Peptides before and during the nucleotide world: an origins story emphasizing cooperation between proteins and nucleic acids

Recent developments in Origins of Life research have focused on substantiating the narrative of an abiotic emergence of nucleic acids from organic molecules of low molecular weight, a paradigm that typically sidelines the roles of peptides. Nevertheless, the simple synthesis of amino acids, the facile nature of their activation and condensation, their ability to recognize metals and cofactors and their remarkable capacity to self-assemble make peptides (and their analogues) favourable candidates for one of the earliest functional polymers. In this mini-review, we explore the ramifications of this hypothesis. Diverse lines of research in molecular biology, bioinformatics, geochemistry, biophysics and astrobiology provide clues about the progression and early evolution of proteins, and lend credence to the idea that early peptides served many central prebiotic roles before they were encodable by a polynucleotide template, in a putative ‘peptide-polynucleotide stage’. For example, early peptides and mini-proteins could have served as catalysts, compartments and structural hubs. In sum, we shed light on the role of early peptides and small proteins before and during the nucleotide world, in which nascent life fully grasped the potential of primordial proteins, and which has left an imprint on the idiosyncratic properties of extant proteins.     

Vitamin E reduces cholesterol esterification and uptake of acetylated low density lipoprotein in macrophages

The effects of vitamin E on cholesteryl ester (CE) metabolism in 1774 cells were examined. Pretreatment of 1774 cells with vitamin E at concentrations above 50 μM significantly decreased acetylated low density lipoprotein (LDL)-induced incorporation of [¹⁴C]oleate into CF in cells in a dose-dependent manner. This was partly due to vitamin E Also significantly inhibiting the uptake of [³H]CE-labeled acetylated LDL by 1774 cells. A trend existed toward suppression of acyl-CoA:cholesterol acyltransferase (ACAT) activity in the cell lysate at high vitamin E concentration, but there was no effect on hydrolysis of CE. These data indicate that vitamin E reduces the uptake of modified LDL and suppresses ACAT activity, resulting in less cholesterol esterification in macrophages; a novel mechanism underlying the antiatherogenic properties of vitamin E.     

Efficient electrochemical decomposition of perfluorocarboxylic acids by the use of a boron-doped diamond electrode

The electrochemical decomposition of environmentally persistent perfluorooctanoic acid (PFOA) was achieved by the use of a boron-doped diamond (BDD) electrode. The PFOA decomposition follows pseudo-first-order kinetics, with an observed rate constant (k₁) of 2.4 × 10^− 2 dm³ h^− 1. Under the present reaction conditions, k₁ increased with increasing current density and saturated at values over 0.60 mA cm^− 2. Therefore, the rate-limiting step for the electrochemical decomposition of PFOA was the direct electrochemical oxidation at lower current densities. In the proposed decomposition pathway, direct electrochemical oxidation cleaves the C-C bond between the C₇F₁₅ and COOH in PFOA and generates a C₇F₁₅ radical and CO₂. The C₇F₁₅ radical forms the thermally unstable alcohol C₇F₁₅OH, which undergoes F⁻ elimination to form C₆F₁₃COF. This acid fluoride undergoes hydrolysis to yield another F⁻ and the perfluorocarboxylic acid with one less CF₂ unit, C₆F₁₃COOH. By repeating these processes, finally, PFOA was able to be totally mineralized to CO₂ and F⁻. Moreover, whereas the BDD surface was easily fluorinated by the electrochemical reaction with the PFOA solution, medium pressure ultraviolet (MPUV) lamp irradiation in water was able to easily remove fluorine from the fluorinated BDD surface.     

Hierarchical polymer nanocomposite coating material for 316L SS implants: Surface and electrochemical aspects of PPy/f-CNTs coatings

Biocompatible nanocomposite coatings can be synthesized to offer improved surface properties for biomaterials and biomedical implants. Nanocomposite coatings containing polypyrrole (PPy) matrix reinforced with functionalized multi-wall carbon nanotubes (f-CNTs) were deposited on 316L SS substrates using electrochemical route. FT-IR, XRD, SEM, and TEM were employed to characterize the nanocomposite microstructure. High resolution imaging showed relatively uniform dispersion of the CNTs in the nanocomposite with a typical tubular structure. Micro-indentation tests revealed improvement in the hardness of the PPy/CNTs coatings. Measurement of the contact angle indicated enhanced surface wettability of the nanocomposite coatings. The corrosion behavior of 316L SS samples coated with PPy/CNTs was studied in SBF medium. The corrosion potential and the breakdown potential of coated 316L SS substrates shifted to more noble values as compared to uncoated 316L SS samples. The results suggest that incorporating CNTs as reinforcements in PPy coatings can provide enhanced properties in terms of surface hardness, biocompatibility, and corrosion resistance.     

