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Submergence-responsive genes in Col-0

ABSTRACT: Submergence-responsive genes in Col-0

PROVIDER: PRJNA757613 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15606823_1.fastq.gz	Fastqsanger.gz
	SRR15606823_2.fastq.gz	Fastqsanger.gz
	SRR15606824_1.fastq.gz	Fastqsanger.gz
	SRR15606824_2.fastq.gz	Fastqsanger.gz
	SRR15606825_1.fastq.gz	Fastqsanger.gz

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Submergence-responsive genes in Col-0

Project description:Col-0 seedlings were submerged or left in air for 1 h and then RNA-sequencing was performed.

2021-08-27 | GSE182724 | GEO

Quantitative proteomics Reveals Targets of Protein Kinase SnRK1 in Arabidopsis under Submergence

Project description:SNF1 RELATED PROTEIN KINASE 1 (SnRK1) is proposed as a central integrator of regulatory pathways in plant stress and energy starvation signaling. We observed in this study that the Arabidopsis SnRK1.1 dominant negative mutant (SnRK1.1K48M) had lower tolerance to submergence than the wild-type, suggesting that SnRK1.1-dependent phosphorylation of target proteins is important in energy starvation signaling triggered by submergence. To gain further insight into submergence signaling mechanisms, we determined the temporal response to energy starvation through AMP/ATP quantification and used quantitative phosphoproteomics to compare the global changes in phosphopeptides in Col-0 and SnRK1.1K48M. We found that the phosphorylation levels of 59 peptides increased and the levels of 96 peptides decreased in Col-0 within 0.5�� h of submergence. Among the 59 peptides with increased phosphorylation in Col-0, 49 did not show increased phosphorylation levels in SnRK1.1K48M under submergence. These proteins are involved in sugar synthesis, glycolysis, osmotic regulation, ABA signaling, protein synthesis and ROS signaling. In particular, the phosphorylation of MAPK6, which is involved in regulating ROS responses under different abiotic stresses, was disrupted in the SnRK1.1K48M mutant. In addition, PTP1, a negative regulator of MAPK6 activity that directly dephosphorylates MAPK6, was also regulated by SnRK1.1. These results reveal insights into the function of SnRK1 and the downstream signaling factors of submergence.

2016-04-07 | PXD002353 | Pride

Quantitative Phosphoproteomics Reveals Targets of Protein Kinase SnRK1 in Arabidopsis under Submergence

Project description:SNF1 RELATED PROTEIN KINASE 1 (SnRK1) is proposed as a central integrator of regulatory pathways in plant stress and energy starvation signaling. We observed in this study that the Arabidopsis SnRK1.1 dominant negative mutant (SnRK1.1K48M) had lower tolerance to submergence than the wild-type, suggesting that SnRK1.1-dependent phosphorylation of target proteins is important in energy starvation signaling triggered by submergence. To gain further insight into submergence signaling mechanisms, we determined the temporal response to energy starvation through AMP/ATP quantification and used quantitative phosphoproteomics to compare the global changes in phosphopeptides in Col-0 and SnRK1.1K48M. We found that the phosphorylation levels of 59 peptides increased and the levels of 96 peptides decreased in Col-0 within 0.5–3 h of submergence. Among the 59 peptides with increased phosphorylation in Col-0, 49 did not show increased phosphorylation levels in SnRK1.1K48M under submergence. These proteins are involved in sugar synthesis, glycolysis, osmotic regulation, ABA signaling, protein synthesis and ROS signaling. In particular, the phosphorylation of MAPK6, which is involved in regulating ROS responses under different abiotic stresses, was disrupted in the SnRK1.1K48M mutant. In addition, PTP1, a negative regulator of MAPK6 activity that directly dephosphorylates MAPK6, was also regulated by SnRK1.1. These results reveal insights into the function of SnRK1 and the downstream signaling factors of submergence.

2016-04-07 | PXD001815 | Pride

Effect of submergence on wild-type (Col-0) Arabidopsis plants

Project description:Effect of submergence on wild-type (Col-0) Arabidopsis plants

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Total RNA sequencing of progenies of Col-0 grafted on msh1; Col-0 grafted on dcl2,3,4,msh1; Col-0 grafted on Col-0 in Arabidopsis [msh1_graft_leaf_RNA-seq]

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Project description:Comparison of differential gene expression in WT (Col-0) and bsu-q, and flg22-responsive genes in Col-0 and bsu-q.

2019-11-11 | GSE140037 | GEO

Effect of submergence on wild-type (Col-0) Arabidopsis plants

Project description:We examined the expression of miRNAs in submerged plants and identified a set of submergence-regulated miRNAs.

2019-12-01 | GSE116998 | GEO

Effect of submergence on wild-type (Col-0) and ago1-27 mutant

Project description:Effect of submergence on wild-type (Col-0) and ago1-27 mutant

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Bisulfite (methylome) sequencing of progenies of Col-0 grafted on msh1; Col-0 grafted on dcl2,3,4,msh1; Col-0 grafted on Col-0; msh1 mutant; dcl2,3,4,msh1 quadruple mutant in Arabidopsis [msh1_graft_BS-seq]

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ChIP-seq for HA-HTR5/Col-0 and Col-0 using HA antibody

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