626 research outputs found
Tomato ionomic approach for food fortification and safety.
Food fortification is an issue of paramount of importance for people living both in developed
and in developing countries. Among substances listed as "nutriceuticals", essential minerals have
been recognised for their involvement in several healthy issues, involving all ages. In this frame,
food plants are playing a pivotal role since their capability to compartmentalise ions and proteinmetal
complexes in edible organs. Conversely, the accumulation of high metal levels in those
organs may lead to safety problems. In the recent years, thanks to the availability of new and
improved analytical apparatus in both ionic and genomic/transcrittomics areas, it is became feasible
to couple data coming from plant physiology and genetics. Ionomics is the discipline that studies
the cross-analysis of both data sets. Our group, in the frame of GenoPom project granted by MiUR,
is interested to study the ionomics of tomatoes cultivars derived by breeding programmes in which
wild relatives have been used to transfer several useful traits, such as resistance to biotic or abiotic
stresses, fruit composition and textiture, etc. The introgression of the wild genome into the
cultivated one produces new gene combinations. They might lead to the expression of some traits,
such as increased or reduced adsorption of some metals and their exclusion or loading into edible
organs, thus strongly involving the nutritional food value. Our final goal is to put together data
coming from ions homeostasis and gene expression analyses, thus obtaining an ionomic tomato
map related to ions absorption, translocation and accumulation in various plant organs, fruits
included. To follow our hypothesis, we are studying the ionome of Solanum lycopersicum cv. M82
along with 76 Introgression Lines (ILs) produced by interspecific crosses between this cultivar and
the wild species S. pennellii. These ILs are homozygous for small portions of the wild species
genome introgressed into the domesticated M82 one. They are used as a useful tool for mapping
QTL associated with many traits of interest. It is worthy to note that, until now, little information is
available on QTL for ions accumulation in tomato. Moreover, as our knowledge, effects of new
gene combinations in introgressed lines on ions uptake related to food safety have not been
extensively studied. In this presentation we show results coming from the ionome analysis, carried
out on S . lycopersicum M82 and several ILs. Plants were grown in pots in a greenhouse and
watered with deionised water Thirty day-old plants were left to grow for 15 days in the presence of
non-toxic concentration of Cd, Pb, As, Cr and Zn given combined. Leaves of all plants were then
harvested and stored at -80°C for ionome and gene expression analyses. Preliminary results of
ionome analysis of S. lycopersicum M82 and several ILs, carried out using an ICP-MS, showed that
traits correlated to toxic metals and micronutrients accumulation in apical leaves were significantly
modified in response to specific genetic backgrounds. Those results are perhaps due to the
introgression of traits linked to uptake, translocation and accumulation of useful and/or toxic metal
into plant apical leaves and to interactions of the wild type introgressed genomic regions with the
cultivated genome. Also, data are shown on the identification and isolation of Solanum gene
sequences related to ions uptake, translocation and accumulation, useful for further real-time gene
expression evaluation in both cultivated and ILs during the treatments with the above-mentioned
metals
Dynamic origin of chirality transfer between chiral surface and achiral ligand in Au38 clusters
The transfer of chirality between nanomolecules is at the core of several applications in chiral technology such as sensing and catalysis. However, the origin of this phenomenon and how exactly nanoscale objects transfer chirality to molecules in their vicinity remain largely obscure. Here, we show that the transfer of chirality for the intrinsically chiral gold cluster Au38(SR)24 is site dependent; that is, it differs depending on the ligand-binding sites. This is closely related to the dynamic nature of the ligands on the cluster surface. Using a combination of NMR techniques and molecular dynamics simulations, we could assign the four symmetry- unique ligands on the cluster. The study reveals largely different conformational dynamics of the bound ligands, explaining the diverse diastereotopicities observed for the CH2 protons of the ligands. Although chirality is a structural property, our study reveals the importance of dynamics for the transfer of chirality
Seasonal Dynamic of CDOM in a Shelf Site of the South-Eastern Ligurian Sea (Western Mediterranean)
A DNA Tool for the Identification of Heavily Exploited Atlantic Billfishes
Due to the morphological similarities among species, the International Commission for the Conservation of the Atlantic Tunas has recommended the use of diagnostic molecular tools to allow for robust species-level identifications of the billfishes. In this study, a protocol for the molecular identification of all six Atlantic billfishes was developed utilizing a PCR–RFLP approach, targeting the mitochondrial gene cytochrome c oxidase subunit 1. A survey of 28 restriction endonucleases identified two enzymes (TaqI and HaeIII) that produced species-specific banding patterns sufficient to distinguish species. The protocol was validated against billfishes captured across their Atlantic distributions
Circulating and Tumor-Associated Neutrophils in the Era of Immune Checkpoint Inhibitors: Dynamics, Phenotypes, Metabolism, and Functions.