The Association of Cholesterol Uptake and Synthesis with Histology and Genotype in Cortisol-Producing Adenoma (CPA)

Cortisol-producing adenoma (CPA) is composed of clear and compact cells. Clear cells are lipid abundant, and compact ones lipid poor but associated with higher production of steroid hormones. PRKACA mutation (PRKACA mt) in CPA patients was reported to be associated with more pronounced clinical manifestation of Cushing’s syndrome. In this study, we examined the association of histological features and genotypes with cholesterol uptake receptors and synthetic enzymes in 40 CPA cases, and with the quantitative results obtained by gas chromatography-mass spectrometry (GC-MS) analysis in 33 cases to explore their biological and clinical significance. Both cholesterol uptake receptors and synthetic enzymes were more abundant in compact cells. GC-MS analysis demonstrated that the percentage of compact cells was inversely correlated with the concentrations of cholesterol and cholesterol esters, and positively with the activity of cholesterol biosynthesis from cholesterol esters. In addition, hormone-sensitive lipase (HSL), which catalyzes cholesterol biosynthesis from cholesterol esters, tended to be more abundant in compact cells of PRKACA mt CPAs. These results demonstrated that both cholesterol uptake and biosynthesis were more pronounced in compact cells in CPA. In addition, more pronounced HSL expression in compact cells of PRKACA mt CPA could contribute to their more pronounced clinical manifestation.     

The Expression of Active CD11b Monocytes in Blood and Disease Progression in Amyotrophic Lateral Sclerosis

Monocytes expressing the inflammation suppressing active CD11b, a beta2 integrin, may regulate neuroinflammation and modify clinical outcomes in amyotrophic lateral sclerosis (ALS). In this single site, retrospective study, peripheral blood mononuclear cells from 38 individuals living with ALS and 20 non-neurological controls (NNC) were investigated using flow cytometry to study active CD11b integrin classical (CM), intermediate (IM) and non-classical (NCM) monocytes during ALS progression. Seventeen ALS participants were sampled at the baseline (V1) and at two additional time points (V2 and V3) for longitudinal analysis. Active CD11b+ CM frequencies increased steeply between the baseline and V3 (ANOVA repeated measurement, p < 0.001), and the V2/V1 ratio negatively correlated with the disease progression rate, similar to higher frequencies of active CD11b+ NCM at the baseline (R = −0.6567; p = 0.0031 and R = 0.3862; p = 0.0168, respectively). CD11b NCM, clinical covariates and neurofilament light-chain plasma concentration at the baseline predicted shorter survival in a multivariable and univariate analysis (CD11b NCM—HR: 1.05, CI: 1.01–1.11, p = 0.013. Log rank: above median: 43 months and below median: 21.22 months; p = 0.0022). Blood samples with the highest frequencies of active CD11b+ IM and NCM contained the lowest concentrations of soluble CD11b. Our preliminary data suggest that the levels of active CD11b+ monocytes and NCM in the blood predict different clinical outcomes in ALS.     

A low-carbon scenario creation method for a local-scale economy and its application in Kyoto city

On May 2008, Kyoto city government set up a low-carbon target of a 50% GHG reduction by 2030 compared to the 1990 level. To contribute to these discussions, we developed a local (city-scale) low-carbon scenario creation method. An estimation model was developed to show a quantitative and consistent future snapshot. The model can explicitly treat the uncertainty of future socio-economic situations, which originate from the openness of local economy. The method was applied to Kyoto city, and countermeasures to achieve the low-carbon target were identified. Without countermeasures, emissions would increase 12% from 2000. Among the measures, the reduction potential of energy efficiency improvements to residential and commercial sectors was found to be relatively large (15% and 18% of total reductions, respectively). The reduction potential of the passenger transport sector, in which the city government's policy is especially important, was 17% of the total amount. A sensitivity analysis showed that a 10% increase in exports leads to an 8.5% increase in CO₂ emissions, and a 20% increase in the share of the commuters from outside the city leads to a 3.5% decrease of CO₂ emissions because of the smaller number of residents in the city.     

Feasibility of zeolites in converting butyric acid into propylene for biorefineries

The biorefinery has been recognized as a new industry to produce both energy and chemical materials such as olefins and BTX from renewable resources. In this context the conversion of butyric acid over zeolites was investigated for establishing a new production route of propylene. Propylene was mainly generated by decarbonylation and dehydration of butyric acid. Our study proved that H-ZSM-5 (750) and silicalite were the best industrial catalyst among the tested ones. For H-ZSM-5 (750), the selectivity of propylene reached 64.2 C% and the ratio of the yield for propylene to theoretical yield (75 C%) became 85.6%.