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N-terminal acetyaltion of Human JunB in yeast expressing all N-terminal acetyltransferases, no NatA enzyme or no NatB enzyne

ABSTRACT: Define the N-terminal status of overexpressed human JUNB in WT yeast strain, NAA10 Δ strain and NAA20 Δ strain.

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Malin Lundekvam

LAB HEAD: Thomas Arnesen

PROVIDER: PXD047612 | Pride | 2024-07-03

REPOSITORIES: Pride

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			Action	DRS
	10_1.mzML	Mzml
	10_1.mzid.gz	Mzid
	10_1.raw	Raw
	10_2.mzML	Mzml
	10_2.mzid.gz	Mzid

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1 - 5 of 27

Publications

N-terminal cysteine acetylation and oxidation patterns may define protein stability.

Heathcote Karen C KC Keeley Thomas P TP Myllykoski Matti M Lundekvam Malin M McTiernan Nina N Akter Salma S Masson Norma N Ratcliffe Peter J PJ Arnesen Thomas T Flashman Emily E

Nature communications 20240625 1

Oxygen homeostasis is maintained in plants and animals by O2-sensing enzymes initiating adaptive responses to low O2 (hypoxia). Recently, the O2-sensitive enzyme ADO was shown to initiate degradation of target proteins RGS4/5 and IL32 via the Cysteine/Arginine N-degron pathway. ADO functions by catalysing oxidation of N-terminal cysteine residues, but despite multiple proteins in the human proteome having an N-terminal cysteine, other endogenous ADO substrates ha ...[more]

PMID: 38918375

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Yeast Nat Nt-acetylation SWATH MS

Project description:Yeast strains (wild type, Naa10 KO and Naa20 KO, resp: wt, natA-delta and natB-delta) were profiled for full proteome analysis by SWATH MS

2020-12-15 | PXD015217 | Pride

Rpn4- and Proteasome- Mediated Yeast Response to Ethanol Stress: a View from a Proteome

Project description:Distilled spirits production using S. cerevisiae requires understanding the mechanisms of yeast cell response to the alcohol stress. Reportedly, specific mutations in genes of the ubiquitin-proteasome system, e.g. RPN4, may result in strains exhibiting either hyper-resistance or increased sensitivity to different alcohols. In this work, we studied Rpn4-dependent response of different yeast strains to short-term ethanol exposure. Three S. cerevisiae strains were used: wild-type (WT), mutant strain with RPN4 gene deletion (rpn4-delta), and mutant strain with decreased proteasome activity due to PRE1 deregulation (YPL). The resistance tests demonstrated an increased sensitivity of mutant strains to ethanol compared with WT. Comparative proteomics analysis revealed significant differences in molecular responses to ethanol between different strains. GO analysis of proteins upregulated in WT showed enrichments represented by oxidative and heat responses, protein folding/unfolding and protein degradation. Enrichment of at least one of these responses was not observed in mutant strains. At the same time, trehalose synthesis and accumulation of stress granules were enhanced in the mutant strains. We suggest that these pathways could partially compensate for the failure of ubiquitin-proteasome system to cope with the ethanol stress. Also, we suggest impaired compensatory activation of autophagic degradation system in rpn4-delta strain and propose that Rpn4 can be a regulator for autophagy upon ethanol stress. These findings can be a basis for creating genetically modified yeast strains resistant to high levels of alcohol, being further used for fermentation in ethanol production.

2020-04-22 | PXD014236 | Pride

Expression analysis of Salmonella enterica serovar Typhimurium UK1 delta-iacP mutant

Project description:Investigation of whole genome gene expression level changes in a Salmonella enterica serovar Typhimurium UK1 delta-iacP mutant, compared to the wild-type strain. IacP is resoponsible for the secretion of virulence effector proteins via the type III secretion system, thereby contributing the virulence of S. Typhimurium. The mutants analyzed in this study are further described in Kim et al. 2011. Role of Salmonella Pathogenicity Island 1 Protein IacP in Salmonella enterica Serovar Typhimurium Pathogenesis. Infection and Immunity 79(4):1440-1450 (PMID 21263021). A chip study using total RNA recovered from two separate wild-type cultures of Salmonella enterica serovar Typhimurium UK1 and two separate cultures of a mutant strain, Salmonella enterica serovar Typhimurium UK1 delta-iacP. Each chip measures the expression level of 4,302 genes from Salmonella enterica serovar Typhimurium.

