Ontology highlight
ABSTRACT:
PROVIDER: PRJEB47979 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR6929540_1.fastq.gz | Fastqsanger.gz | |||
| ERR6929540_2.fastq.gz | Fastqsanger.gz | |||
| ERR6929550_1.fastq.gz | Fastqsanger.gz | |||
| ERR6929550_2.fastq.gz | Fastqsanger.gz | |||
| ERR6929560_1.fastq.gz | Fastqsanger.gz |
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Project description:Wild-type (N2) and tps1;tps2 double mutant embryos were resuspended at 1 embryo/uL in S-basal with or without 50mM trehalose. Samples were collected after 24 hours after bleach as L1 larvae
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Project description:The otsB2 gene encoding trehalose-6-phosphate phosphatase is essential for in vitro growth of Mycobacterium tuberculosis and required to establish an acute infection in mice. Essentiality of otsB2 is due to direct or indirect toxic effects associated with the substrate trehalose-6-phosphate that accumulates when OtsB2 gene expression is impaired. In order to gain insight into the molecular basis of trehalose-6-phosphate mediated toxic effects, whole genome transcriptome profiling was done using RNA-seq. A conditional otsB2 mutant of Mycobacterium tuberculosis was generated by inserting an anhydrotetracycline-inducible promoter cassette upstream of the otsB2 start codon,and the transcriptome profile of a fully induced mutant resembling the wildtype phenotype was compared to that of a partially silenced mutant under conditions where 30% residual growth relative to the fully induced mutant was observed.
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Project description:Cells must appropriately sense and integrate multiple metabolic resources to commit to proliferation. Here, we report that cells regulate nitrogen (amino acid) and carbon metabolic homeostasis through tRNA U34-thiolation. Despite amino acid sufficiency, tRNA-thiolation deficient cells appear amino acid starved. In these cells, carbon flux towards nucleotide synthesis decreases, and trehalose synthesis increases, resulting in metabolic a starvation-signature. Thiolation mutants have only minor translation defects. However, these cells exhibit strongly decreased expression of phosphate homeostasis genes, mimicking a phosphate-limited state. Reduced phosphate enforces a metabolic switch, where glucose-6-phosphate is routed towards storage carbohydrates. Notably, trehalose synthesis, which releases phosphate and thereby restores phosphate availability, is central to this metabolic rewiring. Thus, cells use thiolated tRNAs to perceive amino acid sufficiency, and balance amino acid and carbon metabolic flux to maintain metabolic homeostasis, by controlling phosphate availability. These results further biochemical explain how phosphate availability determines a switch to a ‘starvation-state’.
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Project description:One of the primary objectives of plant biotechnology is to increase resistance to abiotic stresses, such as salinity. Salinity is a major abiotic stress and increasing crop resistant to salt continues to the present day as a major challenge. Salt stress disturbs cellular environment leading to protein misfolding, affecting normal plant growth and causing agricultural losses worldwide. The advent of state-of-the-art technologies such as high throughput mRNA sequencing (RNA-Seq) has revolutionized whole-transcriptome analysis by allowing, with high precision, to measure changes in gene expression. In this work, we used tissue-specific RNA-Seq to gain insight into the Petunia hybrida transcriptional responses under sodium chloride (NaCl) stress using a controlled hydroponic system. Roots and leaves samples were taken from a continuum of 48 hours of acute 150 mM NaCl. This analysis revealed a set of tissue- and- time point specific differentially expressed genes, such as genes related to transport, signal transduction, ion homeostasis as well as novel and undescribed genes, such as Peaxi162Scf00003g04130 and Peaxi162Scf00589g00323 expressed only in roots under salt stress. In this work, we identified early and late expressed genes in response to salt stress while providing a core of differentially express genes across all time points and tissues, including the trehalose-6-phosphate synthase 1 (TPS1), a glycosyltransferase reported in salt tolerance in other species. To test the function of the novel petunia TPS1 allele, we cloned and showed that TPS1 is a functional plant gene capable of complementing the trehalose biosynthesis pathway in mutants (tps1) yeast. The list of candidate genes to enhance salt tolerance provided in this work constitutes a major effort to better understand the detrimental effects of salinity in petunia with direct implications for other economically important Solanaceous species
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Project description:The trehalose 6-phosphate (T6P) pathway is a sugar signalling regulatory system in plants that integrates sucrose supply with metabolism, growth and development. The pathway consists of multigene families of trehalose phosphate synthases (TPSs) and trehalose phosphate phosphatases (TPPs). TPSs consist of class I and II enzymes. Class I enzymes are catalytically active but the function of class II TPSs has been enigmatic as they do not possess catalytic activity. To decipher physiological function of class II TPSs in cereals, we target a clade of three TPSs - OsTPS2, OsTPS3 and OsTPS6 in rice - with closest similarity to Arabidopsis TPS7. Gene editing with CRISPR-cas9 of OsTPS2, OsTPS3 and OsTPS6 together resulted in delayed flowering and poor grain set. Investigation of pollen showed abnormal structure, poor adherence to stigmas and reduced starch accumulation. RNAseq analysis of panicles at pre-anthesis developmental stages showed large effects on genes involved in flowering time, pollen viability and reproductive development. The study provides first direct functional information acquired through gene editing of class II TPSs in cereals.
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