Neutrophils are the most abundant myeloid cells in the blood and are a considerable immunological component of the tumor microenvironment. However, their functional importance has often been ignored, as they have always been considered a mono-dimensional population of terminally differentiated, short-living cells. During the last decade, the use of cutting-edge, single-cell technologies has revolutionized the classical view of these cells, unmasking their phenotypic and functional heterogeneity. In this review, we summarize the emerging concepts in the field of neutrophils in cancer, by reviewing the recent literature on the heterogeneity of both circulating neutrophils and tumor-associated neutrophils, as well as their possible significance in tumor prognosis and resistance to immune checkpoint inhibitors
Circulating and Tumor-Associated Neutrophils in the Era of Immune Checkpoint Inhibitors: Dynamics, Phenotypes, Metabolism, and Functions
Simple Summary Neutrophils are the most abundant leukocytes in the circulation, represent the first line of defense in the immune system and mediate inflammation. Increasing evidence suggests that neutrophils constitute a large population of cells with phenotypic and functional heterogeneity. In this review, we summarize and discuss new findings delineating that both circulating neutrophils and tumor-associated neutrophils have a role in tumor prognosis and resistance to immune checkpoint inhibitors. Neutrophils are the most abundant myeloid cells in the blood and are a considerable immunological component of the tumor microenvironment. However, their functional importance has often been ignored, as they have always been considered a mono-dimensional population of terminally differentiated, short-living cells. During the last decade, the use of cutting-edge, single-cell technologies has revolutionized the classical view of these cells, unmasking their phenotypic and functional heterogeneity. In this review, we summarize the emerging concepts in the field of neutrophils in cancer, by reviewing the recent literature on the heterogeneity of both circulating neutrophils and tumor-associated neutrophils, as well as their possible significance in tumor prognosis and resistance to immune checkpoint inhibitors
DNA Topoisomerase I differentially modulates R-loops across the human genome
Background: Co-transcriptional R-loops are abundant non-B DNA structures in mammalian genomes. DNA Topoisomerase I (Top1) is often thought to regulate R-loop formation owing to its ability to resolve both positive and negative supercoils. How Top1 regulates R-loop structures at a global level is unknown. Results: Here, we perform high-resolution strand-specific R-loop mapping in human cells depleted for Top1 and find that Top1 depletion results in both R-loop gains and losses at thousands of transcribed loci, delineating two distinct gene classes. R-loop gains are characteristic for long, highly transcribed, genes located in gene-poor regions anchored to Lamin B1 domains and in proximity to H3K9me3-marked heterochromatic patches. R-loop losses, by contrast, occur in gene-rich regions overlapping H3K27me3-marked active replication initiation regions. Interestingly, Top1 depletion coincides with a block of the cell cycle in G0/G1 phase and a trend towards replication delay. Conclusions: Our findings reveal new properties of Top1 in regulating R-loop homeostasis in a context-dependent manner and suggest a potential role for Top1 in modulating the replication process via R-loop formation
On the computation of zone and double zone diagrams
Classical objects in computational geometry are defined by explicit
relations. Several years ago the pioneering works of T. Asano, J. Matousek and
T. Tokuyama introduced "implicit computational geometry", in which the
geometric objects are defined by implicit relations involving sets. An
important member in this family is called "a zone diagram". The implicit nature
of zone diagrams implies, as already observed in the original works, that their
computation is a challenging task. In a continuous setting this task has been
addressed (briefly) only by these authors in the Euclidean plane with point
sites. We discuss the possibility to compute zone diagrams in a wide class of
spaces and also shed new light on their computation in the original setting.
The class of spaces, which is introduced here, includes, in particular,
Euclidean spheres and finite dimensional strictly convex normed spaces. Sites
of a general form are allowed and it is shown that a generalization of the
iterative method suggested by Asano, Matousek and Tokuyama converges to a
double zone diagram, another implicit geometric object whose existence is known
in general. Occasionally a zone diagram can be obtained from this procedure.
The actual (approximate) computation of the iterations is based on a simple
algorithm which enables the approximate computation of Voronoi diagrams in a
general setting. Our analysis also yields a few byproducts of independent
interest, such as certain topological properties of Voronoi cells (e.g., that
in the considered setting their boundaries cannot be "fat").Comment: Very slight improvements (mainly correction of a few typos); add DOI;
Ref [51] points to a freely available computer application which implements
the algorithms; to appear in Discrete & Computational Geometry (available
online
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