BMC Research Notes · 2020 · 24 citations · 23 references
Life SciencesPlant BiologyPlant SciencesPlant Molecular BiologyPlant PhysiologyTranscriptomicsPlant Hormone PhysiologyPlant Hormone SignalingPlant Transcriptional RegulationPlant TranscriptomicsStress BiochemistryAbiotic StressHormone Regulation Of Stress ResponsesHormone Signaling In Stress ResponsesHormone-responsive TranscriptomicsPhytohormone RegulationPlant Hormone Signaling In StressTranscriptional Regulation By Salicylic AcidTranscriptome Sequencing
OBJECTIVES: Phytohormones are small signaling molecules with crucial roles in plant growth, development, and environmental adaptation to biotic and abiotic stress responses. Despite several previously published molecular studies focused on plant hormones, our understanding of the transcriptome induced by phytohormones remains unclear, especially in major crops. Here, we aimed to provide transcriptome dataset using RNA sequencing for phytohormone-induced signaling in plant. DATA DESCRIPTION: We used high-throughput RNA sequencing profiling to investigate the pepper plant response to treatment with four major phytohormones (salicylic acid, jasmonic acid, ethylene, and abscisic acid). This dataset yielded 78 samples containing three biological replicates per six different time points for each treatment and the control, constituting 187.8 Gb of transcriptome data (2.4 Gb of each sample). This comprehensive parallel transcriptome data provides valuable information for understanding the relationships and molecular networks that regulate the expression of phytohormone-related genes involved in plant developments and environmental stress adaptation.
23
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony Bolger, Marc Lohse, Björn Usadel · Bioinformatics · 2014 · 69.7K citations · Full text
Cutadapt removes adapter sequences from high-throughput sequencing reads
Marcel Martin · EMBnet journal · 2011 · 35.8K citations · Full text
HTSeq—a Python framework to work with high-throughput sequencing data
Simon Anders, Paul Theodor Pyl, Wolfgang Huber · Bioinformatics · 2014 · 22.7K citations · Full text
Svante Wold, Kim H. Esbensen, Paul Geladi · Chemometrics and Intelligent Laboratory Systems · 1987 · 11.5K citations