GEO DataSets

(Submitter supplied) To investigate the effect of genotype on soybean transcriptomic response to different soybean cyst nematode races

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

18 Samples

Download data: XLSX

(Submitter supplied) To dissect the gene regulatory networks operating during soybean embryo development, we identified the binding sites genome-wide for transcription factor GLYMA.08G227700 in early maturation embryos using ChIP-seq.

Organism:

Glycine max

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL28801

4 Samples

Download data: NARROWPEAK

(Submitter supplied) To understand the molecular events underlying seed desiccation and germination, we performed transcriptome analysis of soybean (Glycine max) embryos at three seed developmental stages (early, mid and late desiccation), mature dry seeds, and three germination stages (3, 16 and 27 hour-after-imbibition).

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28801 GPL26488

46 Samples

Download data: TXT

(Submitter supplied) MicroRNAs (miRNAs) are small non-coding RNAs between 18-23nts in size which regulate the translation and stability of target mRNAs. miRNAs are present in dietary plants and are conventionally thought to be degraded during the gastrointestinal digestion process. Recent reports suggest that a few dietary microRNAs may exhibit resistance to this process, enter systemic circulation and exert biological effects on animal physiology, currently known as cross-kingdom regulation. more...

Organism:

Emblica officinalis; Glycine max; Allium sativum; Curcuma longa

Type:

Non-coding RNA profiling by high throughput sequencing

4 related Platforms

8 Samples

Download data: XLSX

(Submitter supplied) To understand the processes governing soybean seed development, we profiled the mRNA transcriptome and chromatin accessibility of cotyledon-stage seeds at the single-nucleus level.

Organism:

Glycine max

Type:

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

Platform:

GPL28801

2 Samples

Download data: BED, H5, MTX, TSV

(Submitter supplied) We obtained early-senescence (ES)- and late-senescence (LS)-type F7 plants from a cross between a hybrid (Glycine max × Glycine soja) and the Glycine max cultivar. The ES-type plants presented the reproductive (R2) growth stage at 50 days after sowing (DAS) and the R7 growth stage at 95 DAS, whereas the LS-type plants presented the beginning of the R1 and R6 growth stages at 50 and 95 DAS, respectively. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15008

2 Samples

Download data: TXT

(Submitter supplied) Various species of rhizobium establish compatible symbiotic relationships with soybean (Glycine max) leading to the formation of nitrogen-fixing nodules in roots. The formation of functional nodules is mediated through complex developmental and transcriptional reprogramming that involves the activity of thousands of plant genes. However, host transcriptome responses that determine the outcome of the symbiotic interactions leading to the formation of functional or non-functional nodules remain unexplored. more...

Organism:

Glycine soja; Glycine max

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL34481 GPL28801

12 Samples

Download data: TXT

(Submitter supplied) Nodulation Outer Protein P (NopP) and NopI of the type 3 secretion system (T3SS) of the rhizobium determine host specificity. Sinorhizobium fredii CCBAU25509 (R2) and CCBAU45436 (R4) have different NopP and NopI variants, affecting their respective symbiotic compatibilities with the cultivated soybean C08 and the wild soybean W05. Swapping the NopP variants between R2 and R4 has been shown to switch their compatibility with C08 with the rj2/Rfg1 genotype. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

45 Samples

Download data: TSV

(Submitter supplied) The nuclei of Glycine max from different tissues were collected. The samples were: soybean seed mid-maturation stage (10mm), seed late cotyledon stage (5mm), seed early cotyledon stage (3mm), seed heart stage (1mm), soybean green pods without seeds (stage), soybean flower bud (early flowering stage), soybean shoot apical meristem (stage), soybean trifoliate leaf (R5 stage), and soybean true leave (stage). more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

18 Samples

Download data: MTX, TSV

(Submitter supplied) The nuclei of Glycine max root seedlings (6 days-old) and nodules (28 days-old) were isolated and the library consstruction was performed applying 10x Genomics tecnology.

