GEO DataSets

(Submitter supplied) The 7d-mesocotyls of wild type B73 and its ZmWRKY53-KO counterparts were treated with or without S. reilianum for RNA sequencing.The differentially expressed genes (DEGs) were identified based on the criteria of fold-change > 2 and P < 0.05. Under normal conditions, we found 1,025 downregulated and 599 upregulated differentially expressed genes (DEGs) in the ZmWRKY53-KO plant compared to its wild-type B73 counterpart. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

12 Samples

Download data: CSV, TXT

(Submitter supplied) In the study, RBSDV accumulation was detected in NIL-S starting from 16 days post inoculation (dpi) and increased linearly thereafter to reach a high level. Concurrently, the viral S10 encoding the coat protein exhibited a dramatic accumulation in NIL-S but not in NIL-R, as did the viral S7-1. We performed RNA-seq analysis at 16 dpi between NIL-S and NIL-R. The differentially expressed genes (DEGs) were identified based on the criteria of fold-change > 2 and P < 0.05. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

4 Samples

Download data: XLS

(Submitter supplied) The maize inbred lines Chang7-2 (resistant to SCMV) and Mo17 (susceptible to SCMV) were inoculated with SCMV (SC, SM) and phosphate buffer (MC, MM), respectively to subjected to degradome sequencing.

Organism:

Zea mays

Type:

Other

Platform:

GPL17628

1 Sample

Download data: XLSX

(Submitter supplied) As a major plant abiotic stress, drought stress suppresses crop yield performance severely. However, the trade-off between crop drought tolerance and yield performance becomes a great challenge in drought-resistant crop breeding. Several phytohormones have been reported to participate in plant drought response, including gibberellin (GA), which also plays an important role in plant growth and development. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

6 Samples

Download data: TXT

(Submitter supplied) We report the application of whole transcriptome sequencing technology for high-throughput profiling of coding and non-coding RNAs associated with Spodoptera frugiperda feeding in Zea mays. 4,366 mRNAs and 233 lncRNAs were differentially expressed during Spodoptera frugiperda feeding in Zea mays. Our data contribute to the understanding of the function of coding and non-coding RNAs in the regulation of plant-insect interactions.

Organism:

Zea mays

Type:

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

Platform:

GPL17628

4 Samples

Download data: XLSX

(Submitter supplied) MicroRNAs (miRNAs) are endogenous small noncoding RNAs (18–25 nt) that are involved in many physiological processes including development, cancer, immunity, apoptosis and host-microbe interactions through posttranscriptional regulation of gene expression. In this study, we measured the profile of small RNAs in Zea mays after one day and three days of Spodoptera frugiperda feeding. We identified 500 miRNAs, including 449 known and 51 novel miRNAs. more...

Organism:

Zea mays

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17628

4 Samples

Download data: XLSX

(Submitter supplied) Purpose: We aim to reveal maize transcriptomic changes in wild-type and Gβ knockout lines. Methods: RNA-seq was used to reveal transcriptome of maize biological replicates of wild-type and Gβ knockout lines. Results: Differnentically expressed transcritps were identified by the comparison of biological replicates of wild-type and Gβ knockout lines. Conclusions: We identified differentially expressed genes in Gβ knockout lines.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

6 Samples

Download data: TXT

(Submitter supplied) Purpose: We aim to reveal maize transcriptomic changes in wild-type and lncRNA GARR2 knockout lines. Methods: RNA-seq was used to reveal transcriptome of maize biological replicates of wild-type and lncRNA GARR2 knockout lines. Results: Differnentically expressed transcritps were identified by the comparison of biological replicates of wild-type and lncRNA GARR2 knockout lines. Conclusions: We identified differentially expressed genes in lncRNA GARR2 knockout lines.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

6 Samples

Download data: TXT

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

Organism:

Zea mays

Type:

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

Platforms:

GPL17628 GPL25410

18 Samples

Download data

(Submitter supplied) To investigate the role of melatonin in salt tolerance of maize, we determine the seed germinated rate of maize under CK, NaCl and NaCl+melatonin. We then performed miRNA profiling analysis using data obtained from miRNA-seq of the seeds of three different treatments.

