Unknown,Transcriptomics,Genomics,Proteomics

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Transcriptomics of Arabidopsis thaliana wild-type and nrpd1-3 under control or heat stress

ABSTRACT: The intent of the experiment was to infer from transcriptome data the differential activation of LTR retrotransposon family members from Onsen/COPIA78, an Arabidopsis thaliana's heat-activated retrotransposon. For this, we performed Illumina 150 bp pair-end RNA-seq, in both wild-type Col-0 and RdDM mutant nrpd1-3 under control and heat stress.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Diego Sanchez 

PROVIDER: E-MTAB-5643 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

High-frequency recombination between members of an LTR retrotransposon family during transposition bursts.

Sanchez Diego H DH   Gaubert Hervé H   Drost Hajk-Georg HG   Zabet Nicolae Radu NR   Paszkowski Jerzy J  

Nature communications 20171103 1

Retrotransposons containing long terminal repeats (LTRs) form a substantial fraction of eukaryotic genomes. The timing of past transposition can be estimated by quantifying the accumulation of mutations in initially identical LTRs. This way, retrotransposons are divided into young, potentially mobile elements, and old that moved thousands or even millions of years ago. Both types are found within a single retrotransposon family and it is assumed that the old members will remain immobile and dege  ...[more]

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