Generation of transcriptional novelty by transposable element insertions in Arabidopsis, RNAseq Control Condition Sequencing Data

Arabidopsis stranded 150 bp paired end RNA sequencing data (Illumina) of plants that were grown under control conditions for the manuscript "Generation of transcriptional novelty by transposable element insertions in Arabidopsis"

Plant growth conditions

Sequenced F4 seeds were sterilized for 10 minutes in 10% bleach, rinsed, and stratified at 4°C for four days in the dark before being sown on 0.5x Murashige & Skoog media (Duschefa cat# M0222) and transferred to growth chambers under long day conditions (16h of light at 24°C followed by 8h of darkness at 21°C; 20 seeds per plate, 6 replicate plates). Ten days after sowing, plants were subjected to 6°C for 24 hours and control plants were returned to normal long day growing conditions for 24 hours before harvesting (3 replicate plates per condition).

RNA extraction and sequencing

Seedlings were harvested and RNA extractions were done on pools of 5 plants. RNA extractions were performed for 3 biological replicate samples for each line in each condition (n=96) using the Macherey-Nagel NucleoSpin RNA kit (cat# 740955.50). Samples were sent to Novogene for Illumina 150bp paired-end sequencing using a stranded poly-A library.

RNAseq sample descriptions of the plants grown under control conditions

wt_control: wild-type plants.

wtHS_control: wild-type plants that have been submitted to heat stress in a previous generation.

wtAZ_control: wild-type plants that have been submitted to epigenetic drug treatments (alpha-amanitin and zebularine) in a previous generation.

htLine#: plants carrying additional ONSEN transposable element insertions.

Files description: Forward and reverse strand RNA seq data are combined in one file. The numbering at the end ("_1") denominates the biological replicate number.