Ontology highlight
ABSTRACT:
PROVIDER: PRJNA656633 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR12432041_1.fastq.gz | Fastqsanger.gz | |||
| SRR12432041_2.fastq.gz | Fastqsanger.gz | |||
| SRR12432042_1.fastq.gz | Fastqsanger.gz | |||
| SRR12432042_2.fastq.gz | Fastqsanger.gz |
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Project description:A2_Microorganisms under Elevated CO2 (550 ppm) Metagenome
| PRJNA269679 | ENA
Project description:Background: The unprecedented rise in atmospheric CO2 concentration and injudicious fertilization or heterogeneous distribution of Mg in the soil warrant further research to understand the synergistic and holistic mechanisms involved in the plant growth regulation. The objective of this work is to understand responses in plants along with interactive effect of elevated CO2 and Mg levels by comparing data on single stress with that of combined stresses. Results: This study investigated the influence of elevated CO2 (800 μL L−1) on physiological and transcriptomic profiles in Arabidopsis cultured in hydroponic media treated with 1 μM (low), 1000 μM (normal) and 10000 μM (high) Mg2+. Following 7-d treatment, elevated CO2 increased the shoot growth and chlorophyll content under both low and normal Mg supply, whereas root growth was improved exclusively under normal Mg nutrition. Notably, the effect of elevated CO2 on mineral homeostasis in both shoots and roots was less than that of Mg supply. Irrespective of CO2 treatment, high Mg increased leaf number but decreased root growth and absorption of P, K, Ca, Fe and Mn whereas low Mg increased the concentration of P, K, Ca and Fe in leaves. Elevated CO2 decreased the expression of genes related to cadmium response, cell redox homeostasis and lipid localization, but enhanced photosynthesis, signal transduction, protein phosphorylation, NBS-LRR disease resistance proteins and subsequently programmed cell death in low-Mg shoots. By comparison, elevated CO2 enhanced the response of lipid localization (mainly LTP transfer protein/protease inhibitor), endomembrane system, heme binding and cell wall modification in high-Mg roots. Some of these transcriptomic results are substantially in accordance with our physiological and/or biochemical analysis. Conclusions: Contrasting changes were found between roots and shoots with the shoot transcriptome being more severely affected by low Mg while the root transcriptome more affected by high Mg. Elevated CO2 had a greater effect on transcript response in low Mg-fed shoots as well as in high Mg-fed roots. The present findings broaden our current understanding on the interactive effect of elevated CO2 and Mg levels in the Arabidopsis, which may help to design the novel metabolic engineering strategies to cope with Mg deficiency/excess in crops under elevated CO2.
2015-05-01 | GSE64501 | GEO
Project description:Elevated atmospheric CO2 can influence the structure and function of rhizosphere microorganisms by altering root growth and the quality and quantity of compounds released into the rhizosphere via root exudation. In these studies we investigated the transcriptional responses of Bradyrhizobium japonicum cells growing in the rhizosphere of soybean plants exposed to elevated atmospheric CO2. The results of microarray analyses indicated that atmospheric elevated CO2 concentration indirectly influences on expression of large number of Bradyrhizobium genes through soybean roots. In addition, genes involved in C1 metabolism, denitrification and FixK2-associated genes, including those involved in nitrogen fixation, microanaerobic respiration, respiratory nitrite reductase, and heme biosynthesis, were significantly up-regulated under conditions of elevated CO2 in the rhizosphere, relative to plants and bacteria grown under ambient CO2 growth conditions. The expression profile of genes involved in lipochitinoligosaccharide Nod factor biosynthesis and negative transcriptional regulators of nodulation genes, nolA and nodD2, were also influenced by plant growth under conditions of elevated CO2. Taken together, results of these studies indicate that growth of soybeans under conditions of elevated atmospheric CO2 influences gene expressions in B. japonicum in the soybean rhizosphere, resulting in changes to carbon/nitrogen metabolism, respiration, and nodulation efficiency.
2010-07-29 | GSE23296 | GEO
Project description:The atmosphere CO2 concentration keeps increasing every year. Use the Affymetrix poplar gene chip to confirm the expression changes in key genes in the triploid white poplar due to the influence of elevated CO2 concentrations. We used microarrays to detail the global programme of gene expression under normal and elevated CO2 concentrations.
