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Items: 1 to 20 of 21713

1.

Premeiotic 24-nt phasiRNAs are present in the Zea genus and unique in biogenesis mechanism and molecular function [TraPR small RNA-seq]

(Submitter supplied) Reproductive phasiRNAs are broadly present in angiosperms and play crucial roles in sustaining male fertility. While the premeiotic 21-nt phasiRNAs and meiotic 24-nt phasiRNA pathways have been extensively studied in maize (Zea mays) and rice (Oryza sativa), a third putative category of reproductive phasiRNAs–named premeiotic 24-nt phasiRNAs–have recently been reported in barley (Hordeum vulgare) and wheat (Triticum aestivum). more...
Organism:
Zea mays subsp. mays
Type:
Other; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL34147
11 Samples
Download data: TXT
Series
Accession:
GSE254583
ID:
200254583
2.

Premeiotic 24-nt phasiRNAs are present in the Zea genus and unique in biogenesis mechanism and molecular function [Smart-seq2+nanoPARE]

(Submitter supplied) Reproductive phasiRNAs are broadly present in angiosperms and play crucial roles in sustaining male fertility. While the premeiotic 21-nt phasiRNAs and meiotic 24-nt phasiRNA pathways have been extensively studied in maize (Zea mays) and rice (Oryza sativa), a third putative category of reproductive phasiRNAs–named premeiotic 24-nt phasiRNAs–have recently been reported in barley (Hordeum vulgare) and wheat (Triticum aestivum). more...
Organism:
Zea mays subsp. mays; Zea mays subsp. mexicana; Zea luxurians; Zea mays subsp. parviglumis
Type:
Expression profiling by high throughput sequencing
4 related Platforms
136 Samples
Download data: TSV
Series
Accession:
GSE254582
ID:
200254582
3.

Premeiotic 24-nt phasiRNAs are present in the Zea genus and unique in biogenesis mechanism and molecular function [small_RNA]

(Submitter supplied) Reproductive phasiRNAs are broadly present in angiosperms and play crucial roles in sustaining male fertility. While the premeiotic 21-nt phasiRNAs and meiotic 24-nt phasiRNA pathways have been extensively studied in maize (Zea mays) and rice (Oryza sativa), a third putative category of reproductive phasiRNAs–named premeiotic 24-nt phasiRNAs–have recently been reported in barley (Hordeum vulgare) and wheat (Triticum aestivum). more...
Organism:
Zea mays subsp. mexicana; Zea luxurians; Zea mays subsp. parviglumis; Zea mays subsp. mays
Type:
Non-coding RNA profiling by high throughput sequencing
4 related Platforms
69 Samples
Download data: TXT
Series
Accession:
GSE254581
ID:
200254581
4.

Premeiotic 24-nt phasiRNAs are present in the Zea genus and unique in biogenesis mechanism and molecular function.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Zea luxurians; Zea mays subsp. mexicana; Zea mays subsp. parviglumis; Zea mays subsp. mays
Type:
Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other
4 related Platforms
216 Samples
Download data: TSV
Series
Accession:
GSE254584
ID:
200254584
5.

aChIP: efficient, sensitive, robust ChIP-seq for economically important plant organs

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Brassica napus; Glycine max; Dianthus caryophyllus; Arabidopsis thaliana; Solanum lycopersicum; Populus; Solanum tuberosum; Oryza sativa; Saccharum officinarum; Citrus sinensis; Zea mays
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
11 related Platforms
160 Samples
Download data: BROADPEAK, NARROWPEAK
Series
Accession:
GSE243806
ID:
200243806
6.

aChIP: efficient, sensitive, robust ChIP-seq for economically important plant organs [ChIP-Seq]

(Submitter supplied) Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a powerful method for profiling histone modifications and transcription factors binding throughout the genome. However, its application in economically important plant organs (EIPOs) such as seeds, fruits, tubers and flowers is challenging due to their sturdy cell walls and complex constituents. Here, we present advanced ChIP (aChIP), an optimized ChIP-seq strategy that efficiently isolates chromatin from plant tissues while simultaneously removing plant cell walls and cellular constituents. more...
Organism:
Arabidopsis thaliana; Brassica napus; Solanum tuberosum; Saccharum officinarum; Glycine max; Citrus sinensis; Populus; Oryza sativa; Dianthus caryophyllus; Solanum lycopersicum; Zea mays
Type:
Genome binding/occupancy profiling by high throughput sequencing
11 related Platforms
152 Samples
Download data: BROADPEAK, NARROWPEAK
Series
Accession:
GSE243804
ID:
200243804
7.

