Complexity of rice Hsp100 gene family: lessons from rice genome sequence data

Elucidation of genome sequence provides an excellent platform to understand detailed complexity of the various gene families. Hsp100 is an important family of chaperones in diverse living systems. There are eight putative gene loci encoding for Hsp100 proteins in Arabidopsis genome. In rice, two full-length Hsp100 cDNAs have been isolated and sequenced so far. Analysis of rice genomic sequence by in silico approach showed that two isolated rice Hsp100 cDNAs correspond to Os05g44340 and Os02g32520 genes in the rice genome database. There appears to be three additional proteins (encoded by Os03g31300, Os04g32560 and Os04g33210 gene loci) that are variably homologous to Os05g44340 and Os02g32520 throughout the entire amino acid sequence. The above five rice Hsp100 genes show significant similarities in the signature sequences known to be conserved among Hsp100 proteins. While Os05g44340 encodes cytoplasmic Hsp100 protein, those encoded by the other four genes are predicted to have chloroplast transit peptides

The postperovskite transition in Fe- and Al-bearing bridgmanite: effects on seismic observables

The primary phase of the Earth's lower mantle, (Al, Fe)-bearing bridgmanite, transitions to the postperovskite (PPv) phase at Earth's deep mantle conditions. Despite extensive experimental and ab initio investigations, there are still important aspects of this transformation that need clarification. Here, we address this transition in (Al3+, Fe3+)-, (Al3+)-, (Fe2+)-, and (Fe3+)-bearing bridgmanite using ab initio calculations and validate our results against experiments on similar compositions. Consistent with experiments, our results show that the onset transition pressure and the width of the two-phase region depend distinctly on the chemical composition: a) Fe3+-, Al3+-, or (Al3+, Fe3+)-alloying increases the transition pressure, while Fe2+-alloying has the opposite effect; b) in the absence of coexisting phases, the pressure-depth range of the Pv-PPv transition seems quite broad to cause a sharp D" discontinuity (< 30 km); c) the average Clapeyron slope of the two-phase regions are consistent with previous measurements, calculations in MgSiO3, and inferences from seismic data. In addition, d) we observe a softening of the bulk modulus in the two-phase region. The consistency between our results and experiments gives us the confidence to proceed and examine this transition in aggregates with different compositions computationally, which will be fundamental for resolving the most likely chemical composition of the D" region by analyses of tomographic images.Comment: 20 pages, 5 figures, 1 tabl

Deep Learning to Predict the Hydration and Performance of Fly Ash-Containing Cementitious Binders

Fly ash (FA) – an industrial byproduct – is used to partially substitute Portland cement (PC) in concrete to mitigate concrete\u27s environmental impact. Chemical composition and structure of FAs significantly impact hydration kinetics and compressive strength of concrete. Due to the substantial diversity in these physicochemical attributes of FAs, it has been challenging to develop a generic theoretical framework – and, therefore, theory-based analytical models – that could produce reliable, a priori predictions of properties of [PC + FA] binders. In recent years, machine learning (ML) – which is purely data-driven, as opposed to being derived from theorical underpinnings – has emerged as a promising tool to predict and optimize properties of complex, heterogenous materials, including the aforesaid binders. That said, there are two issues that stand in the way of widespread use of ML models: (1) ML models require thousands of data-records to learn input-output correlations and developing such a large, yet consistent database is impractical; and (2) ML models – while good at producing predictions – are unable to reveal the underlying correlation between composition/structure of material and its properties. This study employs a deep forest (DF) model to predict composition- and time-dependent hydration kinetics and compressive strength of [PC + FA] binders. Data dimensionality-reduction and segmentation techniques – premised on theoretical understanding of composition-structure correlations in FAs, and hydration mechanism of PC – are used to boost the DF model\u27s prediction performance. And, finally, through inference of the intermediate and final outputs of the DF model, a simple, closed-form analytical model is developed to predict compressive strength, and reveal the correlations between mixture design and compressive strength of [PC + FA] binders

Environmental sustainability of milk production: a comparative environmental impact analysis and sustainability evaluation

