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Rorippa islandica is a genetically accessible dicot model system to study flooding tolerance

ABSTRACT: Most crop species cannot survive flooding events for a long period of time. However, within the Cardamineae tribe of the Brassicaceae family, there exist several wild species with high flooding tolerance. Here, Rorippa islandica was identified as a genetically accessible diploid species with high submergence tolerance. Another diploid species from the same genus, R. stylosa, showed similar submergence sensitivity compared with Arabidopsis. Both species exhibited a strong and partially overlapping transcriptomic response to submergence within the first 48 hours of stress, including carbon-starvation and ethylene-responsive marker genes. We demonstrate that R. islandica can be transformed via floral dip, but with rather low frequency. The successful CRISPR-Cas9-mediated knockout of RiBCA3 confirms the suitability of this species for genetic transformation. However, although it was hypothesized that RiBCA3 might have an important function in carbon fixation under water, no differences in submergence survival or underwater photosynthesis were observed between wildtype and bca3 knockout lines. The molecular mechanisms of submergence tolerance of Rorippa islandica are therefore not understood yet. The data indicate that illumination and therefore photosynthesis-associated processes must be the basis for superior submergence survival. This work suggests that Rorippa islandica is a promising dicot model to further investigate the underlying tolerance mechanisms.

ORGANISM(S): Rorippa pyrenaica Rorippa islandica

PROVIDER: GSE295090 | GEO | 2025/12/31

REPOSITORIES: GEO

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Project description:Purpose: The State of Rio Grande do Sul is the largest producer of peaches from Brazil. However, it still has low values of productivity when compared to other States. One of the problems associated to it this is the occurrence of drainage soils problems, which can suffer flooding situations potentially hampering the development and productivity such culture. For studies to assist in the selection of flood tolerant genotypes, it is essential to understand the physiological and molecular changes of the plants in situations of oxygen deprivation. Using Illumina Hiseq2500 we performed transcriptome analysis of leaves from ‘Capdeboscq’ (Prunus persica) and ‘Julior’ (Prunus insititia x Prunus domestica) rootstocks under flooding for 48 hours. Methods: The mRNA of Prunus spp. plants cv. Capdeboscq e Julior was generated using deep sequencing, in triplicate, using Illumina Hi-Seq 2500, for the following treatments:I) control: plants received irrigation daily until field capacity; and II) plants exposed to flood stress, maintaining a water level of approximately 3 cm above the ground. The sequence reads that passed quality filters were analyzed at the transcript level using this method: Mapping using STAR and identification of differentially expressed genes (DEGs) was performed with the edgeR (false discovery rates - FDRs of <0.05). RT–qPCR validation was performed using SYBR Green assays. Results: Flooding stress causes important high transcriptional changes in the ‘Capdeboscq’ compared to 'Julior' and this is mainly due to their sensitivity/tolerance levels. ‘Capdeboscq’ had photosynthesis as the most affected physiological process at the molecular level, showing a large number of down-regulated enriched GOs, even though it activated cellular signaling pathways under flooding. 'Julior' was more efficient in defense responses, which include the activation of flavonoid biosynthesis pathways. Conclusions: The analysis of two Prunus spp. rootstocks contrasting to the level of tolerance / sensitivity provide new insights into the process of plant flood stress tolerance.

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Rorippa islandica is a genetically accessible dicot model system to study flooding tolerance

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