2012-04-29 | E-GEOD-34663 | biostudies-arrayexpress

Gene expression analysis of Pseudomonas aeruginosa wild type, delta-gbdR, and delta-plcHR deletion mutants

Project description:Pseudomonas aeruginosa is a virulent opportunistic pathogen responsible for high morbity in COPD, burns , implanted medical devices and cystic fibrosis. Pseudomonas aeruginosa is a problematic colonizer of the human lung. P. aeruginosa produces a phospholipase C (PlcH) that degrades choline-containing lipids such as phosphatidylcholine and sphingomylein that are found in lung surfactant and in host membranes. In this study, we analyzed gene expression in mutants defective in PlcH production (delta-plcH and delta-gbdR) and the wild type when growing in medium with lung surfactant. Pseudomonas aeruginosa was cultured in liquid cultures with aeration in a defined medium with Survanta, a lung surfactant replacement. Cultures were harvested during mid-exponential phase, and RNA was isolated for microarray analysis. The P. aeruginosa strain PAO1 wild type gene expression was compared to expression profiles from delta-gbdR and delta-plcHR deletion mutants, two mutants defective in PlcH production.

2013-01-01 | E-GEOD-41926 | biostudies-arrayexpress

Nt-propionylation in yeast - Protein N-terminal acetyltransferases act as N-terminal propionyltransferases in vitro and in vivo

Project description:a yNatA N-terminal proteome (WT) was differentialy compared with either a yNatA delta or a yNatA delta/hNatA expressing N-terminal proteome

2013-02-27 | PRD000673 | Pride

Expression analysis of sporulating Bacillus subtilis strain 168 deleted for prpE gene

Project description:Investigation of whole genome gene expression level changes in sporulating Bacillus subtilis 168 delta-prpE mutant, compared to the wild-type strain. The mutation engineered into this strain results in impaired germination of spores. A six chip study using total RNA extracted from three separate wild-type cultures of sporulating Bacillus subtilis 168 and three separate cultures of sporulating mutant strain, Bacillus subtilis 168 delta-prpE, in which prpE (yjbP BSU11630) gene coding for a protein phosphatase is deleted entirely. Each chip consists of four fields able to measure the expression level of 4,104 genes from Bacillus subtilis subsp. subtilis strain 168 NC_000964 with eight 60-mer probe pairs (PM/MM) per gene, with two-fold technical redundancy.

2013-07-08 | E-GEOD-44125 | biostudies-arrayexpress

Expression analysis of Bacteroides fragilis NCTC 9343 delta-ungD1 delta-ungD2 delta-PSH acapsular mutant

Project description:Investigation of whole genome gene expression level changes in a Bacteroides fragilis NCTC 9343 delta-ungD1 delta-ungD2 delta-PSH triple mutant, compared to the wild-type strain. The mutations engineered into this strain render it acapsular. The mutants analyzed in this study are further described in Coyne, M. J., M. Chatzidaki-Livanis, L. C. Paoletti, and L. E. Comstock. 2008. Role of glycan synthesis in colonization of the mammalian gut by the bacterial symbiont Bacteroides fragilis. PNAS 105(35):13098-13103 (PID 18723678). A six chip study using total RNA recovered from three separate wild-type cultures of Bacteroides fragilis NCTC 9343 and three separate cultures of a triple mutant strain, Bacteroides fragilis NCTC 9343 delta-ungD1 delta-ungD2 delta-PSH, in which ungD1 (BF1706), ungD2 (BF2848), and six genes (BF3454 through BF3459) of the PSH capsular polysaccharide locus are truncated or deleted entirely. Each chip measures the expression level of 4,302 genes from Bacteroides fragilis NCTC 9343 and the associated plasmid pBF9343 with fourteen 24-mer probe pairs (PM/MM) per gene, with three-fold technical redundancy.

2008-09-02 | E-GEOD-11268 | biostudies-arrayexpress

ChIP-seq analysis of Escherichia coli sigma 38 binding in cells lacking H-NS

Project description:The experiment contains ChIP-seq data for Escherichia coli strain RPB104 hns::kan. The strain was grown at 37 degrees in LB medium to stationary phase and crosslinked with 1 % (v/v) formaldehyde. After sonication, to break open cells and fragment DNA, immunoprecipitations were done using anti-FLAG antibodies. Libraries were prepared using DNA remaining after immunoprecipitation.

2021-03-01 | E-MTAB-8778 | biostudies-arrayexpress

Transcriptional profiling of Streptomyces coelicolor M145 strain and delta wdpB and delta wdpC mutant strains.

Project description:Transcriptional profiling of Streptomyces coelicolor M145 strain and delta wdpB and delta wdpC mutant strains.

2013-03-26 | E-MTAB-894 | biostudies-arrayexpress

Delta lgt paper

Project description:We have used a lipoprotein-deficient mutant Streptococcus pneumoniae strain, delta lgt, to investigate the role of lipoproteins during inflammatory responses to live S. pneumoniae.

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