GEO DataSets

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

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL33604 GPL21615

10 Samples

Download data: TXT

(Submitter supplied) Sorghum is multipurpose crop worldwide serving as food, feed, and feedstock for biofuels, whose floral transition and vegetative growth heavily depend on photoperiod. Although multiple sorghum maturity loci (Ma1-Ma6) have been associated with photoperiod sensitivity in previous QTL studies, the underlying molecular mechanisms remain poorly understood. By functional characterizing sorghum SbGhd7 (Ma6) and integrating RNA-seq analysis of Ghd7 overexpression sorghum, ChIP-seq analysis of SbGhd7 binding sites in protoplasts and molecular studies, we discovered that SbEhd1 and SbFT10 are the direct targets of SbGhd7. more...

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

6 Samples

Download data: TXT

(Submitter supplied) We report transcriptome profiling from three developing stages of middle internode in Hybrid sweet sorghum. Samples were harvested at Booting, milky stages and physiological maturity.

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

12 Samples

Download data: XLSX

(Submitter supplied) Four small RNA libraries from two contrasting sweet sorghum genotypes were sequenced. In this study, One hundred and ninety-five conserved miRNAs belonging to 56 families and 25 putative novel miRNAs from 28 precursors were identified, among which 38 conserved and 24 novel miRNAs were differentially expressed under Cd stress and/or between H18 and L69. Two groups of them: miR169p/q-nov_23 and miR408 were further focused through the coexpression analysis and might be involved in Cd transport, cytoskeleton activity and cell wall construction by regulating their targets. more...

Organism:

Sorghum bicolor

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL21615

4 Samples

Download data: FA, XLS

(Submitter supplied) Identify the change in transcriptomic and epigenetic profiles within the sorghum root system of the cultivar BTx623 in response to limiting phosphorus conditions. This data is from the 2022 publication "Sorghum root epigenetic landscape during limiting phosphorus conditions".

Organism:

Sorghum bicolor

Type:

Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL21615 GPL20818

34 Samples

Download data: BW, CSV, TSV

(Submitter supplied) MicroRNAs (miRNAs) are part of gene regulatory networks that direct all most all biological processes in plants including their growth and development, as well as adaptation to biotic and abiotic stresses. Sorghum is largely grown for its grain production, but recently it also emerged a major feedstock for biofuel production. Interestingly, Sorghum is relatively drought tolerant crop and largely grown in semi-arid tropical and sub-tropical regions where the drought or high temperature or their combination co-occur in the field. more...

Organism:

Sorghum bicolor

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL21615

2 Samples

Download data: TXT

(Submitter supplied) Elevated CO2 (E[CO2]) improves the biomass and yield when combined with water-stress in C4 plants. Although several studies described the molecular response of the C4 plant Sorghum bicolor during drought exposure, none reported its combinatorial effect with E[CO2] in the roots. We decided to perform a molecular analysis using green prop roots, the portion of the radicular system photosynthetically active and more sensible to drought. more...

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

8 Samples

Download data: XLSX

(Submitter supplied) Parallel Analysis of RNA Ends (PARE) sequencing reads were generated to validate putative microRNAs and identify cleavage sites in Sorghum bicolor and Setaria viridis.

Organism:

Sorghum bicolor; Setaria viridis

Type:

Non-coding RNA profiling by high throughput sequencing; Other

Platforms:

GPL21615 GPL23621

8 Samples

Download data: TXT

(Submitter supplied) In monocots other than the cereals maize and rice, the repertoire and diversity of microRNAs (miRNAs) and the populations of phased, secondary, small interfering RNAs (phasiRNAs) are poorly characterized. To remedy this, we sequenced small RNAs (sRNAs) from vegetative and dissected inflorescence tissue in 28 phylogenetically diverse monocots and from several early-diverging angiosperm lineages, as well as publicly available data from 10 additional monocot species. more...

Organism:

Acorus calamus; Setaria viridis; Canna indica; Anomochloa marantoidea; Kniphofia uvaria; Phalaenopsis equestris; Sagittaria montevidensis; Freycinetia cumingiana; Liriope muscari; Musa acuminata var. zebrina; Musa ABB Group; Musa acuminata AAA Group; Sorghum bicolor; Zea mays; Cyperus alternifolius; Zostera marina; Streptochaeta angustifolia; Elaeis guineensis; Nymphaea colorata; Echinodorus uruguayensis; Raddia brasiliensis; Prosthechea radiata; Colocasia esculenta; Lemna gibba; Oryza glaberrima; Ananas comosus; Cocos nucifera; Phyllostachys edulis; Phoenix dactylifera; Hemerocallis lilioasphodelus; Pharus parvifolius; Tradescantia fluminensis; Goudaea ospinae

Type:

Non-coding RNA profiling by high throughput sequencing

34 related Platforms

195 Samples

Download data: TXT

(Submitter supplied) The applications of plant callus regeneration has been widely spreaded in agricultural improvement. By using immature sorghum embryos as explants, progress in successful genetic transformation has been made in sorghum. However, the underlying mechanism of callus differentiation is still largely unknown in sorghum. Here, we described three types of callus with different abilities of redifferentiation (Callus I-III), undergoing distinct induction from immature embryo in the variety of Hiro-1. more...

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

8 Samples

Download data: TXT

(Submitter supplied) We conducted a large-scale field experiment, imposing pre- and post-flowering drought stress on two genotypes of sorghum across a tightly-resolved time series, resulting in a data set of over 350 transcriptomes root and shoot tissue.

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL21615 GPL20818

395 Samples

Download data: FA, GFF3, TXT

(Submitter supplied) Basal branching in grasses, or tillering, is an important trait determining both form and function of crops. While similarities exist between eudicot and grass branching programs, one notable difference is that the tiller buds of grasses are covered by the subtending leaf, whereas eudicot buds are typically unconstrained. The current study shows that contact with the leaf sheath represses sorghum bud growth by providing a mechanical signal that cues the bud to refrain from rapid growth. more...

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

18 Samples

Download data: XLSX

(Submitter supplied) Background: Since the proposal of Brachypodium distachyon as a model for the grasses over 500 Bdi-miRNAs have been annotated in miRBase making Brachypodium second in number only to rice. Other monocots, such as switchgrass, are completely absent from the miRBase database. While a significant number of miRNAs have been identified which are highly conserved across plants, little research has been done with respect to the conservation of miRNA targets. more...

Organism:

Sorghum bicolor; Brachypodium distachyon; Panicum virgatum

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL21050 GPL21615 GPL24761

44 Samples

Download data: TXT

(Submitter supplied) Bioenergy sorghum accumulates 75% of shoot biomass in stem internodes. Grass stem internodes are formed during vegetative growth and elongate in response to developmental and environmental signals. To identify genes and molecular mechanisms that modulate the extent of internode growth, we conducted microscopic and transcriptomic analysis of four successive sub-apical vegetative internodes representing different stages of internode development of the bioenergy sorghum genotype R.07020.

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

12 Samples

Download data: CSV

(Submitter supplied) Phytochrome B (phyB) enables plants to modify shoot branching or tillering in response to varying light intensities and ratios of red and far-red light caused by shading and neighbor proximity. Tillering is inhibited in sorghum genotypes that lack phytochrome B (58M, phyB-1) until after floral initiation. The growth of tiller buds in the first leaf axil of wild-type (100M, PHYB) and phyB-1 sorghum genotypes is similar until 6 d after planting when buds of phyB-1 arrest growth, while wild-type buds continue growing and develop into tillers. more...

Organism:

Sorghum bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21615

18 Samples

Download data: XLSX