organism: Brassica napus
description: Protocols: Brassica napus root and shoot samples were collected on days one and five post-infection with P. aeruginosa. The biological replicates (n = 2) are the result of three pooled plant samples. The whole plant was sectioned in two at the root junction before the RNA was extracted. Brassica napus seeds were germinated on MS (Murashige and Skoog basal medium with vitamins from Phytotechnology Laboratories supplemented with 0.5 g L-1 MES hydrate and 0.5% sucrose at pH 5.7) agar plates for seven days. Seedlings were then transferred to a 50 mL conical tube with 5 mL MS media, and allowed to grow for three days. Seedlings were infected with Pseudomonas aeruginosa strain PA14, and tissue samples were taken on day one and five post-infection. Brassica napus tissue samples were separated, frozen using liquid nitrogen and grinded using a mortar and pestle. The RNA was extracted according to manufacturer's protocol using a RNeasy Plant Mini Kit (Qiagen). DNA was removed from all of the RNA samples using the DNA-free kit (Invitrogen™). Total RNA (1μg) was used for preparing the library with TrueSeq RNA sample Prep Kit v2 (Illumina®) according to manufacturer's guidelines with 24 different barcodes (two biological replicates).
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2020-02-04T17:04:53Z
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2020-02-04T15:18:28Z
attributes.tag: External Id
attributes.value: SAMEA6520171
attributes.tag: INSDC center name
attributes.value: Dalhousie University
attributes.tag: INSDC first public
attributes.value: 2020-02-04T17:04:53Z
attributes.tag: INSDC last update
attributes.value: 2020-02-04T15:18:28Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-78641580829437:shoot_control_day3_rep2
attributes.tag: age
attributes.value: 10
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: common name
attributes.value: rape
attributes.tag: developmental stage
attributes.value: seedling development stage
attributes.tag: individual
attributes.value: mixed pool of 3 plants
attributes.tag: organism part
attributes.value: shoot system
attributes.tag: sample name
attributes.value: E-MTAB-78641580829437:shoot_control_day3_rep2
attributes.tag: scientific_name
attributes.value: Brassica napus