Validation of Participatory Farming Situation Identification: Case of Rainfed Rice Cultivation in Selected Area of West Bengal, India

Paper Presented at the 4th World Congress on Conservation Agriculture, 2009 at New Delhi, Indiamicro-farming situation, farmers’ classification, validation of indigenous classification, rainfed rice, appropriate technology, Community/Rural/Urban Development, Farm Management, Research Methods/ Statistical Methods, Teaching/Communication/Extension/Profession,

Mapping the distribution of packing topologies within protein interiors shows predominant preference for specific packing motifs

<p>Abstract</p> <p>Background</p> <p>Mapping protein primary sequences to their three dimensional folds referred to as the 'second genetic code' remains an unsolved scientific problem. A crucial part of the problem concerns the geometrical specificity in side chain association leading to densely packed protein cores, a hallmark of correctly folded native structures. Thus, any model of packing within proteins should constitute an indispensable component of protein folding and design.</p> <p>Results</p> <p>In this study an attempt has been made to find, characterize and classify recurring patterns in the packing of side chain atoms within a protein which sustains its native fold. The interaction of side chain atoms within the protein core has been represented as a contact network based on the surface complementarity and overlap between associating side chain surfaces. Some network topologies definitely appear to be preferred and they have been termed 'packing motifs', analogous to super secondary structures in proteins. Study of the distribution of these motifs reveals the ubiquitous presence of typical smaller graphs, which appear to get linked or coalesce to give larger graphs, reminiscent of the nucleation-condensation model in protein folding. One such frequently occurring motif, also envisaged as the unit of clustering, the three residue clique was invariably found in regions of dense packing. Finally, topological measures based on surface contact networks appeared to be effective in discriminating sequences native to a specific fold amongst a set of decoys.</p> <p>Conclusions</p> <p>Out of innumerable topological possibilities, only a finite number of specific packing motifs are actually realized in proteins. This small number of motifs could serve as a basis set in the construction of larger networks. Of these, the triplet clique exhibits distinct preference both in terms of composition and geometry.</p

Inner-View of Nanomaterial Incited Protein Conformational Changes: Insights into Designable Interaction.

Nanoparticle bioreactivity critically depends upon interaction between proteins and nanomaterials (NM). The formation of the "protein corona" (PC) is the effect of such nanoprotein interactions. PC has a wide usage in pharmaceuticals, drug delivery, medicine, and industrial biotechnology. Therefore, a detailed in-vitro, in-vivo, and in-silico understanding of nanoprotein interaction is fundamental and has a genuine contemporary appeal. NM surfaces can modify the protein conformation during interaction, or NMs themselves can lead to self-aggregations. Both phenomena can change the whole downstream bioreactivity of the concerned nanosystem. The main aim of this review is to understand the mechanistic view of NM-protein interaction and recapitulate the underlying physical chemistry behind the formation of such complicated macromolecular assemblies, to provide a critical overview of the different models describing NM induced structural and functional modification of proteins. The review also attempts to point out the current limitation in understanding the field and highlights the future scopes, involving a plausible proposition of how artificial intelligence could be aided to explore such systems for the prediction and directed design of the desired NM-protein interactions

Universality of scaling and multiscaling in turbulent symmetric binary fluids

We elucidate the universal scaling and multiscaling properties of the nonequilibrium steady states (NESS) in a driven symmetric binary fluid (SBF) mixture in its homogeneous miscible phase in three dimensions (3d). We show, for the first time, via Direct Numerical Simulations (DNS) that structure functions of the velocity and the concentration gradient exhibit multiscaling in 3d and extended self-similarity (ESS). We also find that, in contrast to the well-known passive scalar turbulence problem, structure functions of the concentration show simple scaling. We propose a new shell model for SBF turbulence which preserve all the invariances in the ideal limit of the SBF equations and which reduces to a well-known shell model for fluid turbulence in the zero concentration field limit. We show that the shell model has the same scaling properties as the 3d SBF equations. Our combined results from our DNS of the SBF equations and shell-model studies consistently bring out the multiscaling of the velocity and concentration gradient fields and simple scaling of the concentration field.Comment: 8 pages, 10 figures, published in Phys. Rev.

