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Sample GSM4634131

Query DataSets for GSM4634131

Status

Public on May 23, 2021

Title

3_wrky25/33_0h_rep2

Sample type

SRA

Source name

seedlings

Organism

Arabidopsis thaliana

Characteristics

tissue: seedlings
day: 7-day-old
genotype: wrky25/33 ko mutant
time point: 0h

Treatment protocol

1/2 Ms + 100 mM NaCl treatment for 0, 1, 3, 6, 12, 24, 48 and 72 hr

Growth protocol

1: 7-day-old Col-0 seedlings liquid grown in 1/2 MS, continuous light; 2: 7-day-old Tak1 gemma liquid grown in 1/2 B5, continuous light; 3: 7-day-old Col-0 and wrky25/33 ko mutant seedlings liquid grown in 1/2 MS, continuous light; 4: 7-day-old NB seedlings grwon on 1/2 MS plates, 16/8 Light/Dark cycle; 5: 7-day-old Tak1 gemma liquid grown in 1/2 B5, continuous light; 6: 14-day-old Tak1 and respecitive WRKY 0E lines gemma liquid grown in 1/2 B5, continuous light

Extracted molecule

total RNA

Extraction protocol

1-5: Plant samples were frozen in liquid nitrogen, and followed by RNA extraction using Rneasy Plant Mini Kit (Qiagen); 6: Nuclei was carried out by standard ChIP protocol, pull-down by tagRFP TRAP (Chromotek)
1-5: RNA libraries were prepared for sequencing using standard Illumina protocols; 6: Libraries were prepared according to Illumina's instructions

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

cDNA

Instrument model

Illumina NovaSeq 6000

Description

3_raw_reads_counts

Data processing

1-5: STAR for genome mapping; 6: Botwie 2 for genome mapping
Genome_build: Arabidopisis: TAIR10; Marantica v3.1; Ricd: MSU7
Supplementary_files_format_and_content: 1-5: raw counts; 6: bigwig

Submission date

Jun 23, 2020

Last update date

May 23, 2021

Contact name

Daisuke Urano

Organization name

Temasek Life Science Laboratory

Street address

1 Research Link

City

Sinagpore