysis, and provide links to key papers in which different methods have been…

This week's papers were seleted by Renee Dale. Renee is a PhD student in biology and an MS student in statistics at Loiusiana State University who is studying mathematical biology and biostatistics for plant biology applications. She is also working on an educational video game! Renee selected these…

The establishment and enormous developments in -omics and systems biology over the last years have increased our understanding and ability to analyze complex biological processes at entire plant, organ or tissue levels. However, these arrays of datasets have the limitation of cellular complexity in terms…

While much is known about the processes involved in stomatal movement and the processes involved in the transpiration of leaves, there has been no framework to bridge this micro-macro divide. Wang and colleagues bridge this divide through OnGuard2, a quantitative systems platform that uses the molecular…

Schmidt et al. demonstrate that nanopore technology can be applied to plant genomes https://doi.org/10.1105/tpc.17.00521 By Schmidt, M. H.-W., Vogel, A., Denton, A. K., Bolger, A. M., Bolger, M. E., and Usadel, B. Background: An organism’s genome contains all the necessary information for its…