GEO DataSets

(Submitter supplied) Oil rapeseed (Brassica napus L.) is a typical winter biennial plant, with high cold tolerance during vegetative stage. In recent years, more and more early-maturing rapeseed varieties were planted across China. Unfortunately, the early-maturing rapeseed varieties with low cold tolerance have higher risk of freeze injury in cold winter and spring. Little is known about the molecular mechanisms for coping with different low-temperature stress conditions in rapeseed. more...

Organism:

Brassica napus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26378

36 Samples

Download data: TXT

(Submitter supplied) Effects of exogenous melatonin on NaCl stress in Eriobotrya japonica seedlings

Organism:

Eriobotrya japonica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33975

9 Samples

Download data: XLSX

(Submitter supplied) Background: Auxin/Indoleacetic acid (Aux/IAA) genes participate in the auxin signaling pathway and play key roles in plant growth and development. Although the Aux/IAA gene family has been identified in many plants, within allotetraploid Brassica napus little is known. Results: In this study, a total of 119 Aux/IAA genes were found in the genome of B. napus. They were distributed non-randomly across all 19 chromosomes and other non-anchored random scaffolds, with a symmetric distribution in the A and C subgenomes. more...

Organism:

Brassica napus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24171

2 Samples

Download data: TXT

(Submitter supplied) Polyploidy has played an extensive role in the evolution of flowering plants. Allopolyploids, with subgenomes containing duplicated gene pairs called homeologs, can show rapid transcriptome changes including novel alternative splicing (AS) patterns. The extent to which abiotic stress modulates AS of homeologs is a nascent topic in polyploidy research. We subjected both natural and resynthesized lines of polyploid Brassica napus, along with the progenitors B. more...

Organism:

Brassica rapa; Brassica napus; Brassica oleracea

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28300 GPL32188 GPL29911

24 Samples

Download data: TXT

(Submitter supplied) RNA-seq of Sclerotinia sclerotiorum-infected B. napus leaves during a timecourse after inoculation.

Organism:

Sclerotinia sclerotiorum; Brassica napus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL22102 GPL22103

21 Samples

Download data: XLSX

(Submitter supplied) Chemical hybridization agent (CHA)-induced male sterility is becoming one of the most useful tools for the crop heterosis in seed production. We had previously discovered monosulfuron ester sodium (Mes), an acetolactate synthase (ALS) inhibitor of the herbicide sulfonylurea family, could induce rapeseed (Brassica napus L.) male sterility. To investigate the mechanism of Mes inducing male sterility, a cytological analysis and comparative transcriptome analysis were performed between Mes-treated plants leaves and different developmental stage anthers and those of the Mock-treated plants. more...

Organism:

Brassica napus

Type:

Expression profiling by array

Platform:

GPL15739

24 Samples

Download data: TXT

(Submitter supplied) Purpose: Tag-based approach for global gene expression analysis has been revolutionised with the advent of next generation sequencing (NGS) technology. The aim of the present study is to present comprehensive view of differentially expressed genes under cold and freeze stress in seabuckthorn (Hippophae rhamnoides L.) Methods: DeepSAGE, a tag based approach, was used to identify differentially expressed genes under cold and freeze treatments in seabuckthorn (Hippophae rhamnoides L.). more...

Organism:

Hippophae rhamnoides

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19313

3 Samples

Download data: TXT

(Submitter supplied) The fungal pathogen Sclerotinia sclerotiorum infects a broad range of dicotyledonous plant species and is the causative agent of stem rot in Brassica napus. To elucidate the mechanisms underlying the defense response, we studied the patterns of gene expression in a partially resistant variety of ZhongYou 821 (ZY821) and a susceptible line from Westar over five time points, 6, 12, 24, 48, and 72 hours post-inoculation (hpi) using a B. more...

Organism:

Brassica napus

Type:

Expression profiling by array

Platform:

GPL7499

60 Samples

Download data: TXT

(Submitter supplied) ngs2017_08_brasilice-transilice - What are the genes with modulated expression in response to brassica napus treatment (1.7mM, One week, root supply)-Brassica napus were grown on hydropnic conditions using Hoagland nutrient solution containing or not 1.7 mM of Si

Organism:

Brassica napus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25850

12 Samples

Download data: TXT

(Submitter supplied) To understand the role of STCH4 in cold-responsive gene regulation

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

18 Samples

Download data: TXT

(Submitter supplied) The effect of the number of pods on the main inflorescence (NPMIs) on seed yield in Brassica napus plants grown at high density is a topic of great economic and scientific interest. We sought to identify patterns of gene expression that are associated with inflorescence and PMI differentiation and development in Brassica napus.

