GEO DataSets

(Submitter supplied) Results: In this study, the ears at the V9 stage, kernels and ear leaf at the 5DAP (days after pollination) stage of maize were used for morphological, physiological and comparative transcriptomics analysis to understand the different features of “sink” or “source” organs and the effects on kernel yield under drought stress conditions. The ABA-, NAC-mediate signaling pathway, osmotic protective substance synthesis and protein folding response were identified as common drought stress response in the three organs. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15463

12 Samples

Download data: TXT

(Submitter supplied) Purpose: To study the effects of drought at the transcriptomic level on two different actively dividing maize tissue: the ovaries, and the leaf meristem Methods: The Illumina reads were mapped to the maize B73 reference genome using Tophat followed by transcriptome reconstruction using Cufflinks. The FPKM valuse were extracted from cufflinks output and an R package called Limma was used to identify differentially expressed genes under drought under both tissues Results and Conclusions: Different processes which were differentially expressed under drought in both tissues were identified and analyzed in detail. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13977

8 Samples

Download data: TXT

(Submitter supplied) Periods of soil water deficit could occur at any time during the crop season, but maize is particularly sensitive to water stress around flowering time. At this time the stress usually causes remarkable yield loss. Heading time, which is just before tassel flowering, is one of the most important stages that maize productivity would be affected severely if plants encounter water stress. The whole-genomic gene expression changes of maize plants in response to water deficit stress at this stage have not been studied. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platforms:

GPL5439 GPL5440

8 Samples

Download data: GPR

(Submitter supplied) Abiotic stress causes disturbances in the cellular homeostasis. Re-adjustment of balance in carbon, nitrogen and phosphorus metabolism therefore plays a central role in stress adaptation. However, it is currently unknown which parts of the primary cell metabolism follow common patterns under different stress conditions and which represent specific responses. To address these questions, changes in transcriptome, metabolome and ionome were analyzed in maize source leaves from plants suffering low temperature, low nitrogen (N) and low phosphorus (P) stress. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL14913

24 Samples

Download data: TXT

(Submitter supplied) Analysis of the maize alternative splicing landscape, including transcript discovery and quantification during development and drought

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

94 Samples

Download data: TXT

(Submitter supplied) We use the gowth zone of the maize leaf as a model system to study the growth reduction in response to drought stress. The spatial gradient and the relatively large size of the maize leaf allowed us to sample at a subzonal rezolution and to examine different developmental stages at the same time. We compared the response to different levels of drought stress (mild and severe) of proliferating (meristem), expanding (elongation zone) and differentiated (mature zone) tissue.

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL16089

36 Samples

Download data: GPR

(Submitter supplied) To understand the transcriptome changes during drought tolerance in maize, the drought-tolerant line Han21 and drought-sensitive line Ye478, which show substantial differences in drought tolerance at the seedling stage, were selected for this study. Using the GeneChip Maize Genome Arrays, we applied genome-wide gene expression analysis to the two genotypes under gradual drought stress and re-watering. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

24 Samples

Download data: CEL, CHP

(Submitter supplied) To investigate the developmental gradient of the third maize leaf, the light exposed area of the leaf (corresponding to 18cm of leaf) and 2cm shaded by the sheath were sampled in ten slices. Four replicates were collected, immediately shock frozen in liquid nitrogen and subsequently cut into 2cm slices. At least 10 plants were pooled for each biological replicate. We have systematically analyzed a developmental gradient of the third maize leaf from the point of emergence into the light to the tip in ten continuous leaf slices to study organ development and physiological and biochemical functions. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL14913

10 Samples

Download data: TXT

(Submitter supplied) Maize and rice are the two most economically important grass crops and utilize distinct forms of photosynthesis to fix carbon: C4 and C3 respectively. Relative to C3 photosynthesis, C4 photosynthesis reduces photorespiration and affords higher water and nitrogen use efficiencies under hot arid conditions. To define key innovations in C4 photosynthesis, we profiled metabolites and gene expression along a developing leaf gradient. more...

