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Background: Natural accessions of Arabidopsis thaliana are characterized by a high level of phenotypic variation that can be used to investigate the extent and mode of selection on the primary metabolic traits. A collection of 54 A. thaliana natural accession-derived lines were subjected to deep genotyping through Single Feature Polymorphism (SFP) detection via genomic DNA hybridization to Arabidopsis Tiling 1.0 Arrays for the detection of selective sweeps, and identification of associations between sweep regions and growth-related metabolic traits. Results: A total of 1,072,557 high-quality SFPs were detected and indications for 3,943 deletions and 1,007 duplications were obtained. A significantly lower than expected SFP frequency was observed in protein-, rRNA-, and tRNA-coding regions and in non- repetitive intergenic regions, while pseudogenes, transposons, and non-coding RNA genes are enriched with SFPs. Gene families involved in plant defence or in signalling were identified as highly polymorphic, while several other families including transcription factors are depleted of SFPs. 198 significant associations between metabolic genes and 9 metabolic and growth-related phenotypic traits were detected with annotation hinting at the nature of the relationship. Five significant selective sweep regions were also detected of which one associated significantly with a metabolic trait. Conclusions: We generated a high density polymorphism map for 54 A. thaliana accessions that highlights the variability of resistance genes across geographic ranges and used it to identify selective sweeps and associations between metabolic genes and metabolic phenotypes. Several associations show a clear biological relationship, while many remain requiring further investigation.
Ice-rich permafrost coasts often undergo rapid erosion, which results in land loss and release of considerable amounts of sediment, organic carbon and nutrients, impacting the near-shore ecosystems. Because of the lack of volumetric erosion data, Arctic coastal erosion studies typically report on planimetric erosion. Our aim is to explore the relationship between planimetric and volumetric coastal erosion measurements and to update the coastal erosion rates on Herschel Island in the Canadian Arctic. We used high-resolution digital elevation models to compute sediment release and compare volumetric data to planimetric estimations of coastline movements digitized from satellite imagery. Our results show that volumetric erosion is locally less variable and likely corresponds better with environmental forcing than planimetric erosion. Average sediment release volumes are in the same range as sediment release volumes calculated from coastline movements combined with cliff height. However, the differences between these estimates are significant for small coastal sections. We attribute the differences between planimetric and volumetric coastal erosion measurements to mass wasting, which is abundant along the coasts of Herschel Island. The average recorded coastline retreat on Herschel Island was 0.68m a(-1) for the period 2000-2011. Erosion rates increased by more than 50% in comparison with the period 1970-2000, which is in accordance with a recently observed increase along the Alaskan Beaufort Sea. The estimated annual sediment release was 28.2 m(3) m(-1) with resulting fluxes of 590 kg C m(-1) and 104 kg N m(-1).
Awards
(2013)