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Expression data from 16H and 24H post-stratification seeds from Arapidopsis thaliana pme36-1 and Col0 lines

ABSTRACT: Pectins localize in the primary cell wall and consist of multiblock co?polymers among which homogalacturonan (HG) is the simplest and most abundant form. Methylesterification pattern of HG is tuned by pectin methylesterases (PMEs), which activity is itself controlled by specific inhibitors or PMEIs. PME?mediated regulation of HG methylesterification plays a major role in controlling several developmental processes, including seed germination and dark grown hypocotyl elongation. Arabidopsis PME36 is preferentially expressed during the late stages of silique development and, using the knock?out mutant pme36-1, we showed that PME36 is required to implement the characteristic pattern of demethylesterified pectins in mature seed. However, although this pattern was strongly impaired in pme36-1 mature seed, no phenotypical change was observed in the mutant during seed germination and seedling dark growth, suggesting the existence of a compensatory mechanism overcoming the defect in pectin demethylesterification. To get insight into this mechanism, a transcriptomic analysis by microarrays was performed on pme36-1 and Col0 wild-type, in seed at two early stages of germination, preceding tegument rupture: 16 hours and 24 hours after transfer from cold room (stratification) to dark growth condition.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE155433 | GEO | 2020/07/31

REPOSITORIES: GEO

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Project description:Seed germination is a complex trait determined by the interaction of hormonal, metabolic, genetic, and environmental components. Variability of this trait in crops has a big impact on seedling establishment and yield in the field. Classical studies of this trait in crops have focused mainly on the analyses of one level of regulation in the cascade of events leading to seed germination. We have carried out an integrative and extensive approach to deepen our understanding of seed germination in Brassica napus by generating transcriptomic, metabolic and hormonal data at different stages upon seed imbibition. Deep phenotyping of different seed germination associated traits in six winter-type B. napus accessions has revealed that seed germination kinetics, in particular seed germination speed, are major contributors to the variability of this trait. Metabolic profiling of these accessions has allowed us to describe a common pattern of metabolic change and to identify the levels of malate and aspartate metabolites as putative metabolic markers to estimate germination performance. Additionally, analysis of seed content of different hormones suggests that hormonal balance between ABA, GA and IAA at crucial time points during this process might underlie seed germination differences in these accessions. In this study, we have also defined the major transcriptome changes accompanying the germination process in B. napus. Furthermore, we have observed that earlier activation of key germination regulatory genes seems to generate the differences in germination speed observed between accessions in B. napus. Finally, we have found that protein-protein interactions between some of these key regulators are conserved in B. napus suggesting a shared regulatory network with other plants species. Altogether, our results provide a comprehensive and detailed picture of seed germination dynamics in oilseed rape. This new framework will be extremely valuable, not only to evaluate germination performance of B. napus accessions, but also to identify key targets for crop improvement in this important process.

Dataset Information

Expression data from 16H and 24H post-stratification seeds from Arapidopsis thaliana pme36-1 and Col0 lines

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