Organism:

Oryza sativa; Zea mays

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL13160 GPL15463

119 Samples

Download data: TXT

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

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL10837

36 Samples

Download data: TXT

(Submitter supplied) Background: Plant diurnal rhythms are vital environmental adaptations to coordinate internal physiological responses to alternating day-night cycles. A comprehensive view of diurnal biology has been lacking for maize (Zea mays), a major world crop. Methodology: A photosynthetic tissue, the leaf, and a non-photosynthetic tissue, the developing ear, were sampled under natural field conditions. Genome-wide transcript profiling was conducted on a high-density 105K Agilent microarray to investigate diurnal rhythms.

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL10837

18 Samples

Download data: TXT

(Submitter supplied) Background: Plant diurnal rhythms are vital environmental adaptations to coordinate internal physiological responses to alternating day-night cycles. A comprehensive view of diurnal biology has been lacking for maize (Zea mays), a major world crop. Methodology: A photosynthetic tissue, the leaf, and a non-photosynthetic tissue, the developing ear, were sampled under natural field conditions. Genome-wide transcript profiling was conducted on a high-density 105K Agilent microarray to investigate diurnal rhythms.

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL10837

18 Samples

Download data: TXT

(Submitter supplied) This study looked for signals produced in UV-B irradiated leaves, and possibly induced in shielded leaves, that modulate physiological responses in maize. Transcriptome and proteomics profiling tracked changes in exposed and shielded organs. Metabolic profiling was examined for signaling molecules. Exposure of just the top leaf substantially alters the transcriptome of both irradiated and shielded organs, with greater changes as an additional 1-2 leaves are irradiated. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL7444

136 Samples

Download data: TXT

(Submitter supplied) Two maize inbred lines, DAN3130 and JI63, with different patterns of folate accumulation and different total folate contents in mature kernels were used to investigate the transcriptional regulation of folate metabolism during late stages of kernel formation by comparative transcriptome analysis; The fresh kernel samples of each inbred line were collected on DAP 24, DAP 35 days, respectively. Mature kernel samples were harvested after all the plants turned yellow. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9361

18 Samples

Download data: XLSX

(Submitter supplied) In this work, we performed high throughput sequencing of small RNA libraries in maize (Zea mays ssp. mays) and teosinte (Zea mays ssp. parviglumis) to investigate the response mediated by miRNAs in these plants under control conditions, submergence, drought and alternated drought-submergence or submergence-drought stress. After Illumina sequencing of 8 small RNA libraries, we obtained from 16,139,354 to 46,522,229 raw reads across the libraries. more...

Organism:

Zea mays subsp. parviglumis; Zea mays subsp. mays

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL18523 GPL28922

8 Samples

Download data: TXT, XLSX

(Submitter supplied) The kernel serves as a storage organ for various nutrients and determines the yield and quality of maize. Understanding the mechanisms regulating kernel development is important for maize production. In this study, a small kernel mutant smk7a of maize was characterized. Cytological observation suggested that the development of the endosperm and embryo was arrested in smk7a in the early development stage. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

12 Samples

Download data: TXT

(Submitter supplied) In this research, an array of 27,448 rice genes was used to elucidate gene expression in air-dried rice seedlings (lead and root) at various periods of treatment times. The analyses show that rice responds to drought stress mainly by down-regulating many biological processes including gene expression and regulation, protein phosphorylation, and cellular metabolism. Among strategies to actively adapt to drought, most significant are inducing protective molecules, which may be differentially regulated based on plant organs.

Organism:

Oryza sativa Japonica Group; Oryza sativa

Type:

Expression profiling by genome tiling array

Platform:

GPL15594

20 Samples

Download data: CALLS, PAIR, PROBE

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

Organism:

Gossypium hirsutum; Zea mays

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24163 GPL27127

24 Samples

Download data

(Submitter supplied) Cotton seedlings were subjected to water-deficit stress along with control condition for 24 hours or 48 hours and tissues emcompassing the elongation zone of primary roots were analysed for differential accumulated transcripts compared to control.

Organism:

Gossypium hirsutum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27127

12 Samples

Download data: XLSX

(Submitter supplied) Maize seedlings were subjected to water-deficit stress along with control condition for 24 hours or 48 hours and tissues emcompassing the elongation zone of primary roots were analysed for differential accumulated transcripts compared to control.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24163

12 Samples

Download data: XLSX