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Comparative transcriptome profiling of Arabidopsis lyrata and Arabidopsis thaliana

ABSTRACT: Arabidopsis thaliana and Arabidopsis lyrata are two closely related Brassicaceae species, which are used as models for plant comparative biology. They differ by lifestyle, predominant mating strategy, ecological niches and genome organization. In order to explore molecular basis of specific traits, we performed RNA-sequencing of vegetative rosettes from both species. Additionally, we sequenced apical meristems and inflorescences of A. lyrata that allow for intra-specific transcriptome comparison in several major developmental stages. Arabidopsis lyrata and Arabidopsis thaliana aerial tissues were collected from mock treated plants, total RNA isolated and poly-A RNA populations sequenced

ORGANISM(S): Arabidopsis lyrata subsp. lyrata

SUBMITTER: Ales Pecinka 

PROVIDER: E-GEOD-69222 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Improving the Annotation of Arabidopsis lyrata Using RNA-Seq Data.

Rawat Vimal V   Abdelsamad Ahmed A   Pietzenuk Björn B   Seymour Danelle K DK   Koenig Daniel D   Weigel Detlef D   Pecinka Ales A   Schneeberger Korbinian K  

PloS one 20150918 9

Gene model annotations are important community resources that ensure comparability and reproducibility of analyses and are typically the first step for functional annotation of genomic regions. Without up-to-date genome annotations, genome sequences cannot be used to maximum advantage. It is therefore essential to regularly update gene annotations by integrating the latest information to guarantee that reference annotations can remain a common basis for various types of analyses. Here, we report  ...[more]

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