Gene Editing of Gibberellin-Oxidase20 improves plant architecture and drought tolerance in maize

(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
Series
Accession:
GSE229138
ID:
200229138
8.

A spatiotemporal dynamic atlas of circular RNAs unraveled extensive intraspecific and developmental variation in maize

(Submitter supplied) We assembled a complete transcriptomic landscape integrating both linear and circRNAs across 26 different tissues and stages in a classic maize hybrid triplet - B73, Mo17, and their hybrid F1.
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL28862
157 Samples
Download data: GFF3, TXT
Series
Accession:
GSE199881
ID:
200199881
9.

Natural polymorphisms in ZMET2 encoding a DNA methyltransferase modulate the number of husk layers in maize

(Submitter supplied) The goals of this study are to investigate the effect of ZMET2 on genome-wide DNA methylation and gene expression.
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing
Platform:
GPL25410
22 Samples
Download data: BW, TAB, TXT
Series
Accession:
GSE232004
ID:
200232004
10.

Loss-of-function mutation of Plastid Terminal Oxidase (ZmPTOX) cause zebra leaf and white kernel by affecting plastid development in maize

(Submitter supplied) Zebra leaf is a special phenotype of variegated leaf in monocotyledonous plant. Here, we characterized a mutant zebra10 (zb10) in maize, which displays defective chloroplast development in white section of leaves at the seedling stage and pale-white kernels. Map based cloning revealed that ZB10 encodes plastid terminal oxidase (ZmPTOX) which is localized in chloroplasts. ZmPTOX protein is highest expressed in leaves and also highly expressed in endosperm. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25410
21 Samples
Download data: TXT
Series
Accession:
GSE259213
ID:
200259213
11.

Heat-Resistant Inbred Lines Coordinate the Heat Response Genes Expression Remarkably in Maize

(Submitter supplied) High temperature is increasingly becoming one of the prominent environmental factors affecting the growth and development of maize (Zea mays L.). Therefore, it is critical to identify key genes and pathways related to heat stress (HS) tolerance in maize. Here, we identified a heat-resistant (Z58D) and heat-sensitive (AF171) maize inbred lines at seedling stage. Transcriptomic analysis identified 3,006 differentially expressed genes (DEGs) in AF171 and 4,273 DEGs in Z58D under HS treatments, respectively. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25410
8 Samples
Download data: TXT
Series
Accession:
GSE254852
ID:
200254852
12.

MaizeCODE reveals bi-directionally expressed enhancers that harbor molecular signatures of maize domestication

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Zea mays subsp. parviglumis; Zea mays
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL20156 GPL34141
226 Samples
Download data: BROADPEAK, BW, NARROWPEAK, TXT
Series
Accession:
GSE254496
ID:
200254496
13.

MaizeCODE reveals bi-directionally expressed enhancers that harbor molecular signatures of maize domestication

(Submitter supplied) Modern maize was domesticated from Teosinte parviglumis, with subsequent introgressions from Teosinte mexicana, yielding increased kernel row number, loss of the hard fruit case and dissociation from the cob upon maturity, as well as fewer tillers. Molecular approaches have identified several transcription factors involved in the development of these traits, yet revealed that a complex regulatory network is at play. more...
Organism:
Zea mays subsp. parviglumis
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL34141
26 Samples
Download data: NARROWPEAK, TXT
Series
Accession:
GSE254490
ID:
200254490
14.

