Proteomic analysis of denitrifiers and electroactive microorganisms
Ontology highlight
ABSTRACT:
ORGANISM(S): Geobacter Sulfurreducens Pseudomonas Aeruginosa Pao1
SUBMITTER: 
Gang Liu
PROVIDER: PXD044018 | iProX | Mon Jul 24 00:00:00 BST 2023
REPOSITORIES: iProX
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Project description:There is a wide diversity of potential applications for direct electron transfer from electrodes to microorganisms, which might be better optimized if the mechanisms for this novel electrode-biofilm interaction were further understood. Geobacter sulfurreducens is one of the few microorganisms available in pure culture that is known to be capable of directly accepting electrons from a negatively poised electrode. Gene transcript abundance in cells of G. sulfurreducens using electrons delivered from a graphite electrode as the sole electron donor for fumarate reduction was compared with transcript abundance in cells growing on the same graphite material, but without an electrical connection and acetate as the electron donor.
2010-11-23 | GSE19149 | GEO
Project description:The antibacterial mechanism related with influencing electron transfer chain
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Project description:Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machinery of Geobacter metallireducens GS-15 to carry out CO2 fixation and direct electron transfer to iron. An updated metabolic reconstruction was generated, growth screens on targeted conditions of interest were performed, and constraint-based analysis was utilized to characterize and evaluate critical pathways and reactions in G. metallireducens. The novel capability of G. metallireducens to grow autotrophically with formate and Fe(III) was predicted and subsequently validated in vivo. Additionally, the energetic cost of transferring electrons to an external electron acceptor was determined through analysis of growth experiments carried out using three different electron acceptors (Fe(III), nitrate, and fumarate) by systematically isolating and examining different parts of the electron transport chain. The updated reconstruction will serve as a knowledgebase for understanding and engineering Geobacter and similar species.
2023-11-27 | MODEL2204190002 | BioModels
Project description:Geobacter sulfurreducens has a complex metabolism that adapts to use electron acceptors at a wide range of redox potentials. In this study, we used RNA-seq to identify genes associated with electron transfer pathways at different redox potentials. By correlating the RNA-seq data with cyclic voltammetry, we associated several multiheme cytochromes with specific electron transfer pathways.
2022-05-20 | GSE200066 | GEO
Project description:There is a wide diversity of potential applications for direct electron transfer from electrodes to microorganisms, which might be better optimized if the mechanisms for this novel electrode-biofilm interaction were better understood. Geobacter sulfurreducens is one of the few microorganisms available in pure culture that is known to be capable of directly accepting electrons from a negatively poised electrode. A microarray comparison of cells accepting electrons from the electrode versus cells donating electrons to the electrode reveals that the genes previously observed to be upregulated in current-producing biofilms are not highly expressed in current-consuming biofilms.
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Project description:In addition to leaves, the main site of photosynthetic reactions, active photosynthesis also takes place in stems, siliques and tree trunks. Although non-foliar photosynthesis has a marked effect on plant growth and yield, only limited information on the expression patterns of photosynthesis-related genes and the structure of photosynthetic machinery in different plant organs has been available. Here, we report the results of transcriptomic analysis of various organs of Arabidopsis thaliana and compare the gene expression profiles of young and mature leaves with a special focus on photosynthetic genes. Further, we analyzed the composition and organization of the photosynthetic electron transfer machinery in leaves, stems and green siliques at the protein level using BN-PAGE. RNA-Seq analysis revealed unique gene expression profiles in different plant organs and showed major differences in the expression of photosynthesis-related genes in young as compared to mature rosettes. Gel-based proteomic analysis of the thylakoid protein complex organization further showed that all studied plant organs contain the necessary components of the photosynthetic electron transfer chain. Intriguingly, stems accumulate high amounts of PSI-NDH complex, which has previously been implicated in cyclic electron transfer.
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Project description:Hong2004 - Genome-scale metabolic network of
Mannheimia succiniciproducens (iSH335)
This model is described in the article:
The genome sequence of the
capnophilic rumen bacterium Mannheimia succiniciproducens.
Hong SH, Kim JS, Lee SY, In YH, Choi
SS, Rih JK, Kim CH, Jeong H, Hur CG, Kim JJ.
Nat. Biotechnol. 2004 Oct; 22(10):
1275-1281
Abstract:
The rumen represents the first section of a ruminant
animal's stomach, where feed is collected and mixed with
microorganisms for initial digestion. The major gas produced in
the rumen is CO(2) (65.5 mol%), yet the metabolic
characteristics of capnophilic (CO(2)-loving) microorganisms
are not well understood. Here we report the 2,314,078 base pair
genome sequence of Mannheimia succiniciproducens MBEL55E, a
recently isolated capnophilic Gram-negative bacterium from
bovine rumen, and analyze its genome contents and metabolic
characteristics. The metabolism of M. succiniciproducens was
found to be well adapted to the oxygen-free rumen by using
fumarate as a major electron acceptor. Genome-scale metabolic
flux analysis indicated that CO(2) is important for the
carboxylation of phosphoenolpyruvate to oxaloacetate, which is
converted to succinic acid by the reductive tricarboxylic acid
cycle and menaquinone systems. This characteristic metabolism
allows highly efficient production of succinic acid, an
important four-carbon industrial chemical.
This model is hosted on
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MODEL1507180025.
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2015-07-30 | MODEL1507180025 | BioModels
Project description:To understand transcriptional regulation of Eubacterium limosum KIST612 across different carbon/energy/electron sources, RNAseq analysis was carried out over different substrate conditions (glucose, CO, H2/CO2).
2020-04-25 | GSE149269 | GEO