Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Homeoviscous adaptation to exogenous fatty acids in Escherichia coli

ABSTRACT: Exogenous fatty acids are directly incorporated into bacterial membranes, heavily influencing bacterial ecology and antibiotic susceptibility. We use liquid chromatography/mass spectroscopy to characterize how exogenous fatty acids impact the Escherichia coli fatty acid synthesis pathway. We quantify acyl-ACP, phospholipids and phospholipid synthesis intermediates, and key proteins using a targeted protcol.

INSTRUMENT(S): 6410 Triple Quadrupole LC/MS

ORGANISM(S): Escherichia Coli

SUBMITTER: Gregory Bokinsky

LAB HEAD: Gregory Bokinsky

PROVIDER: PXD057199 | Pride | 2025-01-06

REPOSITORIES: pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	20201215_Raw.zip	Other
	20210706_Raw.zip	Other
	20210916_Raw.zip	Other
	20220131_Raw.zip	Other
	20220224_Raw.zip	Other

Items per page:

1 - 5 of 19

Similar Datasets

Exogenous melatonin promotes rice seed germination under salinity through regulating reactive oxygen species and phytohormones

Project description:Melatonin plays a potential role in multiple plant developmental processes and stress response. However, there are no reports regarding exogenous melatonin promoting rice seed germination under salinity and nor about the underlying molecular mechanisms at genome-wide. Here, we revealed that exogenous application of melatonin conferred roles in promoting rice seed germination under salinity. The putative molecular mechanisms of exogenous melatonin in promoting rice seed germination under high salinity were further investigated through metabolomic and transcriptomic analyses. The results state clearly that the phytohormone contents were reprogrammed, the activities of SOD, CAT, POD were enhanced, and the total antioxidant capacity was activated under salinity by exogenous melatonin. Additionally, melatonin-pre-treated seeds exhibited higher concentrations of glycosides than non-treated seeds under salinity. Furthermore, exogenous melatonin alleviated the accumulation of fatty acids induced by salinity. Genome-wide transcriptomic profiling identified 7160 transcripts that were differentially expressed in NaCl, MT100 and control. Pathway and GO term enrichment analysis revealed that genes involved in the response to oxidative stress, hormone metabolism, heme building, mitochondrion, tricarboxylic acid transformation were altered after melatonin pre-treatment under salinity. This study provides the first evidence of the protective roles of exogenous melatonin in increasing rice seed germination under salt stress, mainly via activation of antioxidants and modulation of metabolic homeostasis.

2020-01-20 | GSE143922 | GEO

Quantification of oxidative stress-related proteins using MRM approach in atherosclerosis-related and non-related to chronic kidney disease

Project description:The aim of MRM analysis of selected oxidative stress-related proteins, including MPO, CERu, sTNF, SOD3, HMOX1, PON1, GPX3, NOS2, CAT and IFNG was to investigate changes in plasma samples from patients at different stages of atherosclerosis-related to chronic kidney disease, classical atherosclerosis as well as in comparison with healthy controls.

2024-01-23 | PXD041820 | Pride

The effects of exogenous RNAs on transcriptome

Project description:To explore the potential functions of exogenous RNAs in circulation, we transfected several synthetic, double-stranded mature microRNA-like molecules selected from observed exogenous miRNA sequences and some highly abundant exogenous sequences (bacterial rRNAs) that have potential to form pre-miRNA-like secondary structures into a mouse, Dicer-deficient, fibroblast cell line. This provides a good tool for studying the function of miRNAs. By introducing individual miRNA into these cells and avoiding multiple interactions of microRNA and mRNA (Wang et al in preparation) it is possible to interrogate the cells for mRNA levels, which are informative as to specific miRNA function.

2015-09-30 | GSE72914 | GEO

Reprograming of sRNA target specificity by the leader peptide peTrpL in response to antibiotic exposure

Project description:Trans-acting regulatory RNAs have the capacity to base pair with more mRNAs than experimentally detected under given conditions. This raises the question whether the sRNA target specificity can change upon metabolic or environmental changes. In Sinorhizobium meliloti, the sRNA rnTrpL is derived from a tryptophan (Trp) transcription attenuator, which is located upstream of the Trp biosynthesis gene trpE(G) and harbors the small ORF trpL. When Trp is available, efficient trpL translation causes transcription termination and liberation of rnTrpL, which then downregulates the trpDC operon. On the other hand, the trpL-encoded leader peptide peTrpL has a Trp-independent role in posttranscriptional regulation of antibiotic resistance. Here, we show that upon tetracycline (Tc) exposure, rnTrpL accumulates independently of Trp availability. Further, we provide evidence that both rnTrpL and peTrpL act together in the Tc-dependent destabilization of rplUrpmA mRNA encoding ribosomal proteins L21 and L27. rnTrpL, peTrpL and rplUrpmA mRNA were copurified in an antibiotic- dependent ribonucleoprotein complex (ARNP). In vitro ARNP reconstitution with competing trpD and rplU transcripts revealed that peTrpL and Tc reprogram the rnTrpL specificity in favor of rplU. In vivo, this probably supports bacterial adaptation to antibiotics. Our findings provide evidence for sRNA reprograming in response to antibiotic exposure.

