Daff, J. | Search bioRxiv

bioRxiv2025

Accurately Programming Complex Light Regimes with Multi-channel LEDs

BackgroundAdvances in LED lighting technologies have allowed researchers to explore increasingly complex light regimes. This has given us greater insight into plants responses to dynamic light, including seasonality and fluctuating conditions, rather than the discrete (i.e. on / off) lighting previously explored. However, there is a need for methods to accurately program multi-channel / waveband LED lighting systems. ResultsWe present a multi-step, multidimensional algorithm to accurately program LED lights. This algorithm accounts for non-linearity between intensity settings and irradiance output, as well as bleedthrough between channels of different wavebands. Our algorithm out-performs other methods which treat waveband channels as independent variables, more accurately predicting intensity settings to achieve a desired irradiance when using multiple LED channels. ConclusionsThis algorithm allows the community to accurately program complex light regimes to probe plant responses to dynamically changing light spectra. We have made this algorithm available to the plant science community as an R package, LightFitR (available on GitHub at: https://github.com/ginavong/LightFitR).

plant biology↗

bioRxiv2025

Assembly and annotation of Solanum dulcamara and Solanum nigrum plant genomes, two nightshades with different susceptibilities to Ralstonia solanacearum

To understand why close wild plant relatives of crops, such as Solanum dulcamara, are resistant to Ralstonia solanacearum we need genetic resources to perform comparative studies and identify key genes and pathways. We de-novo assembled and annotated the genome of resistant S. dulcamara and susceptible Solanum nigrum plants using a hybrid approach including Oxford Nanopore Technologies and Illumina sequencing. Comparative genomic analysis was then performed to find differences between the genome of S. dulcamara and other susceptible Solanaceous species including potato, tomato, aubergine, and S. nigrum and one susceptible and one resistant S. americanum accession. We identified genes associated with auxin-transport only in S. dulcamara and a collection of pattern recognition receptors (PRRs) was identified in orthogroups only found in plant species with resistant/tolerant phenotype, suggesting novel plant receptors in these accessions that may improve recognition of pathogen-associated molecular patterns (PAMPs) associated with R. solanacearum. We also identified differences in methylation frequency across the gene bodies in both species, which may be associated with epigenetic regulation of resistance. Future work should assess the functional role of these PRRs during bacterial wilt development to determine if they could offer potential novel targets for breeding improved wilt resistance.

plant biology↗