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DrUleMino

ABSTRACT: Ulex minor (dwarf gorse)

PROVIDER: PRJEB80997 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR13800530.fastq.gz	Fastqsanger.gz
	ERR13800531.fastq.gz	Fastqsanger.gz
	ERR13802667_1.fastq.gz	Fastqsanger.gz
	ERR13802667_2.fastq.gz	Fastqsanger.gz

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drUleMino

Project description:Ulex minor (dwarf gorse), genomic and transcriptomic data

| PRJEB80996 | ENA

Disruption of sensory plastid-associated PPD3 triggers plant growth- and defense-related epigenetic responses in Arabidopsis [RNA-Seq]

Project description:RNA sequencing of PPD3-OX transgene-positive (T+) dwarf and large, Gen1 memory dwarf, Gen2 memory dwarf and large, wild type.

2023-03-31 | GSE168682 | GEO

Disruption of sensory plastid-associated PPD3 triggers plant growth- and defense-related epigenetic responses in Arabidopsis [Bisulfite-Seq]

Project description:DNA bisulfide sequencing of PPD3-OX transgene-positive (T+) dwarf and large, Gen1 memory dwarf, Gen2 memory dwarf and large, wild type.

2023-03-31 | GSE168684 | GEO

Potential molecular mechanisms of overgrazing-induced plant dwarf of sheepgrass (Leymus chinensis) analyzed using proteome data

Project description:Abstract Objective: This study was designed to reveal the potential molecular mechanisms of long-term overgrazing-induced dwarf of sheepgrass (Leymus chinensis). Methods: The electrospray ionization-mass spectrometry (ESI-MS) system was used to generate the proteomic data in dwarf sheepgrass from long-term overgrazed rangeland and normal sheepgrass from long-term enclosed rangeland. The differentially expressed proteins (DEPs) between dwarf and normal sheepgrass were identified, following the analyses of potential functions and interactions of DEPs. Additionally, the expressions of DEPs were confirmed by high performance liquid chromatography-mass spectrum (HPLC-MS) system with multiple reaction monitoring (MRM) method. Results: A total of 51 up-regulated proteins and 53 down-regulated proteins were identified in the dwarf sheepgrass, compared with the normal controls. Some proteins like SAT5_ARATH and DAPA_MAIZE were enriched in the pathway of amino acid biosynthesis. In the protein-protein interaction network, RPOB2_LEPTE, A0A023H9M8_9STRA, ATPB_DIOEL, RBL_AMOTI and DNAK_GRATL interacted with each other. Furthermore, 4 modules were extracted from the PPI network. In addition, the HPLC-MS analysis confirmed the up-regulation of ATPB_DIOEL and the down-regulation of DNAK_GRATL in dwarf samples compared with the controls. Conclusion: The up-regulated ATPB_DIOEL and down-regulated DNAK_GRATL, as well as the proteins that interacted with them, such as RPOB2_LEPTE, A0A023H9M8_9STRA and RBL_AMOTI, may be associated with the long-term overgrazing-induced sheepgrass dwarf.

2017-05-26 | PXD006548 | Pride

Angus PRKG2 R678X homozygous (dwarf) cattle vs unaffected growth plate cartilage

Project description:Kinase activity of cGMP-dependant, type II, protein kinase (PRKG2) is required for the proliferative to hypertrophic growth transition of growth plate chondrocytes during endochondral ossification. Loss of PRKG2 function in rodent and bovine models results in dwarfism. We compared growth plate cartilage gene expression profiles of PRKG2R678X/R678X, dwarf and PRKG2R678X/+, unaffected Angus cattle using microarray technology to discover pathways regulated by PRKG2. Calves used in this analysis were produced by the mating between a dwarf carrier sire and two dams- a mother (carrier) and daughter (dwarf) pair. Each dam produced three calves by embryo transfer, which were born in two calving groups. Growth plate cartilage was harvested from the tibia of each animal at approximately 215 days of age. Total RNA was extracted by a modified Trizol protocol. The bovine cDNA microarray (GEO Accession: GPL8813) was used for this analysis. Samples were labeled with Cy3 or Cy5 and hybridized by dye swapping the dwarf (4 dwarf animals- 2 per dam/calving group) and unaffected individuals (2 unaffected animals- 1 per dam/ calving group) such that each dwarf was compared to the unaffected full-sib produced in the same calving group. Each cDNA array was analyzed at three different PMT levels (PMT70,80 and 90), resulting in 12 total image files for statistical analysis. Dwarf PRKG2 R678X homozygous cattle were compared to unaffected, age matched samples. Samples were labeled with Cy3 or Cy5 and hybridized by dye swapping the dwarf (4 dwarf animals- 2 per dam/calving group) and unaffected individuals (2 unaffected animals- 1 per dam/ calving group) such that each dwarf was compared to the unaffected full-sib produced in the same calving group (i.e. unaffected samples had 2 technical replicates). Each cDNA array was analyzed at three different PMT levels (PMT70,80 and 90), resulting in 12 total image files for statistical analysis.

2011-08-24 | E-GEOD-31627 | biostudies-arrayexpress

Transcription profiling of livers from aged and young Snell dwarf mice and their wild type controls to identify genetic signatures.

Project description:To compare and contrast genetic signatures from livers of young and aged Snell dwarf mice with their wild type controls. SUBMITTER_CITATION: W. H. Boylston, James H. DeFord, John Papaconstantinou (2006) Identification of longevity-associated genes in long-lived Snell and Ames dwarf mice Age 28:125-144 Experiment Overall Design: 25 micrograms of liver RNA was isolated from each of 6 aged (3 dwarf, 3 wild type) and 8 young (4 dwarf, 4 wild type) mice for use in hybridization of Affymetrix gene chips according to Affymetrix protocols.

2007-12-01 | E-GEOD-3129 | biostudies-arrayexpress

Expression profiling of grass-clump dwarf in synthetic hexaploids from triploid hybrids crossed between tetraploid wheat and Aegilops tauschii

Project description:We have employed whole genome microarray expression profiling as a discovery platform to identify genes to alter the transcript accumulation levels in grass-clump dwarf lines, which are synthetic hexaploid lines from triploid hybrids crossed between tetraploid wheat (Triticum turgidum ssp. durum cv. Langdon or T. turgidum ssp. carthlicum) and diploid wheat progenitor Aegilops tauschii (KU2025). No up-regulation of defense-related genes was observed under the normal temperature, and down-regulation of wheat APETALA1-like MADS-box genes, considered to act as flowering promoters, was found in the grass-clump dwarf lines. Together with small RNA sequencing analysis of the grass-clump dwarf line, unusual expression of the miR156/SPLs module could explain the grass-clump dwarf phenotype.

2016-03-02 | GSE78784 | GEO

Transcriptome analysis of rice infected with Rice gall dwarf virus

Project description:Rice gall dwarf virus (RGDV) is the causal agent of rice gall dwarf disease which causes severe loss of rice yield in Asia countries. In this study, we have analyzed the relationship between symptom and host gene responses by RGDV infection.

2012-12-01 | GSE34264 | GEO

Transcriptome analysis of rice infected with Rice black streak dwarf virus

Project description:Rice black streak dwarf virus (RBSDV) is the causal agent of rice black streak dwarf disease which causes severe loss of rice yield in Asia countries. In this study, we have analyzed the relationship between symptom and host gene responses by RBSDV infection.

2012-12-01 | GSE34263 | GEO

Angus PRKG2 R678X homozygous (dwarf) cattle vs unaffected growth plate cartilage

2011-08-25 | GSE31627 | GEO