ATP Synthesis by Decarboxylation Phosphorylation

Dimroth, Peter; Ballmoos, Christoph von

doi:10.1007/400_2007_045

Cited by 29 publications

(27 citation statements)

References 142 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In V. parvula, the decarboxylation of methylmalonyl-CoA to propionyl-CoA is coupled with sodium transport across the membrane, which facilitates ATP generation via a sodium-translocating ATPase (Dimroth and von Ballmoos, 2008), and the respective genes for the sodium pump decarboxylase have been characterised (mmdA-E, (Huder and Dimroth, 1993)). The other pathway genes are encoded upstream of the mmd gene cluster, with the same gene configuration also being present in the human colonic anaerobes Dialister succinatiphilus YIT 11850 and P. succinatutens YIT 12067 (Supplementary Table S2).…”

Section: Succinate Pathwaymentioning

confidence: 99%

Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

et al. 2014

View full text Add to dashboard Cite

Propionate is produced in the human large intestine by microbial fermentation and may help maintain human health. We have examined the distribution of three different pathways used by bacteria for propionate formation using genomic and metagenomic analysis of the human gut microbiota and by designing degenerate primer sets for the detection of diagnostic genes for these pathways. Degenerate primers for the acrylate pathway (detecting the lcdA gene, encoding lactoylCoA dehydratase) together with metagenomic mining revealed that this pathway is restricted to only a few human colonic species within the Lachnospiraceae and Negativicutes. The operation of this pathway for lactate utilisation in Coprococcus catus (Lachnospiraceae) was confirmed using stable isotope labelling. The propanediol pathway that processes deoxy sugars such as fucose and rhamnose was more abundant within the Lachnospiraceae (based on the pduP gene, which encodes propionaldehyde dehydrogenase), occurring in relatives of Ruminococcus obeum and in Roseburia inulinivorans. The dominant source of propionate from hexose sugars, however, was concluded to be the succinate pathway, as indicated by the widespread distribution of the mmdA gene that encodes methylmalonyl-CoA decarboxylase in the Bacteroidetes and in many Negativicutes. In general, the capacity to produce propionate or butyrate from hexose sugars resided in different species, although two species of Lachnospiraceae (C. catus and R. inulinivorans) are now known to be able to switch from butyrate to propionate production on different substrates. A better understanding of the microbial ecology of short-chain fatty acid formation may allow modulation of propionate formation by the human gut microbiota.

show abstract

Section: Succinate Pathwaymentioning

confidence: 99%

Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

et al. 2014

View full text Add to dashboard Cite

show abstract

“…The “Sodium World” as defined by Skulachev [41] utilizes Na + -specific versions of proton-translocating enzymes, such as F- and A/V-type ATPases or membrane pyrophosphatases, as well as three classes of Na + -translocating pumps that are not present in the “Proton World”. These include Na + -transporting oxaloacetate decarboxylase and similar biotin-dependent membrane-bound enzymes [44,89], Na + -translocating N 5 -methyltetrahydromethanopterin: coenzyme M methyltransferase [90], and two closely related enzymes, Na + -translocating NADH:ubiquinone oxidoreductase (NaNQR) [91], and Na + -translocating ferredoxin:NAD oxidoreductase (RNF) [92]. …”

Section: Discussionmentioning

confidence: 99%

Co-evolution of primordial membranes and membrane proteins

Mulkidjanian

Galperin

Koonin

2009

Trends in Biochemical Sciences

152

140

View full text Add to dashboard Cite

Studies of the past several decades have provided major insights into the structural organization of biological membranes and mechanisms of many membrane molecular machines. However, the origin (s) of the membrane(s) and membrane proteins remain enigmatic. We discuss different concepts of the origin and early evolution of membranes, with a focus on the evolution of the (im)permeability to charged molecules, such as proteins and nucleic acids, and small ions. Reconstruction of the evolution of F-type and A/V-type membrane ATPases (ATP synthases), which are either proton or sodium-dependent, might help understand not only the origin of membrane bioenergetics, but also of membranes themselves. We argue that evolution of biological membranes occurred as a process of co-evolution of lipid bilayers, membrane proteins and membrane bioenergetics. Membrane evolution and the Last Universal Common AncestorA topologically closed membrane is a ubiquitous feature of all cellular life forms. This membrane is not a simple lipid bilayer enclosing the innards of the cell: far from that, even in the simplest cells, the membrane is a biological device of a staggering complexity that carries diverse protein complexes mediating energy-dependent -and tightly regulated -import and export of metabolites and polymers [1]. Despite the growing understanding of the structural organization of membranes and molecular mechanisms of many membrane proteins, the origin (s) of biological membranes remain obscure [2][3][4][5].The conservation of a set of essential genes between two major domains of life, archaea and bacteria, leaves no reasonable doubt in the existence of some version of Last Universal Common Ancestor (LUCA), the prototypic organism that led to the three branches of cellular life, namely, Bacteria, Archaea, and Eukarya [6]. The standard model of evolution places the primary division of cellular life forms between Archaea and Bacteria (e.g., [7]). Rooting the "tree of life" is an extremely difficult problem, and alternatives to the standard model were proposed including rooting within the bacteria [8] or between prokaryotes and eukaryotes [9]. In this article, we stick to the standard model that, on the weight of the totality of evidence, especially, the fundamental differences between DNA replication systems [10] and the membrane structure and biogenesis pathways (see below), we consider to be most plausible.Under the standard model, the approach of choice for the reconstruction of the early evolution of a particular cellular system is to systematically compare its components in Bacteria and Archaea [11]. This approach yields informative results, especially, in the case of the translation

show abstract

“… a This enzyme family also includes malonate decarboxylase and glutaconyl-CoA decarboxylase, see [156, 157]. …”

Section: Figmentioning

confidence: 99%

Ancient systems of sodium/potassium homeostasis as predecessors of membrane bioenergetics

Dibrova

Galperin

Koonin

et al. 2015

Biochemistry Moscow

View full text Add to dashboard Cite

Cell cytoplasm of archaea, bacteria, and eukaryotes contains substantially more potassium than sodium, and potassium cations are specifically required for many key cellular processes, including protein synthesis. This distinct ionic composition and requirements have been attributed to the emergence of the first cells in potassium-rich habitats. Different, albeit complementary, scenarios have been proposed for the primordial potassium-rich environments based on experimental data and theoretical considerations. Specifically, building on the observation that potassium prevails over sodium in the vapor of inland geothermal systems, we have argued that the first cells could emerge in the pools and puddles at the periphery of primordial anoxic geothermal fields, where the elementary composition of the condensed vapor would resemble the internal milieu of modern cells. Marine and freshwater environments generally contain more sodium than potassium. Therefore, to invade such environments, while maintaining excess of potassium over sodium in the cytoplasm, primordial cells needed means to extrude sodium ions. The foray into new, sodium-rich habitats was the likely driving force behind the evolution of diverse redox-, light-, chemically-, or osmotically-dependent sodium export pumps and the increase of membrane tightness. Here we present a scenario that details how the interplay between several, initially independent sodium pumps might have triggered the evolution of sodium-dependent membrane bioenergetics, followed by the separate emergence of the proton-dependent bioenergetics in archaea and bacteria. We also discuss the development of systems that utilize the sodium/potassium gradient across the cell membranes.

show abstract

ATP Synthesis by Decarboxylation Phosphorylation

Cited by 29 publications

References 142 publications

Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

Co-evolution of primordial membranes and membrane proteins

Ancient systems of sodium/potassium homeostasis as predecessors of membrane bioenergetics

Contact Info

Product

Resources

About