The Podospora anserina lytic polysaccharide monooxygenase PaLPMO9H catalyzes oxidative cleavage of diverse plant cell wall matrix glycans

BACKGROUND

The enzymatic conversion of plant biomass has been recently revolutionized by the discovery of lytic polysaccharide monooxygenases (LPMO) that catalyze oxidative cleavage of polysaccharides. These powerful enzymes are secreted by a large number of fungal saprotrophs and are important components of commercial enzyme cocktails used for industrial biomass conversion. Among the 33 AA9 LPMOs encoded by the genome of Podospora anserina, the PaLPMO9H enzyme catalyzes mixed C1/C4 oxidative cleavage of cellulose and cello-oligosaccharides. Activity of PaLPMO9H on several hemicelluloses has been suggested, but the regioselectivity of the cleavage remained to be determined.

RESULTS

In this study, we investigated the activity of PaLPMO9H on mixed-linkage glucans, xyloglucan and glucomannan using tandem mass spectrometry and ion mobility-mass spectrometry. Structural analysis of the released products revealed that PaLPMO9H catalyzes C4 oxidative cleavage of mixed-linkage glucans and mixed C1/C4 oxidative cleavage of glucomannan and xyloglucan. Gem-diols and ketones were produced at the non-reducing end, while aldonic acids were produced at the reducing extremity of the products.

CONCLUSION

The ability of PaLPMO9H to target polysaccharides, differing from cellulose by their linkages, glycosidic composition and/or presence of sidechains, could be advantageous for this coprophilous fungus when catabolizing highly variable polysaccharides and for the development of optimized enzyme cocktails in biorefineries.

The extracellular matrix supports breast cancer cell growth under amino acid starvation by promoting tyrosine catabolism

Breast tumours are embedded in a collagen I-rich extracellular matrix (ECM) network, where nutrients are scarce due to limited blood flow and elevated tumour growth. Metabolic adaptation is required for cancer cells to endure these conditions. Here, we demonstrated that the presence of ECM supported the growth of invasive breast cancer cells, but not non-transformed mammary epithelial cells, under amino acid starvation, through a mechanism that required macropinocytosis-dependent ECM uptake. Importantly, we showed that this behaviour was acquired during carcinoma progression. ECM internalisation, followed by lysosomal degradation, contributed to the up-regulation of the intracellular levels of several amino acids, most notably tyrosine and phenylalanine. This resulted in elevated tyrosine catabolism on ECM under starvation, leading to increased fumarate levels, potentially feeding into the tricarboxylic acid (TCA) cycle. Interestingly, this pathway was required for ECM-dependent cell growth and invasive cell migration under amino acid starvation, as the knockdown of p-hydroxyphenylpyruvate hydroxylase-like protein (HPDL), the third enzyme of the pathway, opposed cell growth and motility on ECM in both 2D and 3D systems, without affecting cell proliferation on plastic. Finally, high HPDL expression correlated with poor prognosis in breast cancer patients. Collectively, our results highlight that the ECM in the tumour microenvironment (TME) represents an alternative source of nutrients to support cancer cell growth by regulating phenylalanine and tyrosine metabolism.

Music training with Démos program positively influences cognitive functions in children from low socio-economic backgrounds

This study aimed at evaluating the impact of a classic music training program (Démos) on several aspects of the cognitive development of children from low socio-economic backgrounds. We were specifically interested in general intelligence, phonological awareness and reading abilities, and in other cognitive abilities that may be improved by music training such as auditory and visual attention, working and short-term memory and visuomotor precision. We used a longitudinal approach with children presented with standardized tests before the start and after 18 months of music training. To test for pre-to-post training improvements while discarding maturation and developmental effects, raw scores for each child and for each test were normalized relative to their age group. Results showed that Démos music training improved musicality scores, total IQ and Symbol Search scores as well as concentration abilities and reading precision. In line with previous results, these findings demonstrate the positive impact of an ecologically-valid music training program on the cognitive development of children from low socio-economic backgrounds and strongly encourage the broader implementation of such programs in disadvantaged school-settings.

Porous NASICON-Type Li3Fe2(PO4)3 Thin Film Deposited by RF Sputtering as Cathode Material for Li-Ion Microbatteries

We report the electrochemical performance of porous NASICON-type Li3Fe2(PO4)3 thin films to be used as a cathode for Li-ion microbatteries. Crystalline porous NASICON-type Li3Fe2(PO4)3 layers were obtained by radio frequency sputtering with an annealing treatment. The thin films were characterized by XRD, SEM, and electrochemical techniques. The chronoamperometry experiments showed that a discharge capacity of 88 mAhg(-1) (23 μAhcm(-2)) is attained for the first cycle at C/10 to reach 65 mAhg(-1) (17 μAhcm(-2)) after 10 cycles with a good stability over 40 cycles.

