Extracting and Sequencing Plant Transcriptome

Total RNA from foliage samples of MM, MM- R3a-Avr3a, and MM-Avr3a plants after spraying DEX, with three bio-replicates, were extracted as described in the literature (Yang et al., 2020 (link)). High integrity RNA was use to construct the sequencing library. Libraries were generated using NEB Next^® Ultra™ RNA Library Prep Kit for Illumina^® (NEB, USA). The library quality was assessed using the Agilent Bioanalyzer 2100 system and RNA-sequencing was performed using the Illumina Hiseq2500 platform hosted by Biomarker Technologies CO., LTD (BTC, Beijing, China; http://www.biomarker.com.cn/); and 150-bp paired-end reads were generated.

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Xue D., Liu H., Wang D., Gao Y, & Jia Z. (2021). Comparative transcriptome analysis of R3a and Avr3a-mediated defense responses in transgenic tomato. PeerJ, 9, e11965.

Publication 2021

Bioanalyzer 2100 system Hiseq2500

Biomarker Library Plants

Corresponding Organization :

Other organizations : Henan Agricultural University

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Variable analysis

independent variables

Treatment with DEX (spraying)

dependent variables

Transcriptomic response in foliage samples of MM, MM-R3a-Avr3a, and MM-Avr3a plants

control variables

Foliage samples from MM plants (wild-type control)
Three biological replicates for each genotype/treatment

positive controls

None mentioned

negative controls

None mentioned

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