Organism:

Zea mays

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17628

9 Samples

Download data: TXT

(Submitter supplied) To investigate the different drought response between the different maize lines, we screened drought-tolerant line W9706 and drought-susceptible line B73 to compare the transcriptome

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

6 Samples

Download data: TAB

(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) Maize anthers ranging in size from 0.5mm to 3.0mm in increments of 0.25mm were dissected and their cells isolated using the FX-Cell protocol. scRNA-seq libraries were prepped using the CEL-Seq2 protocol and sequenced with 150bp PE reads with Illumina HiSeq or NovoSeq. The developmental trajectories of the somatic cell layers were investigated.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25410 GPL19255 GPL17628

2182 Samples

Download data: CSV

(Submitter supplied) Background: High seed vigor is crucial for agricultural production owing to its potential in high quality and yield of crops. A better understanding of the underlying mechanisms is highly necessary. Results: To better understand the involvement and regulatory mechanism of miRNAs correlated with maize seed vigor, small RNAs and degradome sequencing of two inbred lines Yu537A and Yu82 were performed. A total of 791 mature miRNAs were obtained with different expressions, among of which 505 miRNAs were newly identified and the rest miRNAs were more or less reported before by comparing the miRNAs with the sequences in miRbase database. Analysis of miRNA families showed maize seeds contain fewer miRNA families and larger miRNA families compared with animals, indicating that functions of miRNAs in maize seeds were more synergistic than animals. Degradome sequencing was used to identify the targets of miRNAs and the results showed a total of 6196 targets were obtained. Function analysis of differentially expressed miRNAs and targets showed Glycan degradation and galactose metabolism were closely correlated with improved corn seed vigor. Conclusions: These findings provide valuable information to understand the involvement of miRNAs with corn seed vigor and these putative genes will be valuable resources for improving the seed vigor in future corn breeding.

Organism:

Zea mays

Type:

Non-coding RNA profiling by high throughput sequencing; Other

Platform:

GPL17628

19 Samples

Download data: XLSX

(Submitter supplied) We report the ChIP-seq of several histone modification markers for BS cells and H3K36me3 ChIP-seq for M cells, we found that BS-specific gene module trend to be regulated by histone acetylation.

Organism:

Zea mays

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17628

5 Samples

Download data: BW

(Submitter supplied) The maize NAKED ENDOSPERM (NKD) genes Nkd1 and Nkd2 encode paralogous INDETERMINATE DOMAIN (IDD) transcription factors (TFs) that have previously been shown to play critical roles in regulating endosperm gene expression and development. However, the function of each individual NKD protein is unclear. To elucidate this, we performed a transcriptome analysis for nkd1-Ds and nkd2-Ds single mutant endosperm. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

12 Samples

Download data: XLSX

(Submitter supplied) This project is to generate and analyze the transcriptomes of bract primordium of maize, and to identify the genes, pathways and networks that suppress bract outgrowth in maize inflorescence.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

12 Samples

Download data: TXT

(Submitter supplied) Purpose: We aim to reveal maize transcriptomic changes with water and salinity treatment. Methods: RNA-seq were used to reveal transcriptome of maize biological replicates with water and salinity treatment. Results: Differentially expressed transcripts were identified by the comparison of biological replicates with water and salinity treatment. Conclusions: We identified differentially expressed genes in respone to salinity treatment in maize.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

24 Samples

Download data: FASTA, TXT

(Submitter supplied) Purpose: To identify the potential genes that regulate seed germination speed in maize, we performed a time-series transcriptome analysis with two inbred maize lines (72-3 fast germination, F9721 slow germination) during the seed germination and compared the differentially expressed genes (DEGs) in transcriptome with genes identified by GWAS Methods: Methods: mRNA profiles of two maize inbred lines 72-3 and F9721 showing divergent seed germination at six stages during germination were generated by deep sequencing, in triplicate, using Illumina Hiseq2500. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

30 Samples

Download data: TXT

(Submitter supplied) Transcriptome analysis on aerial roots at two different growth stages before and after mucilage production confirmed the expression of genes involved in polysaccharide synthesis and degradation. Genes related to nitrogen uptake and assimilation were up-regulated upon water exposure.

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17628

35 Samples

Download data: TAR