Climate change and water management in the biblical city of Dan

Global climate change has sharpened focus on the social and economic challenges associated with water deficits, particularly in regions where anthropogenic demands exceed supply. This modern condition was also experienced by the people of ancient western Asia, where chronic water shortages were accentuated by recurrent droughts. However, human societies may react to climate change, particularly desiccation, in different ways depending on specific local conditions. Focusing on the biblical site of Tel Dan (present-day Israel), we show the effects of severe precipitation decline in an environment that was well watered and fertile even in times of drought. Such local niches of prosperity became attractive targets for predation when food resources became scarce in surrounding rain-fed areas. We propose that predation forced urban populations to either flee or adopt new subsistence strategies. Predation and abandonment, even if only partial, led to the poor maintenance of water networks in and around the city. Once stagnant water surrounded the area, water-borne disease proliferated. Our study shows how climate changes can disrupt social and political structures, cause water system management to collapse, and facilitate marshland expansion.

Using bibliometrics to analyze the state of art of pesticide use in vineyard agrosystems: a review

The production of wine dates to ancient civilization and has heavily influenced different landscapes around the globe. Nowadays, wine is still an important sector in terms of land use and income source in many countries, more specifically in the European Mediterranean region. However, to control pests and regulate wine growth, the extensive use of pesticides is common. The effects and persistence of agrochemicals in the environment is well known and defined in scientific literature as well as the environmental and human health risks of these compounds. The purpose of this review was to do a state of art of worldwide production of academic literature using bibliometric principles and analysis to identify thematic areas of this type of agriculture, and its challenges in a changing world. For this review, the focus is on current practices to see what may evolve for more sustainable viticulture. It was found that the three main producers of wine, i.e., Spain, France, and Italy, are also three top producers of scientific literature on this topic. The use of bibliometric methodologies defined the main thematic areas on this subject as follows: soil-plant transfer of agrochemicals, heavy metal accumulation in vineyard soils, management practices in viticulture, water pollution transport, effects of viticulture on the living part of soil, sustainable alternatives to pesticides. We found that Spain, France, and Italy work the most on developing sustainable alternatives for agricultural practices; however, sustainable alternatives and practices were also the least developed thematic in general.

FDG-PET-based brain network analysis: a brief review of metabolic connectivity

BACKGROUND

Over the past decades, the analysis metabolic connectivity patterns has received significant attention in exploring the underlying mechanism of human behaviors, and the neural underpinnings of brain neurological disorders. Brain network can be considered a powerful tool and play an important role in the analysis and understanding of brain metabolic patterns. With the advantages and emergence of metabolic-based network analysis, this study aims to systematically review how brain properties, under various conditions, can be studied using Fluorodeoxyglucose Positron Emission Tomography (FDG-PET) images and graph theory, as well as applications of this approach. Additionally, this study provides a brief summary of graph metrics and their uses in studying and diagnosing different types of brain disorders using FDG-PET images.

MAIN BODY

In this study, we used several databases in Web of Science including Web of Science Core Collection, MEDLINE to search for related studies from 1980 up to the present, focusing on FDG-PET images and graph theory. From 68 articles that matched our keywords, we selected 28 for a full review in order to find out the most recent findings and trends. Our results reveal that graph theory and its applications in analyzing metabolic connectivity patterns have attracted the attention of researchers since 2015. While most of the studies are focusing on group-level based analysis, there is a growing trend in individual-based network analysis. Although metabolic connectivity can be applied to both neurological and psychiatric disorders, the majority of studies concentrate on neurological disorders, particularly Alzheimer's Disease and Parkinson's Disease. Most of the findings focus on changes in brain network topology, including brain segregation and integration.

CONCLUSION

This review provides an insight into how graph theory can be used to study metabolic connectivity patterns under various conditions including neurological and psychiatric disorders.

Investigating the influence of masker and target properties on the dynamics of perceptual awareness under informational masking

Informational masking has been investigated using the detection of an auditory target embedded in a random multi-tone masker. The build-up of the target percept is influenced by the masker and target properties. Most studies dealing with discrimination performance neglect the dynamics of perceptual awareness. This study aims at investigating the dynamics of perceptual awareness using multi-level survival models in an informational masking paradigm by manipulating masker uncertainty, masker-target similarity and target repetition rate. Consistent with previous studies, it shows that high target repetition rates, low masker-target similarity and low masker uncertainty facilitate target detection. In the context of evidence accumulation models, these results can be interpreted by changes in the accumulation parameters. The probabilistic description of perceptual awareness provides a benchmark for the choice of target and masker parameters in order to examine the underlying cognitive and neural dynamics of perceptual awareness.

Short tandem repeats are important contributors to silencer elements in T cells

The action of cis-regulatory elements with either activation or repression functions underpins the precise regulation of gene expression during normal development and cell differentiation. Gene activation by the combined activities of promoters and distal enhancers has been extensively studied in normal and pathological contexts. In sharp contrast, gene repression by cis-acting silencers, defined as genetic elements that negatively regulate gene transcription in a position-independent fashion, is less well understood. Here, we repurpose the STARR-seq approach as a novel high-throughput reporter strategy to quantitatively assess silencer activity in mammals. We assessed silencer activity from DNase hypersensitive I sites in a mouse T cell line. Identified silencers were associated with either repressive or active chromatin marks and enriched for binding motifs of known transcriptional repressors. CRISPR-mediated genomic deletions validated the repressive function of distinct silencers involved in the repression of non-T cell genes and genes regulated during T cell differentiation. Finally, we unravel an association of silencer activity with short tandem repeats, highlighting the role of repetitive elements in silencer activity. Our results provide a general strategy for genome-wide identification and characterization of silencer elements.