Data from: Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology

Briskine RV, Paape T, Shimizu-Inatsugi R, Nishiyama T, Akama S, Sese J, Shimizu KK

Date Published: September 22, 2016

DOI: https://doi.org/10.5061/dryad.gn4hh

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Title Reciprocal best BLAST hits between Arabidopsis halleri and Arabidopsis thaliana
Downloaded 38 times
Description Reciprocal best BLAST hits between Arabidopsis halleri ssp. gemmifera Tada mine and Arabidopsis thaliana TAIR10.
Download RBH_Ahal_Atha.txt.gz (106.3 Kb)
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Title Reciprocal best BLAST hits between Arabidopsis halleri and Arabidopsis lyrata
Downloaded 13 times
Description Reciprocal best BLAST hits between Arabidopsis halleri ssp. gemmifera Tada mine and Arabidopsis lyrata.
Download RBH_Ahal_Alyr.txt.gz (113.2 Kb)
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Title RepeatMasker output for the Arabidopsis halleri assembly
Downloaded 17 times
Download Ahal_RepeatMaskerTE.out.gz (2.437 Mb)
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Title Transposable elements identified by RepeatMasker in the Arabidopsis halleri assembly
Downloaded 16 times
Description Transposable elements identified by RepeatMasker in the Arabidopsis halleri assembly. The output was converted to GFF format.
Download Ahal_RepeatMaskerTE.gff.gz (1.413 Mb)
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Title Arabidopsis halleri assembly with TE masking
Downloaded 22 times
Description Arabidopsis halleri assembly with transposable elements and simple repeats masked by RepeatMasker.
Download Ahal_masked.fa.gz (42.41 Mb)
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Title Arabidopsis halleri functional annotation
Downloaded 45 times
Description Functional annotation for Arabidopsis halleri ssp. gemmifera Tada mine. The annotation was performed with AUGUSTUS v3.0.3 using RNA-seq data from leaves and roots.
Download annotation.gff.gz (8.257 Mb)
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Title Arabidopsis halleri Transcripts
Downloaded 27 times
Description Coding sequences of all reported transcripts in Arabidopsis halleri
Download transcripts.fa.gz (12.60 Mb)
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When using this data, please cite the original publication:

Briskine RV, Paape T, Shimizu-Inatsugi R, Nishiyama T, Akama S, Sese J, Shimizu KK (2017) Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology. Molecular Ecology Resources 17(5): 1025-1036. https://doi.org/10.1111/1755-0998.12604

Additionally, please cite the Dryad data package:

Briskine RV, Paape T, Shimizu-Inatsugi R, Nishiyama T, Akama S, Sese J, Shimizu KK (2016) Data from: Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology. Dryad Digital Repository. https://doi.org/10.5061/dryad.gn4hh
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