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

5 Samples

Download data: MTX, TSV

(Submitter supplied) Cis-regulatory elements (CREs) precisely control the spatiotemporal gene expression in cells. Using a spatially resolved single-cell atlas of gene expression and chromatin accessibility across ten soybean tissues, we identified 103 distinct cell types and 303,199 accessible chromatin regions (ACRs). Nearly 40% of ACRs showed cell-type-specific patterns and were enriched for transcription factor (TF) binding motifs controlling cell-type specification and maintenance. more...

Organism:

Glycine max

Type:

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

Platform:

GPL28801

59 Samples

Download data: CSV, JPG, JSON, PNG, RDS, TXT

(Submitter supplied) The establishment of symbiotic interactions between leguminous plants and rhizobia requires complex cellular programming activated by Rhizobium Nod factors (NFs) as well as type III effector (T3E)-mediated symbiotic signaling. However, the mechanisms by which different signals jointly affect symbiosis are still unclear. Here we describe the mechanisms mediating the cross talk between the Sinorhizobium fredii T3E Nodulation Outer Protein L (NopL) effector and NF signaling in soybean. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

12 Samples

Download data: CSV

(Submitter supplied) In cereal crop plants, sexual development and reproduction are key steps in producing seeds. However, genes responsible for reproductive function and development are largely unknown in soybean. Here, the soybean flower development was divided into three stages, namely the early stage(E), before pollination (BP) and post-pollination (PP). The flowers were hand-dissected into six tissues under the stereomicroscope, including anther (An), filament (Fi), stigma (St), style and ovary (SO), petal (Pe) and sepal (Se). more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21998

57 Samples

Download data: TXT

(Submitter supplied) To investigate the effect of overepxression of wild-type and kinase deactivated GmMKK2 on soybean trangenic hairy root gene expression

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

18 Samples

Download data: XLSX

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

Organism:

Glycine max

Type:

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

Platform:

GPL28801

28 Samples

Download data: BW, TXT

(Submitter supplied) Flowering time is a critical trait to determine regional adaptation and yield of crops including soybean. Evening Complex (EC) components soybean LUX1, LUX2, and ELF3a are critical for flowering and adaptation to lower latitudes. However, the mechanisms of EC in regulating flowering time remain largely unclear in soybean. Here, we identified GmJMJ19 and GmJMJ20 gene paralogs encoding JmjC-domain containing proteins, which co-express and interact with GmLUX2. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28801

4 Samples

Download data: TXT

(Submitter supplied) Flowering time is a critical trait to determine regional adaptation and yield of crops including soybean. Evening Complex (EC) components soybean LUX1, LUX2, and ELF3a are critical for flowering and adaptation to lower latitudes. However, the mechanisms of EC in regulating flowering time remain largely unclear in soybean. Here, we identified GmJMJ19 and GmJMJ20 gene paralogs encoding JmjC-domain containing proteins, which co-express and interact with GmLUX2. more...

Organism:

Glycine max

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL28801

4 Samples

Download data: BW

(Submitter supplied) Flowering time is a critical trait to determine regional adaptation and yield of crops including soybean. Evening Complex (EC) components soybean LUX1, LUX2, and ELF3a are critical for flowering and adaptation to lower latitudes. However, the mechanisms of EC in regulating flowering time remain largely unclear in soybean. Here, we identified GmJMJ19 and GmJMJ20 gene paralogs encoding JmjC-domain containing proteins, which co-express and interact with GmLUX2. more...

Organism:

Glycine max

Type:

Other

Platform:

GPL28801

20 Samples

Download data: BW

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

Organism:

Glycine max; Arabidopsis thaliana

Type:

Other

Platforms:

GPL21309 GPL17970

19 Samples

Download data: TSV

(Submitter supplied) Genome editing tools with high precision are key to develop improved crops but current technologies to place new DNA into specific locations in plant genomes are low frequency and error-prone. Transposable elements (TEs) evolved to insert their DNA seamlessly into genomes, albeit in a quasi-random pattern. We developed a genome engineering tool that controls the TE insertion site and subsequently the delivery of any cargo attached to this TE. more...

Organism:

Arabidopsis thaliana; Glycine max

Type:

Other

Platforms:

GPL17970 GPL21309

11 Samples

Download data: TSV