Organism:

Brassica rapa; Brassica oleracea; Brassica napus

Type:

Expression profiling by array

Platform:

GPL18717

12 Samples

Download data: TXT

(Submitter supplied) This study investigates the transcriptome and physiological responses of rapeseed to post-flowering temperature increases, providing valuable insights into the molecular mechanisms underlying rapeseed tolerance to heat stress. Two rapeseed genotypes, Lumen and Solar, were assessed under control and heat stress conditions in field experiments conducted in Valdivia, Chile. Results showed that seed yield and seed number were negatively affected by heat stress, with genotype-specific responses. more...

Organism:

Brassica napus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29911

112 Samples

Download data: TXT

(Submitter supplied) Purpose: we conducted a six time-point transcriptomic analysis using two tobacco cultivars with contrasting cold responses, Taiyan8 tobacco (TT, cold susceptibility) and Yanyan97 tobacco (YT, cold resistance). Methods: mRNA profiles of Tobacco seedlings from CK and cold-treated plants were generated by deep sequencing, in triplicate, usingIllumina Hiseq4500. The sequence reads that passed quality filters were analyzed at the transcript isoform level with methods: hisat2 (v2.0.5), SAMtools (v1.9). more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25653

36 Samples

Download data: BW, TXT

(Submitter supplied) Purpose: In this study, RNA-seq was used to analyzed the molecular mechanism of cold tolerance in rice Methods: Rice 9311 (cold intolerant) and DC907 (cold tolerant) were used as experimental materials for transcriptome sequencing on Illumina HIseq platform. Fastq is used to evaluate the quality of the original data, and NGS QC Toolkit is used to filter the original data to obtain clean reads. Clean reads were compared to the rice 9311 reference genome using HISAT2 software. more...

Organism:

Oryza sativa Indica Group

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14553

36 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Ricinus communis; Manihot esculenta

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL13617 GPL17902 GPL17903

10 Samples

Download data: TSV, TXT

(Submitter supplied) Stress acclimation is an effective mechanism that plants acquired for adaption to dynamic environmental conditions. After undergoing cold acclimation, plants become more tolerant to cold stress. In order to understand the mechanism of cold acclimation, we performed a systematic, comprehensive study of cold response and acclimation in Cassava (Manihot esculenta), a staple crop and major food source in the tropical regions of the world. more...

Organism:

Manihot esculenta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13617

4 Samples

Download data: TSV

(Submitter supplied) Low temperature is a major abiotic stress that impedes plant growth and development. Brassica juncea is an economically important oil seed crop and is sensitive to freezing stress during pod filling subsequently leading to abortion of seeds. To understand the cold stress mediated global perturbations in gene expression, whole transcriptome of B. juncea siliques that were exposed to sub-optimal temperature was sequenced. more...

Organism:

Brassica juncea

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16442

18 Samples

Download data: FASTA, TXT

(Submitter supplied) Transcriptome analysis may provide means to investigate the underlying genetic causes of shared and divergent phenotypes in different populations and help to identify potential targets of adaptive evolution. Applying RNA sequencing to whole male Drosophila melanogaster from the ancestral tropical African environment and a very recently colonized cold-temperate European environment at both standard laboratory conditions and following a cold shock, we seek to uncover the transcriptional basis of cold adaptation. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13304

64 Samples

Download data: TXT

(Submitter supplied) Temperature has fundamental influences on fitness and distribution of insects. There have been very few studies on effects of mild cold conditions on insects. We found Plutella xylostella had reduced fitness and females produced few viable eggs when reared at 10°C, a temperature at which they can complete development. Male moths reared at 10°C were not able to fertilize eggs, but the eggs produced by female moths reared at this temperature were viable and could be fertilisied by males moths reared at a warmer temperature (25°C). more...

Organism:

Plutella xylostella

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28843

12 Samples

Download data: TXT

(Submitter supplied) This dataset is associated with two publications 1. Elucidating the biochemical basis of trans-16:1 fatty acid change in leaves during cold acclimation in wheat. http://doi.org/10.1002/pei3.10044 In this study, comparative RNA-seq analyses with leaf tissues undergoing cold acclimation reveal concerted transcriptome shifts indicating a reduced chloroplast lipid pathway activity and increased cytosolic ER membrane lipid synthesis. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

24 Samples

Download data: TXT, XLSX