ContextAssessing the sustainability of milk production in India (the largest milk producer country in the world) is essential to ensure that the dairy industry can meet the growing demands for dairy products while minimizing its negative impact on the environment, society, and the well-being of the people involved in the sector.ObjectiveCurrent research is intended to compare the emissions associated with packed milk production in two contrasting states, Punjab (an Indian state with helpful agricultural resources and plenty of water) and Rajasthan (a state with a significant desert area) of India. The dairy industry has to undergo different production processes, including livestock, feed, farming, transportation, processing, packaging, and distribution. All of these production steps generate environmental impacts. This study aims to compare the environmental impacts of milk production in Punjab and Rajasthan by understanding the variation in the ecological effects due to the modifications adopted in dairy practices.MethodsThis study uses Umberto LCA+ with Ecoinvent v3.6 dataset as a Life cycle assessment (LCA) tool and data collected from milk producers and processing plants. The primary data was collected from farmers (milk producers) and dairy plants (processing plants), real-time observations, and inputs from the processing plant staff. The LCA analysis was performed, including parameters such as feed agriculture, milking, storage, transportation, processing, packaging, and distribution.Results and conclusionThe analysis results indicate that milk production in Punjab is more environmentally efficient than in Rajasthan, and the feed required for cattle is a critical environmental impact-generating activity along with the selection of packaging material for processed milk.SignificanceThe current article assesses the environmental implications of milk production. The study employs a comprehensive analysis to inform sustainable practices and reduce the ecological footprint of this crucial industry

"The fruits of independence": Satyajit Ray, Indian nationhood and the spectre of empire

Challenging the longstanding consensus that Satyajit Ray's work is largely free of ideological concerns and notable only for its humanistic richness, this article shows with reference to representations of British colonialism and Indian nationhood that Ray's films and stories are marked deeply and consistently by a distinctively Bengali variety of liberalism. Drawn from an ongoing biographical project, it commences with an overview of the nationalist milieu in which Ray grew up and emphasizes the preoccupation with colonialism and nationalism that marked his earliest unfilmed scripts. It then shows with case studies of Kanchanjangha (1962), Charulata (1964), First Class Kamra (First-Class Compartment, 1981), Pratidwandi (The Adversary, 1970), Shatranj ke Khilari (The Chess Players, 1977), Agantuk (The Stranger, 1991) and Robertsoner Ruby (Robertson's Ruby, 1992) how Ray's mature work continued to combine a strongly anti-colonial viewpoint with a shifting perspective on Indian nationhood and an unequivocal commitment to cultural cosmopolitanism. Analysing how Ray articulated his ideological positions through the quintessentially liberal device of complexly staged debates that were apparently free, but in fact closed by the scenarist/director on ideologically specific notes, this article concludes that Ray's reputation as an all-forgiving, ‘everybody-has-his-reasons’ humanist is based on simplistic or even tendentious readings of his work

Efficiency of siRNA delivery by lipid nanoparticles is limited by endocytic recycling

Despite substantial efforts to understand the interactions between nanoparticles and cells, the cellular processes that determine the efficiency of intracellular drug delivery remain largely unclear. Here we examined cellular uptake of siRNA delivered in lipid nanoparticles (LNPs) using cellular trafficking probes in combination with automated high-throughput confocal microscopy as well as defined perturbations of cellular pathways paired with systems biology approaches to uncover protein-protein and protein-small molecule interactions. We show that multiple cell signaling effectors are required for initial cellular entry of LNPs through macropinocytosis, including proton pumps, mTOR, and cathepsins. SiRNA delivery is substantially reduced as ≅70% of the internalized siRNA undergoes exocytosis through egress of LNPs from late endosomes/lysosomes. Niemann Pick type C1 (NPC1) is shown to be an important regulator of the major recycling pathways of LNP-delivered siRNAs. NPC1-deficient cells show enhanced cellular retention of LNPs inside late endosomes/lysosomes and increased gene silencing of the target gene. Our data suggests that siRNA delivery efficiency might be improved by designing delivery vehicles that can escape the recycling pathways

Non-Standard Errors

In statistics, samples are drawn from a population in a data-generating process (DGP). Standard errors measure the uncertainty in estimates of population parameters. In science, evidence is generated to test hypotheses in an evidence-generating process (EGP). We claim that EGP variation across researchers adds uncertainty: Non-standard errors (NSEs). We study NSEs by letting 164 teams test the same hypotheses on the same data. NSEs turn out to be sizable, but smaller for better reproducible or higher rated research. Adding peer-review stages reduces NSEs. We further find that this type of uncertainty is underestimated by participants

A Hybrid Environment Friendly Energy System with Solar Photovoltaic and Diesel Generator

We will examine the advantages of solar photovoltaic modules over diesel generators in this paper. To demonstrate this, we compared the emissions of greenhouse gases and the global warming potential (GWP) of solar photovoltaic modules and diesel generators. Because carbon dioxide, nitrous oxide, and methane have such a large impact on the environment, we looked at these three GHGs together. We've assumed a 100kw load for the sake of ease of calculation