Transesterification of salmon oil to produce biofuel:Experimental design and process simulation

Waste oils are considered a promising and sustainable source of raw materials in the biofuel industry. In recent years, research has been focused on the conversion of free fatty acids (FFAs) in fish oil to fatty acid methyl esters (FAMEs) mainly through the transesterification reaction. The biodiesel produced from salmon wastes provides an alternative source of raw material for sustainable energy production, meeting the growing energy demand without damaging the environment. The aim of this work is to investigate biodiesel production from salmon oil through a complete experimental design of the transesterification process. The biodiesel production was carried out by a homogeneous alkaline transesterification process using methanol and potassium methylate as a catalyst. The salmon oil was transesterified and then the FAMEs content was estimated using the peak areas of several FAMEs peaks observed in the chromatogram using GC-MS/FID analysis. The experimental results were modelled through Aspen Plus software, where the salmon oil was reacted with methanol in the presence of a catalyst and the results were validated against the experimental data. This study demonstrated that the oil produced from salmon wastes showed suitable characteristics and is a promising source for sustainable biofuel production

BPM2DDD: A Systematic Process for Identifying Domains from Business Processes Models

Domain-driven design is one of the most used approaches for identifying microservice architectures, which should be built around business capabilities. There are a number of documentation with principles and patterns for its application. However, despite its increasing use there is still a lack of systematic approaches for creating the context maps that will be used to design the microservices. This article presents BPM2DDD, a systematic approach for identification of bounded contexts and their relationships based on the analysis of business processes models, which provide a business view of an organisation. We present an example of its application in a real business process, which has also be used to perform a comparative application with external analysts. The technique has been applied to a real project in the department of transport of a Brazilian state capital, and has been incorporated into the software development process employed by them to develop their new system.</jats:p

Phosphorylcholine and KR12-Containing Corneal Implants in HSV-1-Infected Rabbit Corneas

Severe HSV-1 infection can cause blindness due to tissue damage from severe inflammation. Due to the high risk of graft failure in HSV-1-infected individuals, cornea transplantation to restore vision is often contraindicated. We tested the capacity for cell-free biosynthetic implants made from recombinant human collagen type III and 2-methacryloyloxyethyl phosphorylcholine (RHCIII-MPC) to suppress inflammation and promote tissue regeneration in the damaged corneas. To block viral reactivation, we incorporated silica dioxide nanoparticles releasing KR12, the small bioactive core fragment of LL37, an innate cationic host defense peptide produced by corneal cells. KR12 is more reactive and smaller than LL37, so more KR12 molecules can be incorporated into nanoparticles for delivery. Unlike LL37, which was cytotoxic, KR12 was cell-friendly and showed little cytotoxicity at doses that blocked HSV-1 activity in vitro, instead enabling rapid wound closure in cultures of human epithelial cells. Composite implants released KR12 for up to 3 weeks in vitro. The implant was also tested in vivo on HSV-1-infected rabbit corneas where it was grafted by anterior lamellar keratoplasty. Adding KR12 to RHCIII-MPC did not reduce HSV-1 viral loads or the inflammation resulting in neovascularization. Nevertheless, the composite implants reduced viral spread sufficiently to allow stable corneal epithelium, stroma, and nerve regeneration over a 6-month observation period

Invasion of ovarian cancer cells is induced by PITX2-mediated activation of TGF-β and Activin-A

Background:Most ovarian cancers are highly invasive in nature and the high burden of metastatic disease make them a leading cause of mortality among all gynaecological malignancies. The homeodomain transcription factor, PITX2 is associated with cancer in different tissues. Our previous studies demonstrated increased PITX2 expression in human ovarian tumours. Growing evidence linking activation of TGF-β pathway by homeodomain proteins prompted us to look for the possible involvement of this signalling pathway in PITX2-mediated progression of ovarian cancer. Methods: The status of TGF-β signalling in human ovarian tissues was assessed by immunohistochemistry. The expression level of TGFB/INHBA and other invasion-associated genes was measured by quantitative-PCR (Q-PCR) and Western Blot after transfection/treatments with clones/reagents in normal/cancer cells. The physiological effect of PITX2 on invasion/motility was checked by matrigel invasion and wound healing assay. The PITX2- and activin-induced epithelial-mesenchymal transition (EMT) was evaluated by Q-PCR of respective markers and confocal/phase-contrast imaging of cells. Results: Human ovarian tumours showed enhanced TGF-β signalling. Our study uncovers the PITX2-induced expression of TGFB1/2/3 as well as INHBA genes (p < 0.01) followed by SMAD2/3-dependent TGF-β signalling pathway. PITX2-induced TGF-β pathway regulated the expression of invasion-associated genes, SNAI1, CDH1 and MMP9 (p < 0.01) that accounted for enhanced motility/invasion of ovarian cancers. Snail and MMP9 acted as important mediators of PITX2-induced invasiveness of ovarian cancer cells. PITX2 over-expression resulted in loss of epithelial markers (p < 0.01) and gain of mesenchymal markers (p < 0.01) that contributed significantly to ovarian oncogenesis. PITX2-induced INHBA expression (p < 0.01) contributed to EMT in both normal and ovarian cancer cells. Conclusions: Overall, our findings suggest a significant contributory role of PITX2 in promoting invasive behaviour of ovarian cancer cells through up-regulation of TGFB/INHBA. We have also identified the previously unknown involvement of activin-A in promoting EMT. Our work provides novel mechanistic insights into the invasive behavior of ovarian cancer cells. The extension of this study have the potential for therapeutic applications in future