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Comparative transcriptome profiling of Arabidopsis lyrata and Arabidopsis thaliana

ABSTRACT: Comparative transcriptome profiling of Arabidopsis lyrata and Arabidopsis thaliana

PROVIDER: PRJNA284922 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2039793.fastq.gz	Fastqsanger.gz
	SRR2039794.fastq.gz	Fastqsanger.gz
	SRR2039795.fastq.gz	Fastqsanger.gz
	SRR2039796.fastq.gz	Fastqsanger.gz
	SRR2039797.fastq.gz	Fastqsanger.gz

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Comparative transcriptome profiling of Arabidopsis lyrata and Arabidopsis thaliana

Project description: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. Please view also related dataset GSE69077 (RNA-sequencing of heat stressed A. lyrata and A. thaliana plants).

2015-08-01 | GSE69222 | GEO

Comparative transcriptome profiling of Arabidopsis lyrata and Arabidopsis thaliana

Project description: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

2015-08-01 | E-GEOD-69222 | biostudies-arrayexpress

Comparative transcriptome analysis in response to heat stress in Arabidopsis thaliana and Arabidopsis lyrata

2015-08-01 | GSE69077 | GEO

Comparative transcriptome analysis in response to heat stress in Arabidopsis thaliana and Arabidopsis lyrata

Project description: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. To identify heat stress induced genes, we performed RNA-sequencing of rosette leaves from mock-treated, heat-stressed and heat-stressed-recoved plants of both species. Analysis of genetic element transcriptional changes in response to 6 hours of 37°C heat stress and 48 hours of recovery in Arabidopsis thaliana Col-0 and Arabidopsis lyrata MN47.

2015-08-01 | E-GEOD-69077 | biostudies-arrayexpress

Arabidopsis thaliana and Arabidopsis lyrata degradomes

Project description:Deep sequencing of the 5' ends of uncapped, polyA-enriched mRNA from two biological replicate samples from Arabidopsis thaliana inflorescences, as well as two biological replicates of Arabidopsis lyrata inflorescences. These data were used to experimentally identify sliced microRNA targets from the two species.

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Arabidopsis thaliana and Arabidopsis lyrata degradomes

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Project description:Arabidopsis thaliana and Arabidopsis lyrata degradomes

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Genomic data from pooled root and shoot tissue of Arabidopsis thaliana, Arabidopsis halleri and Arabidopsis lyrata

Project description:Gene copy number variation (CNV) is a form of genetic polymorphism that contributes significantly to genome size and function but remains poorly characterized due to technological limitations. Inter-specific comparisons of CNVs in recently diverged plant species are crucial to uncover selection patterns underlying adaptation of a species to stressful environments. Especially given that gene amplifications have long been implicated in emergence of species-specific traits, we conducted a genome-wide survey to identify species-specific gene copy number expansions and deletions in the model extremophile species - Arabidopsis halleri that has diverged in evolutionarily recent time from Arabidopsis thaliana. Cross-species cDNA array based comparative genomic hybridization was employed to compare and identify gene copy number variation in the two sister-species - the metallophyte Arabidopsis halleri and non-metallophyte Arabidopsis lyrata, both relative to Arabidopsis thaliana. We uncovered an unprecedented level of gene copy number polymorphism in Arabidopsis halleri, with a species-specific enrichment of metal homeostasis function in the genes found to be copy number expanded, thus indicating CNV as a mechanism that underlies the key physiological trait of metal hyperaccumulation and hypetolerance in A. halleri.

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Comparative transcriptome analysis in response to heat stress in Arabidopsis thaliana and Arabidopsis lyrata

Project description:Comparative transcriptome analysis in response to heat stress in Arabidopsis thaliana and Arabidopsis lyrata

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Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata

Project description:This SuperSeries is composed of the following subset Series: GSE24571: Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata [RNA-Seq] GSE38109: Natural variation in Arabidopsis thaliana transcriptomes Refer to individual Series

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