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GSE23129
Glycine max
22 Downloadable Samples
Affymetrix Soybean Genome Array (soybean)
Description
The paraveinal mesophyll (PVM) of soybean leaves is a layer of laterally expanded cells sandwiched between the palisade and spongy mesophyll chlorenchyma. The vacuoles of PVM cells contain an abundance of a putative vegetative storage protein, VSP (, ). VSP is is constitutively produced, but is up-regulated during sink limitation experiments involving flower, fruit, or vegetative bud removal. Soybean vegetative lipoxygenases (Vlx), consisting of 5 isozymes (Vlx, A-D), have been identified as potential storage proteins because they accumulate to high levels with experimental sink limitation and have been co-localized with VSP to the vacuoles of PVM cells. We re-investigated the sub-cellular locations of these enzymes with TEM immuno-cytochemistry. We employed laser micro-dissection to compared RNA expression of PVM cells with mesophyll chlorenchyma cells, and we performed a micro-array analysis of soybean leaf samples representing a time-course, sink-limitation, experiment. We found that none of the Vlx isozymes co-localize with putative storage proteins in PVM vacuoles, and that our sink limitation experiment (typical of those used in the past) induced a strong up-regulation of stress response genes, simultaneous with the up-regulation of the Vlx isozymes. Our findings do not support a storage function for soybean Vlx.
Publication Title
Experimental sink removal induces stress responses, including shifts in amino acid and phenylpropanoid metabolism, in soybean leaves.
Sample Metadata Fields
Specimen part, Disease
View Samples- Glycine max
- 6 Downloadable Samples
- Affymetrix Soybean Genome Array (soybean)
Description
The paraveinal mesophyll (PVM) of soybean leaves is a layer of laterally expanded cells sandwiched between the palisade and spongy mesophyll chlorenchyma. The vacuoles of PVM cells contain an abundance of a putative vegetative storage protein, VSP (, ). VSP is is constitutively produced, but is up-regulated during sink limitation experiments involving flower, fruit, or vegetative bud removal. Soybean vegetative lipoxygenases (Vlx), consisting of 5 isozymes (Vlx, A-D), have been identified as potential storage proteins because they accumulate to high levels with experimental sink limitation and have been co-localized with VSP to the vacuoles of PVM cells. We re-investigated the sub-cellular locations of these enzymes with TEM immuno-cytochemistry. We employed laser micro-dissection to compared RNA expression of PVM cells with mesophyll chlorenchyma cells; and we performed a micro-array analysis of soybean leaf samples representing a time-course, sink-limitation, experiment. We found that none of the Vlx isozymes co-localize with putative storage proteins in PVM vacuoles, and that our sink limitation experiment (typical of those used in the past) induced a strong up-regulation of stress response genes, simultaneous with the up-regulation of the Vlx isozymes. Our findings do not support a storage function for soybean Vlx.
Publication Title
Experimental sink removal induces stress responses, including shifts in amino acid and phenylpropanoid metabolism, in soybean leaves.
Sample Metadata Fields
Specimen part
View Samples- Mus musculus
- 123 Downloadable Samples
IlluminaHiSeq2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 85 Downloadable Samples
- IlluminaHiSeq2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 88 Downloadable Samples
- Illumina HiSeq 2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 71 Downloadable Samples
- IlluminaHiSeq2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 63 Downloadable Samples
- Illumina HiSeq 2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 47 Downloadable Samples
- Illumina HiSeq 2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
Specimen part, Cell line, Subject
View Samples- Mus musculus
- 42 Downloadable Samples
- Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
Hox genes are key regulators of development. In mammals, the study of these genes is greatly confounded by their large number, overlapping functions, and their interspersed shared enhancers. In this report, we describe a novel recombineering strategy that was used to introduce simultaneous frameshift mutations into the flanking Hoxa9, Hoxa10, and Hoxa11 genes, as well as their paralogs on the HoxD cluster. The resulting mutant mice displayed dramatic homeotic transformations of the reproductive tracts, with uterus anteriorized towards oviduct and the vas deferens anteriorized towards epididymis. The Hoxa9,10,11 mutant mice provided a sensitized genetic background that allowed the discovery of Hoxd9,10,11 reproductive tract patterning function. Both shared and distinct Hox functions were defined. The HoxD genes played a crucial role in the regulation of the uterine immune function. Non-coding nonpolyadenylated RNAs were among the key Hox targets. In addition, we observed a surprising anti-dogmatic posteriorization of the uterine epithelium.
Publication Title
Recombineering-based dissection of flanking and paralogous Hox gene functions in mouse reproductive tracts.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 38 Downloadable Samples
- Illumina HiSeq 2500
Description
Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers
Publication Title
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Sample Metadata Fields
No sample metadata fields
View Samples