Ontology highlight
ABSTRACT:
PROVIDER: PRJNA611834 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Sorghum (Sorghum bicolor) is the fifth most important cereal crop in the world. It is an annual C4 crop having a high biomass, used widely, and has a strong resistance to stress. Obviously, there are many benefits of planting sorghum on marginal soils such as saline-alkali land.
2020-12-03 | GSE140928 | GEO
Project description:More than 40% of the world’s potentially arable lands are composed of acid soils, and the area exceeds 20 million hectares in China.Aluminum (Al) toxicity have become major factors threating crop production on acid soils. NTL proteins are a group of NAC transcription factors, and play an important role in the mechanisms of plant response to various abiotic stresses, such as drought, salt and cold stress. However, the underlying adaption mechanism of whether NTL is involved in regulating Al toxicity in plants remain poorly understood. Soybean is important grain and oil crop. Therefore, this study focused onanalyzing the function of GmNTLs in soybean adaptation to Al toxicity. Bioinformatics analysis and expression pattern analysis were performed on 15 members of the GmNTL family in the soybean. At the same time, we preliminary analyzed the function of some members in the adaptation mechanism of aluminum toxicity by overexpressing the genes in Arabidopsis thaliana.
2021-07-27 | GSE180839 | GEO
Project description:This report is about the dataset of proteome from Qualea grandiflora plants supplemented and not supplemented with aluminium (Al) by label free mass spectrometry (LC_MS/MS). The presence of Al+3 in acid soils impairs the growth and development of most crop plant. However, there are many native Brazilian Cerrado plants that have adapted to these harsh conditions. Q. grandiflora is a representative species of such plants and accumulates Al in high quantities. Furthermore, this species has an Al-dependent metabolism because it needs this metal for growth and development. Although quite relevant for the understanding Al resistance in plants, the proteome of Q. grandiflora was not yet described. Therefore, the current proteome analysis identified a total of 2,010 proteins in roots of Q. grandiflora mostly associated with binding and catalytic activity molecular function GO terms. In conclusion, the proteome analysis of Q. grandiflora will contribute to better understand the role of Al in this plant and may help to unravel how plant evolved to cope with high levels of Al in soils.
2018-04-18 | MSV000082284 | MassIVE
Project description:The fate of the carbon stocked in permafrost soils following global warming and permafrost thaw is of major concern in view of the potential for increased CH4 and CO2 emissions from these soils. Complex carbon compound degradation and greenhouse gas emissions are due to soil microbial communities, but their composition and functional potential in permafrost soils are largely unknown. Here, a 2 m deep permafrost and its overlying active layer soil were subjected to metagenome sequencing, quantitative PCR, and microarray analyses. The active layer soil and 2 m permafrost soil microbial community structures were very similar, with Actinobacteria being the dominant phylum. The two soils also possessed a highly similar spectrum of functional genes, especially when compared to other already published metagenomes. Key genes related to methane generation, methane oxidation and organic matter degradation were highly diverse for both soils in the metagenomic libraries and some (e.g. pmoA) showed relatively high abundance in qPCR assays. Genes related to nitrogen fixation and ammonia oxidation, which could have important roles following climatic change in these nitrogen-limited environments, showed low diversity but high abundance. The 2 m permafrost soil showed lower abundance and diversity for all the assessed genes and taxa. Experimental biases were also evaluated and showed that the whole community genome amplification technique used caused large representational biases in the metagenomic libraries. This study described for the first time the detailed functional potential of permafrost-affected soils and detected several genes and microorganisms that could have crucial importance following permafrost thaw. A 2m deep permafrost sample and it overlying active layer were sampled and their metagenome analysed. For microarray analyses, 8 other soil samples from the same region were used for comparison purposes.
2010-05-06 | E-GEOD-20073 | biostudies-arrayexpress
Project description:Development of safe crop protection products is a complex process that traditionally relies on intensive animal use for hazard identification. Methods that capture toxicity at early stages of agrochemical discovery programs enable a more efficient and sustainable product development pipeline. Here we have explored whether the zebrafish model can be leveraged to identify mammalian-relevant toxicity. We used transgenic zebrafish to assess developmental toxicity following exposures to known mammalian teratogens, and captured larval morphological malformations, including bone and vascular perturbations. We further applied toxicogenomics to identify common biomarker signatures of teratogen exposure. The results show that the larval malformation assay predicted teratogenicity with 82.35% accuracy, 87.50% specificity, and 77.78% sensitivity. Slightly lower accuracy was obtained with the vascular and bone assays. A set of 20 biomarkers were identified that efficiently segregated teratogenic chemicals from non-teratogens. In conclusion, zebrafish are valuable, robust, and cost-effective models for toxicity testing at early stages of product development.
2024-03-31 | GSE254415 | GEO
Project description:The fate of the carbon stocked in permafrost soils following global warming and permafrost thaw is of major concern in view of the potential for increased CH4 and CO2 emissions from these soils. Complex carbon compound degradation and greenhouse gas emissions are due to soil microbial communities, but their composition and functional potential in permafrost soils are largely unknown. Here, a 2 m deep permafrost and its overlying active layer soil were subjected to metagenome sequencing, quantitative PCR, and microarray analyses. The active layer soil and 2 m permafrost soil microbial community structures were very similar, with Actinobacteria being the dominant phylum. The two soils also possessed a highly similar spectrum of functional genes, especially when compared to other already published metagenomes. Key genes related to methane generation, methane oxidation and organic matter degradation were highly diverse for both soils in the metagenomic libraries and some (e.g. pmoA) showed relatively high abundance in qPCR assays. Genes related to nitrogen fixation and ammonia oxidation, which could have important roles following climatic change in these nitrogen-limited environments, showed low diversity but high abundance. The 2 m permafrost soil showed lower abundance and diversity for all the assessed genes and taxa. Experimental biases were also evaluated and showed that the whole community genome amplification technique used caused large representational biases in the metagenomic libraries. This study described for the first time the detailed functional potential of permafrost-affected soils and detected several genes and microorganisms that could have crucial importance following permafrost thaw.
2010-03-08 | GSE20073 | GEO
Project description:The development of precision medicine strategies requires prior knowledge of the genetic background of the target population. However, despite the availability of data from admixed Americans within large reference population databases, we cannot use these data as a surrogate for that of the Brazilian population. This lack of transferability is mainly due to differences between ancestry proportions of Brazilian and other admixed American populations. To address the issue, a coalition of research centres created the Brazilian Initiative on Precision Medicine (BIPMed), an initiative of five Research Innovation and Dissemination Centers (RIDCs) supported by FAPESP.
2020-08-22 | GSE156652 | GEO