2014-05-24 | GSE55216 | GEO
Project description:Plant respiration responses to elevated growth [CO2] are key uncertainties in predicting future crop and ecosystem function. In particular, the effects of elevated growth [CO2] on respiration over leaf development are poorly understood. This study tested the prediction that, due to greater whole-plant photoassimilate availability and growth, elevated [CO2] induces transcriptional reprogramming and a stimulation of nighttime respiration in leaf primordia, expanding leaves, and mature leaves of Arabidopsis thaliana. In primordia, elevated [CO2] altered transcript abundance, but not for genes encoding respiratory proteins. In expanding leaves, elevated [CO2] induced greater glucose content and transcript abundance for some respiratory genes, but did not alter respiratory CO2 efflux. In mature leaves, elevated [CO2] led to greater glucose, sucrose and starch content, plus greater transcript abundance for many components of the respiratory pathway, and greater respiratory CO2 efflux. Therefore, growth at elevated [CO2] stimulated dark respiration only after leaves transitioned from carbon sinks into carbon sources. This coincided with greater photoassimilate production by mature leaves under elevated [CO2] and peak respiratory transcriptional responses. It remains to be determined if biochemical and transcriptional responses to elevated [CO2] in primordial and expanding leaves are essential prerequisites for subsequent alterations of respiratory metabolism in mature leaves.
2014-04-04 | GSE56480 | GEO
Project description:Elevated atmospheric CO2 can influence the structure and function of rhizosphere microorganisms by altering root growth and the quality and quantity of compounds released into the rhizosphere via root exudation. In these studies we investigated the transcriptional responses of Bradyrhizobium japonicum cells growing in the rhizosphere of soybean plants exposed to elevated atmospheric CO2. Transciptomic expression profiles indicated that genes involved in carbon/nitrogen metabolism, and FixK2-associated genes, including those involved in nitrogen fixation, microanaerobic respiration, respiratory nitrite reductase, and heme biosynthesis, were significantly up-regulated under conditions of elevated CO2, relative to plants and bacteria grown under ambient CO2 growth conditions. The expression profile of genes involved in lipochitinoligosaccharide Nod factor biosynthesis and negative transcriptional regulators of nodulation genes, nolA and nodD2, were also influenced by plant growth under conditions of elevated CO2. Taken together, results of these studies indicate that growth of soybeans under conditions of elevated atmospheric CO2 influences gene expressions in B. japonicum in the soybean rhizosphere, resulting in changes to carbon/nitrogen metabolism, respiration, and nodulation efficiency. Bradyrhizobium japonicum strains were grown in the soybean rhizosphere under two different CO2 concentrations. Transcriptional profiling of B. japonicum was compared between cells grown under elevated CO2 and ambient conditions. Four biological replicates of each treatment were prepared, and four microarray slides were used for each strain.
2010-07-28 | E-GEOD-23296 | biostudies-arrayexpress
Project description:The atmosphere CO2 concentration keeps increasing every year. Use the Affymetrix poplar gene chip to confirm the expression changes in key genes in the triploid white poplar due to the influence of elevated CO2 concentrations. We used microarrays to detail the global programme of gene expression under normal and elevated CO2 concentrations. Gene expression of triploid white poplar ((P. tomentosa Ã? P. bolleanaï¼?Ã? P. tomentosa) leaves were investigated by using the Affymetrix poplar genome gene chip, after grown in controlled environment chambers under three different CO2 concentrations. Poplar leaves were subjected to normal CO2 concentrations (T0) and elevated CO2 concentrations (T1, 550 ppm and T2, 720 ppm) treatments three months.
2014-05-24 | E-GEOD-55216 | biostudies-arrayexpress
Project description:The transcript responses of both growing, trifoliate 6 and fully expanded, trifoliate 4 soybean leaves to elevated CO2 was investigated. We also compared the transcriptome of fully expanded vs. developing leaves in both ambient and elevated CO2. Keywords = soybean Keywords = elevated carbon dioxide Keywords = global change Keywords = leaf growth Keywords = plant Keywords: soybean leaf comparisons
2006-08-23 | GSE5573 | GEO
Project description:In the present study, we sought genes that are involved in the variation of the enhancement of plant growth rate among the Arabidopsis thaliana ecotypes in elevated CO2 condition. We performed a combination analysis of a genome wide association study (GWAS), and a transcriptome study to seek the candidate genes. GWAS was performed using the growth analysis data obtained at Oguchi et al. and the whole genome data from 31 ecotypes. The transcriptome analysis was performed for 6 ecotypes that had contrasting CO2 responses in the growth rate. We analyzed not only annotated coding genes but also small coding genes (30–100 amino acids) identified by Hanada et al., most of which were shown to play roles in cell-to-cell signaling, because it has been shown that a number of small coding genes play significant roles in environmental responses. We also studied the effect of the altered expression of the candidate genes on the plant growth rate in elevated CO2 condition using over-expression (OX) transgenics and RNA interference (RNAi) transgenics. We show that transgenic plants of three genes had significantly higher growth rate under the elevated CO2 condition.
2021-10-16 | GSE185907 | GEO