MaizeCODE reveals bi-directionally expressed enhancers that harbor molecular signatures of maize domestication

(Submitter supplied) Modern maize was domesticated from Teosinte parviglumis, with subsequent introgressions from Teosinte mexicana, yielding increased kernel row number, loss of the hard fruit case and dissociation from the cob upon maturity, as well as fewer tillers. Molecular approaches have identified several transcription factors involved in the development of these traits, yet revealed that a complex regulatory network is at play. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL20156
30 Samples
Download data: NARROWPEAK, TXT
Series
Accession:
GSE254489
ID:
200254489
15.

MaizeCODE reveals bi-directionally expressed enhancers that harbor molecular signatures of maize domestication

(Submitter supplied) Modern maize was domesticated from Teosinte parviglumis, with subsequent introgressions from Teosinte mexicana, yielding increased kernel row number, loss of the hard fruit case and dissociation from the cob upon maturity, as well as fewer tillers. Molecular approaches have identified several transcription factors involved in the development of these traits, yet revealed that a complex regulatory network is at play. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL20156
30 Samples
Download data: NARROWPEAK, TXT
Series
Accession:
GSE254488
ID:
200254488
16.

MaizeCODE reveals bi-directionally expressed enhancers that harbor molecular signatures of maize domestication

(Submitter supplied) Modern maize was domesticated from Teosinte parviglumis, with subsequent introgressions from Teosinte mexicana, yielding increased kernel row number, loss of the hard fruit case and dissociation from the cob upon maturity, as well as fewer tillers. Molecular approaches have identified several transcription factors involved in the development of these traits, yet revealed that a complex regulatory network is at play. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL20156
30 Samples
Download data: NARROWPEAK, TXT
Series
Accession:
GSE254487
ID:
200254487
17.

MaizeCODE reveals bi-directionally expressed enhancers that harbor molecular signatures of maize domestication

(Submitter supplied) Modern maize was domesticated from Teosinte parviglumis, with subsequent introgressions from Teosinte mexicana, yielding increased kernel row number, loss of the hard fruit case and dissociation from the cob upon maturity, as well as fewer tillers. Molecular approaches have identified several transcription factors involved in the development of these traits, yet revealed that a complex regulatory network is at play. more...
Organism:
Zea mays
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL20156
110 Samples
Download data: BROADPEAK, BW, NARROWPEAK
Series
Accession:
GSE254486
ID:
200254486
18.

MSH7 confers quantitative variation in pollen fertility and boosts grain yield in maize

(Submitter supplied) Fertile pollen is critical for the survival, fitness and dispersal of flowering plants, and directly contributes to crop productivity. Extensive mutational screening studies have been carried out to dissect the genetic regulatory network determining pollen fertility, but we still lack fundamental knowledge about whether and how pollen fertility is controlled in natural populations. We used a genome-wide association study (GWAS) to show that ZmGEN1A and ZmMSH7, two DNA repair-related genes, confer natural variation in maize pollen fertility. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25410
12 Samples
Download data: TXT
Series
Accession:
GSE224891
ID:
200224891
19.

Profiling trancriptome changes that affect vein specification in maize (Zea mays) tml (TOO MANY LATERALS) mutants

(Submitter supplied) The biochemistry of C4 photosynthesis relies on a specific suite of leaf functional properties, often referred to as Kranz anatomy, where there is increased vein density and the proportion of bundle sheath cells surrounding the veins compared to C3 photosynthesizing species. From a suite of putative Kranz anatomy regulators, TML was identified. Loss of function tml mutations lead to the development of large lateral veins in positions normally occupied by smaller intermediate veins in both C3 and C4 species tested. more...
Organism:
Zea mays
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25410
12 Samples
Download data: TXT
Series
Accession:
GSE255222
ID:
200255222
20.

Assessing chromatin accessibility in maize using ATAC-seq

(Submitter supplied) The depiction of maize chromatin architecture using Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) provides great opportunities to investigate cis-regulatory elements, which is crucial for crop improvement. We demonstrate a streamlined ATAC-seq protocol for maize in which nuclei purification can be achieved without cell sorting, and using only a standard bench-top centrifuge. more...
Organism:
Zea mays
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL25410
6 Samples
Download data: BW
Series
Accession:
GSE252638
ID:
200252638
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