Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Prevotella bryantii B14 proteins from in vitro cultivation under various short-chain fatty acids (SCFA)

ABSTRACT: P. bryantii B14 cells were cultivated separately in acetic (Acet), propionic (Prop), butyric (But), iso-butyric (iBut), valeric (Val), iso-valeric (iVal) and 2-methyl butyric acid (2MB) as well as in a mixture of all mentioned short-chain fatty acids (Mix). All 8 treatments were analyzed regarding their proteomes in order to understand the requirements and effects of each SCFA on the metabolism.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Bacteria Prevotella Bryantii B14

SUBMITTER: Jana Seifert

LAB HEAD: Porf. Jana Seifert

PROVIDER: PXD016407 | Pride | 2021-09-09

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	2_M_But_A.raw	Raw
	2_M_But_B.raw	Raw
	2_M_But_C.raw	Raw
	Acet_A.raw	Raw
	Acet_B.raw	Raw

Items per page:

1 - 5 of 25

Publications

Short-Chain Fatty Acids Modulate Metabolic Pathways and Membrane Lipids in Prevotella bryantii B14.

Trautmann Andrej A Schleicher Lena L Deusch Simon S Gätgens Jochem J Steuber Julia J Seifert Jana J

Proteomes 20201016 4

Short-chain fatty acids (SCFAs) are bacterial products that are known to be used as energy sources in eukaryotic hosts, whereas their role in the metabolism of intestinal microbes is rarely explored. In the present study, acetic, propionic, butyric, isobutyric, valeric, and isovaleric acid, respectively, were added to a newly defined medium containing Prevotella bryantii B14 cells. After 8 h and 24 h, optical density, pH and SCFA concentrations were measured. Long-chain fatty a ...[more]

PMID: 33081314

Similar Datasets

Prevotella monensin concentration

Project description:Prevotella bryantii B14 was cultivated with monensin. Growth was monitored over a period of 9h with a broad range of monensin concentrations.

2021-10-13 | PXD026085 | Pride

RNAseq of uropathogenic E. coli strain EO399, grown in conditions resembling passage through the gut; coli was grown in the presence or absence of 1 of 3 organic acids (acetic, butyric or propionic) at pH5.5 or pH7 and in aerobic or anaerobic conditions

Project description:Overview Several methods are available to probe responses to external stresses at the whole genome level. RNAseq can be used to measure changes in expression of all genes following exposure to stress, but gives no information about the contribution of these genes to an organism’s ability to survive the stress. The relative contribution of each non-essential gene in the genome to the fitness of the organism under stress can be obtained using methods that use sequencing to estimate the frequencies of members of a dense transposon library grown under different conditions. These two methods thus probe different aspects of the underlying biology of the organism. We were interested to determine the extent to which the data from these two methods converged on related genes and pathways. To do this, we looked at a combination of biologically meaningful stresses. The human gut contains different organic short chain fatty acids (SCFA) produced by fermentation of carbon compounds, and E. coli is exposed to these in its passage through the gut. Their effect is likely to depend on both the ambient pH and the level of oxygen present. We therefore generated RNAseq and TraDIS data on the uropathogenic E. coli strain EO399 grown at either pH 7 or pH 5.5, in the presence or absence of one of three SCFAs (acetic, butyric or propionic acid), both aerobically and anaerobically. Our analysis identifies both known and novel pathways as likely important under these conditions.

2021-02-26 | E-MTAB-9762 | biostudies-arrayexpress

Differential miRNA expression in hippocampus of hBDNF Val66Met Knockin Mice

Project description:miRNA expression profiling of adult (8 wk) hippocampus by comparing samples from Met/Met and Val/Val animals Two-genotype experiment, Met/Met vs. Val/Val. Biological replicates: 5 Met/Met, 5 Val/Val

2013-03-06 | E-GEOD-44817 | biostudies-arrayexpress

Propionic acid promotes neurite recovery in damaged multiple sclerosis neurons

Project description:Neurodegeneration in the autoimmune disease multiple sclerosis (MS) still poses a major therapeutic challenge. Effective drugs that target the inflammation can only partially reduce accumulation of neurological deficits and conversion to progressive disease forms. Diet and the associated gut microbiome are currently being discussed as crucial environmental risk factors that determine disease onset and subsequent progression. In people with MS (pwMS), supplementation of the short-chain fatty acid (SCFA) propionic acid (PA), as microbial metabolite derived from the fermentation of a high-fiber diet, has previously been shown to regulate inflammation accompanied by neuroprotective properties. We set out to determine, whether the neuroprotective impact of PA is a direct mode of action of SCFAs on central nervous system (CNS) neurons.

2024-06-22 | PXD040184 | Pride

Cultivation of the gut bacterium Prevotella copri DSM 18205T using glucose and xylose as carbon sources.