2021-08-10 | PXD019516 | Pride

Francisella tularensis Schu4 gene expression during infection of mouse spleen

Project description:Francisella tularensis is classified as a Category A priority pathogen and causes fatal disseminated disease in humans upon inhalation of less than 50 bacteria. Although drugs are available for treatment, they are not ideal because of toxicity and delivery, and in some cases relapse upon withdrawal. We have an ongoing program in the development of novel FabI enoyl-ACP-reductase enzyme inhibitors for Francisella and other select agents. To establish ftFabI in F. tularensis as a clinically relevant drug target, we demonstrated that the enzyme is essential for growth in vitro and that ftfabI is not transcriptionally altered in the presence of exogenous fatty acids. Inhibition of ftFabI results in loss of viability that is not rescued by exogenous fatty acids supplementation. Importantly, whole-genome transcriptional profiling of F. tularensis with DNA microarrays from infected tissues revealed that ftfabI and de novo fatty acid biosynthetic genes are transcriptionally active during infection. This is the first demonstration that the FabI enoyl-ACP-reductase enzyme encoded by F. tularensis is essential and that de novo fatty acid biosynthetic components are transcriptionally active during infection in the mouse model tularemia. 2 C57BL/6 mice were infected with Francisella tularensis strain Schu4 via the intranasal route. Spleen tissue was harvested at 120 hours post-infection and total RNA was isolated immediately after harvest. RNA was pooled and host polyA-tailed RNA and ribosomal RNA were depleted using hybridization probes coupled to magnetic beads. The resulting sample was enriched for bacterial mRNA, and dye labeled using random hexamer primed RT and Cy3-labeled dUTPs. Labeled cDNA was hybridized in triplicate to custom whole genome cDNA microarrays and scanned using a GenePix 4000B.

2012-08-03 | E-GEOD-39871 | biostudies-arrayexpress

Gene expression profiling of HDAC3-depleted mouse liver rescued with wild-type exogenous HDAC3

2013-11-25 | GSE49386 | GEO

Arachidonic acid targets pneumococcal fatty acid homeostasis

Project description:Free fatty acids play an important role during infection by modulating immune responses, but also by directly functioning as antimicrobials. Particularly, the host’s long chain polyunsaturated fatty acids, not commonly found in bacterial pathogens, have significant antibacterial potential. Of these arachidonic acid (AA) is in high abundance, and in this study we show that upon infection with the Streptococcus pneumoniae the AA concentration in the blood increases. Hence, we investigated the transcriptmoic effects of AA on this extremely problematic bacterial pathogen.

2018-05-23 | GSE93102 | GEO

Untargeted and targeted transcriptome analysis to decipher the impact of exogenous fatty acids in cold stress adaptation of Listeria monocytogenes

Project description:Untargeted and targeted transcriptome analysis to decipher the impact of exogenous fatty acids in cold stress adaptation of Listeria monocytogenes

| PRJNA1115784 | ENA

Gene expression profiling of HDAC3-depleted mouse liver rescued with wild-type exogenous HDAC3

Project description:We have shown that intravenous injection of HDAC3 floxed mice with adeno-associated virus (AAV) expressing Cre depletes hepatic HDAC3, upregulates lipogenic gene expression, and causes fatty liver. When AAV-Flag-HDAC3 wild-type (WT) is co-injected along with AAV-Cre, the exogenous HDAC3 is expressed at endogenous levels and can completely rescue fatty liver phenotype. Here we profile transcriptome of the rescued WT livers in comparison with HDAC3-depleted (KO) livers. 4-months old C57BL/6 male mice were co-injected with AAV-Cre or AAV-Cre plus AAV-Flag-HDAC3. Mice were fed ad libitum and harvested at 5 pm (ZT10) at 2-weeks post-injection. Liver total RNA was extracted and hybridized to Affymetrix Mouse Gene 1.0ST array.

2013-11-25 | E-GEOD-49386 | biostudies-arrayexpress

Untargeted and targeted transcriptome analysis to decipher the impact of exogenous fatty acids in cold stress adaptation of Listeria monocytogenes

Project description:Listeria monocytogenes is a ubiquitous and psychrophilic foodborne pathogen commonly found in raw materials, ready to eat products and food environments. It was previously demonstrated that L. monocytogenes can grow faster at low temperature when unsaturated fatty acids (UFA) are present in its environment. In this study, we used comparative gene expression profiling of RNA-sequencing data to understand the impact of UFA on the behavior and cold adaptation of L. monocytogenes. We demonstrate that the incorporation of UFA into the membrane induces changes in the regulation of overall fatty acid biosynthesis, which prompts us to propose two hypotheses for UFA synthesis in L. monocytogenes. The general stress response is also highly impacted by the incorporation of UFA into the membrane at low temperature. In particular, we hypothesize that transcriptional regulation of cspB is not a temperature dependent mechanism, but could be related to a membrane fluidity stimulus. Furthermore, when UFA are incorporated into the membrane at low temperature, we observed overexpression of genes involved in flagella assembly. This study sheds light on the cold adaptation of L. monocytogenes in the presence of exogenous FA and on potential concerns for controlling these bacteria in food environments.

2024-10-02 | GSE268246 | GEO