Abstract
Abstract Genetic studies leveraging natural variation in Arabidopsis species have improved our understanding of evolutionary genetic processes underlying ecologically important and adaptive traits. Integrating the thorough functional knowledge accumulated in A. thaliana with the extensive natural variation in outcrossing Arabidopsis species is a powerful approach to study the basis of adaptation in natural evolutionary and ecological contexts. Here we present an integrated genomics database of sequenced genomes from several studies in A. lyrata (1018 genomes in total) and A. arenosa (736 genomes in total), spanning the geographic ranges of these two ploidy-variable, outcrossing taxa. We provide a searchable genome browser with population data mapped to respective reference genomes, an interactive geographic map of population structure clusters, and an efficient way to subsample the full dataset of genetic variation, available at arabidopsislyrata.org. To demonstrate its utility, we perform a genome-wide association study on a latitudinal cline of A. lyrata and find strong associations of several loci with latitude, including variants in key regulators of photoperiodic growth. This resource provides access to genetic diversity data in a single repository, enabling further studies of comparative genetics and local adaptation, as well as of individual genes of interest.
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Claims 4
Claim · model-written summary
The resource integrates 1018 A. lyrata genomes across its geographic range.
- Taxon
- A. lyrata
Arabidopsis lyratae0 - Outcome
- integrated genomics database of sequenced genomese0
- Value
- 1018 genomese0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“an integrated genomics database of sequenced genomes from several studies in A. lyrata (1018 genomes in total) and A. arenosa (736 genomes in total), spanning the geographic ranges of these two ploidy-variable, outcrossing taxa.”
Claim · model-written summary
The resource integrates 736 A. arenosa genomes across its geographic range.
- Taxon
- A. arenosa
Arabidopsis arenosae0 - Outcome
- integrated genomics database of sequenced genomese0
- Value
- 736 genomese0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“an integrated genomics database of sequenced genomes from several studies in A. lyrata (1018 genomes in total) and A. arenosa (736 genomes in total), spanning the geographic ranges of these two ploidy-variable, outcrossing taxa.”
Claim · model-written summary
The resource provides a genome browser, geographic population structure map and variation subsampling.
- Taxon
- A. lyrataArabidopsis lyratae1
- Outcome
- searchable genome browser with population data mapped to respective reference genomes, an interactive geographic map of population structure clusters, and an efficient way to subsample the full dataset of genetic variatione0
- Value
- full dataset of genetic variatione0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“We provide a searchable genome browser with population data mapped to respective reference genomes, an interactive geographic map of population structure clusters, and an efficient way to subsample the full dataset of genetic variation, available at arabidopsislyrata.org.”
e1“A. lyrata (1018 genomes in total) and A. arenosa (736 genomes in total)”
Claim · model-written summary
A genome-wide association study found several loci strongly associated with latitude in A. lyrata, including photoperiodic growth regulators.
- Taxon
- A. lyrataArabidopsis lyratae0
- Gene
- key regulators of photoperiodic growthe0
- Outcome
- strong associations of several loci with latitudee0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“we perform a genome-wide association study on a latitudinal cline of A. lyrata and find strong associations of several loci with latitude, including variants in key regulators of photoperiodic growth.”