Project description:Prevotella copri DSM18205T is a human gut bacterium, suggested as a next-generation probiotic. To utilize it as such, it is, however, necessary to grow the species in a reproducible manner. Prevotella copri has previously been reported to be highly sensitive to oxygen, and hence difficult to isolate and cultivate. This study presents successful batch cultivation strategies for viable strain inoculations and growth in both serum bottles and a stirred tank bioreactor (STR), without the use of an anaerobic chamber, as long as the cells were kept in the exponential growth phase. A low headspace volume in the STR was important to reach high cell density. P. copri utilized xylose cultivated in Peptone Yeast Xylose medium (PYX medium), resulting in a comparable growth rate and metabolite production as in Peptone Yeast Glucose medium (PYG medium) in batch cultivations at pH 7.2.Up to 5 g/L of the carbon source was consumed, leading to the production of succinic acid, acetic acid, and formic acid, and cell densities (OD620 nm ) in the range 6-7.5. The highest yield of produced succinic acid was 0.63 ± 0.05 g/g glucose in PYG medium cultivations and 0.88 ± 0.06 g/g xylose in PYX medium cultivations.

| S-EPMC8236902 | biostudies-literature

Differential miRNA expression in hippocampus of hBDNF Val66Met Knockin Mice

Project description:miRNA expression profiling of adult (8 wk) hippocampus by comparing samples from Met/Met and Val/Val animals

2013-03-06 | GSE44817 | GEO

SCFA

Project description:SCFA

| PRJNA705908 | ENA

tRF-Val-TAC-004 protects against renal ischemia-reperfusion injury via attenuating Apaf1-mediated apoptosis

Project description:tRNA-derived fragments (tRFs) play critical roles in cellular process, and we have previously reported that tRFs are involved in ischemia reperfusion injury induced acute kidney injury (IRI-AKI). However, the precise involvement of tRFs in IRI-AKI remains obscure. This study aims to elucidate the impact of tRF-Val-TAC-004 (tRF-Val) on IRI-AKI and uncover the underlying mechanisms. Our observations reveal a significant downregulation of tRF-Val in IRI-AKI mice and its overexpression mitigated renal dysfunction, morphological damage, and apoptosis in IRI-AKI mice, while its inhibition exacerbated these effects. Similar outcomes were replicated in CoCl2-treated BUMPT cells upon transfection with tRF-Val mimic or inhibitor. Mechanistically, dual-luciferase reporter assay and AGO-RIP qPCR analyses demonstrated that tRF-Val suppresses Apaf1 expression by targeting the 3’-UTR of Apaf1 mRNA. Furthermore, the protective efficacy of tRF-Val was notably weakened by Apaf1-overexpressing plasmids. In summary, these novel findings unveil the protective role of tRF-Val against IRI-AKI through inhibition of Apaf1-mediated apoptosis.

2024-12-18 | GSE282997 | GEO

ACKR3 promotes CXCL12/CXCR4-mediated migration of lymphoma cells

Project description:Chemotaxis is an essential physiological process, often harnessed by tumors for metastasis. CXCR4, its ligand CXCL12 and the atypical receptor ACKR3 are overexpressed in many human cancers. Interfering with this axis by ACKR3 deletion impairs lymphoma cell migration towards CXCL12. Here, we propose a model of how ACKR3 controls the migration of the diffused large B-cell lymphoma VAL cells in vitro and in vivo in response to CXCL12. VAL cells expressing full-length ACKR3, but not a truncated version missing the C-terminus, can support the migration of VAL cells lacking ACKR3 (VAL-ko) when allowed to migrate together. This migration of VAL-ko cells is pertussis toxin-sensitive suggesting the involvement of a Gi-protein coupled receptor. RNAseq analysis indicate the expression of chemotaxis-mediating LTB4 receptors in VAL cells. We found that LTB4 acts synergistically with CXCL12 in stimulating the migration of VAL cells. Pharmacologic or genetic inhibition of BLT1R markedly reduces chemotaxis towards CXCL12 suggesting that LTB4 enhances in a contact-independent manner the migration of lymphoma cells. The results unveil a novel mechanism of cell-to-cell-induced migration of lymphoma.

2022-10-13 | GSE169144 | GEO

GNPS_Hgh_res_data_Synt_dataset_SCFAs

Project description:Short chain fatty acids synthetic dataset for the Supelco CRM46975 mix. Compounds included: Acetic acid Butyric acid Formic acid Heptanoic acid Hexanoic acid Isobutyric acid Isovaleric acid 4-Methylvaleric acid Propionic acid Valeric acid The mix sampled with PDMS and compounds desorbed and sampled at 200C using headpsace injection.

2018-03-02 | MSV000082121 | GNPS