Ontology highlight
ABSTRACT:
PROVIDER: PRJEB27219 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Seeds, as an effective depository of plant genetic resources and an important raw material for germplasm innovation, aging or deterioration will directly lead to a reduction in germination rate, vigor and viability, inhibit the normal development of the seed embryo and seedling growth. Methods: Allium mongolicum seeds stored naturally for 2, 4 and 5 years were used as test materials, determination of germination indexes, antioxidant enzyme activities and other physiological indexes in seeds treated with 0.8 mmol/L spermidine solution, and proteomic and transcriptomic sequencing were performed. Results: The results showed that the germination ability of Allium mongolicum seeds decreased continuously with the extension of storage life, and the germination rate was only about 40% after 5 years of storage. The relative conductivity, MDA and H2O2 content were significantly higher, CAT, POD, SOD, APX, and respiratory rate were significantly reduced; Spd treatment increased seed germination rate, significantly reduced MDA, H2O2 content and relative conductivity, and increased CAT, POD, SOD, and APX activities. Functional analysis of the differentially expressed proteins showed that the differentially expressed proteins were mainly concentrated in energy metabolism pathways such as carbon metabolism, amino acid biosynthesis, glycolysis/glycogen isomerization, TCA cycle, pyruvate metabolism and pentose phosphate metabolism. Transcriptome sequencing yielded similar results. PPI analysis identified 10 proteins related to the aging of Allium mongolicum seeds, and the core protein was also verified by qPCR, the gene expression trend was basically consistent with the proteomic assay results. Conclusions : Energy metabolism may be a key pathway in the aging of Allium mongolicum seeds, and spermidine can effectively alleviate Allium mongolicum seed aging. The results enriched the molecular mechanism of seed storability of Allium mongolicum and provided theoretical basis for molecular marker-assisted breeding of storability traits in Allium mongolicum L.
2024-11-18 | PXD058020 |
Project description:Purpose: Aim of this study was to determine the miRNAs associated with average daily gain in Kangal Akkaraman lambs. Depending on the average daily gain, two groups were formed as low average daily gain (LDG) and high average daily gain (HDG). Methods: Peripheral blood mononuclear cells (pbmc) were separated from blood samples obtained from lambs and RNA was isolated with TRI Reagent (Sigma). Isolated total RNAs from LDG (n = 17) and HDG (n = 21) groups were pooled. miRNA libraries (LDG and HDG groups) were prepared with NEBNext® Multiplex Small RNA Library Prep Set for Illumina® (NEB, USA.) and sequenced with Illumina Novaseq. Readings were mapped with the Bowtie program using the Oar_v3.1 sheep reference genome. Differential expression analysis of the two groups was performed using the DESeq R package (1.8.3). Results: Using an optimized data analysis workflow, we mapped about 18 million sequence reads in HDG and 21 million sequence reads n LDG samples to the ovis aries genome (oar_v3.1). In total, 129 known miRNAs were identified, 134 novel miRNAs were predicted, and 40 differentially expressed miRNAs were found between the groups. Conclusions: Our study represents the first detailed analysis of Kangal type Akkaraman sheep PBMC miRNAs with RNA-seq technology. The obtained sequence reads would provide data for futher breeding studies related to average daily gain in Kangal Akkraman sheep.
2021-03-11 | GSE168662 | GEO
Project description:Transcriptome Analysis of Allium mongolicum Regel: Drought Resistance Comparison Between Wild (Minqin, GS) and Domesticated (Tongliao, XH) Accessions
| PRJNA1277023 | ENA
Project description:The objective of this experiment was to use transcriptional profiling of skeletal muscle and adipose tissue to develop a better understanding of the metabolic basis for poor weaned-pig transition. A total of 1,054 pigs were reared in commercial conditions and weighed at birth, weaning, and 3 weeks post- weaning. Transition average daily gain (tADG) was calculated as the average daily gain for the 3-week period post-weaning. Nine pigs from each of the lowest 10th percentile (low tADG) and the 60th-70th percentile (high tADG) were harvested at 3 weeks post-weaning. Differential expression analysis was conduced in both tissues using RNA-Seq methodology
2015-02-25 | GSE65983 | GEO