A genome-wide 20 K citrus microarray for gene expression analysis

<p>Abstract</p> <p>Background</p> <p>Understanding of genetic elements that contribute to key aspects of citrus biology will impact future improvements in this economically important crop. Global gene expression analysis demands microarray platforms with a high genome coverage. In the last years, genome-wide EST collections have been generated in citrus, opening the possibility to create new tools for functional genomics in this crop plant.</p> <p>Results</p> <p>We have designed and constructed a publicly available genome-wide cDNA microarray that include 21,081 putative unigenes of citrus. As a functional companion to the microarray, a web-browsable database <abbrgrp><abbr bid="B1">1</abbr></abbrgrp> was created and populated with information about the unigenes represented in the microarray, including cDNA libraries, isolated clones, raw and processed nucleotide and protein sequences, and results of all the structural and functional annotation of the unigenes, like general description, BLAST hits, putative Arabidopsis orthologs, microsatellites, putative SNPs, GO classification and PFAM domains. We have performed a Gene Ontology comparison with the full set of Arabidopsis proteins to estimate the genome coverage of the microarray. We have also performed microarray hybridizations to check its usability.</p> <p>Conclusion</p> <p>This new cDNA microarray replaces the first 7K microarray generated two years ago and allows gene expression analysis at a more global scale. We have followed a rational design to minimize cross-hybridization while maintaining its utility for different citrus species. Furthermore, we also provide access to a website with full structural and functional annotation of the unigenes represented in the microarray, along with the ability to use this site to directly perform gene expression analysis using standard tools at different publicly available servers. Furthermore, we show how this microarray offers a good representation of the citrus genome and present the usefulness of this genomic tool for global studies in citrus by using it to catalogue genes expressed in citrus globular embryos.</p

A new set of ESTs and cDNA clones from full-length and normalized libraries for gene discovery and functional characterization in citrus

<p>Abstract</p> <p>Background</p> <p>Interpretation of ever-increasing raw sequence information generated by modern genome sequencing technologies faces multiple challenges, such as gene function analysis and genome annotation. Indeed, nearly 40% of genes in plants encode proteins of unknown function. Functional characterization of these genes is one of the main challenges in modern biology. In this regard, the availability of full-length cDNA clones may fill in the gap created between sequence information and biological knowledge. Full-length cDNA clones facilitate functional analysis of the corresponding genes enabling manipulation of their expression in heterologous systems and the generation of a variety of tagged versions of the native protein. In addition, the development of full-length cDNA sequences has the power to improve the quality of genome annotation.</p> <p>Results</p> <p>We developed an integrated method to generate a new normalized EST collection enriched in full-length and rare transcripts of different citrus species from multiple tissues and developmental stages. We constructed a total of 15 cDNA libraries, from which we isolated 10,898 high-quality ESTs representing 6142 different genes. Percentages of redundancy and proportion of full-length clones range from 8 to 33, and 67 to 85, respectively, indicating good efficiency of the approach employed. The new EST collection adds 2113 new citrus ESTs, representing 1831 unigenes, to the collection of citrus genes available in the public databases. To facilitate functional analysis, cDNAs were introduced in a Gateway-based cloning vector for high-throughput functional analysis of genes <it>in planta</it>. Herein, we describe the technical methods used in the library construction, sequence analysis of clones and the overexpression of <it>CitrSEP</it>, a citrus homolog to the Arabidopsis <it>SEP3 </it>gene, in Arabidopsis as an example of a practical application of the engineered Gateway vector for functional analysis.</p> <p>Conclusion</p> <p>The new EST collection denotes an important step towards the identification of all genes in the citrus genome. Furthermore, public availability of the cDNA clones generated in this study, and not only their sequence, enables testing of the biological function of the genes represented in the collection. Expression of the citrus <it>SEP3 </it>homologue, <it>CitrSEP</it>, in Arabidopsis results in early flowering, along with other phenotypes resembling the over-expression of the Arabidopsis <it>SEPALLATA </it>genes. Our findings suggest that the members of the <it>SEP </it>gene family play similar roles in these quite distant plant species.</p

p73 deficiency results in impaired self renewal and premature neuronal differentiation of mouse neural progenitors independently of p53

10 p.-5 fig.The question of how neural progenitor cells maintain its self-renewal throughout life is a fundamental problem in cell biology with implications in cancer, aging and neurodegenerative diseases. In this work, we have analyzed the p73 function in embryonic neural progenitor cell biology using the neurosphere (NS)-assay and showed that p73-loss has a significant role in the maintenance of neurosphere-forming cells in the embryonic brain. A comparative study of NS from Trp73-/-, p53KO, p53KO;Trp73-/-and their wild-type counterparts demonstrated that p73 deficiency results in two independent, but related, phenotypes: a smaller NS size (related to the proliferation and survival of the neural-progenitors) and a decreased capacity to form NS (self-renewal). The former seems to be the result of p53 compensatory activity, whereas the latter is p53 independent. We also demonstrate that p73 deficiency increases the population of neuronal progenitors ready to differentiate into neurons at the expense of depleting the pool of undifferentiated neurosphere-forming cells. Analysis of the neurogenic niches demonstrated that p73-loss depletes the number of neural-progenitor cells, rendering deficient niches in the adult mice. Altogether, our study identifies TP73 as a positive regulator of self-renewal with a role in the maintenance of the neurogenic capacity. Thus, proposing p73 as an important player in the development of neurodegenerative diseases and a potential therapeutic target.This work was supported by Grants SAF2009- 07897 from Spanish Ministerio de Ciencia e Innovacion (to MCM), Grant from Cajas de Ahorro de Castilla y León (to MCM), and Grants LE030A07 (to MMM) and LE015A10-2 (to MCM) from the Junta de Castilla y León.Peer reviewe

Novel insights into mice multi-organ metabolism upon exposure to a potential anticancer Pd(II)-agent

Pd(II)-compounds are presently regarded as promising anticancer drugs, as an alternative to Pt(II)-based drugs (e.g., cisplatin), which typically trigger severe side-effects and acquired resistance. Dinuclear Pd(II) complexes with biogenic polyamines such as spermine (Pd2Spm) have exhibited particularly beneficial cytotoxic properties, hence unveiling the importance of understanding their impact on organism metabolism. The present study reports the first nuclear magnetic resonance (NMR)-based metabolomics study to assess the in vivo impact of Pd2Spm on the metabolism of healthy mice, to identify metabolic markers with possible relation to biotoxicity/side-effects and their dynamics. The changes in the metabolic profiles of both aqueous and lipophilic extracts of mice kidney, liver, and breast tissues were evaluated, as a function of drug-exposure time, using cisplatin as a reference drug. A putative interpretation was advanced for the metabolic deviations specifically triggered by Pd2Spm, this compound generally inducing faster metabolic response and recovery to control levels for all organs tested, compared to cisplatin (except for kidney lipid metabolism). These results constitute encouraging preliminary metabolic data suggestive of potential lower negative effects of Pd2Spm administration.This research was developed within the scope of the CICECO—Aveiro Institute of Materials, with references UIDB/50011/2020 and UIDP/50011/2020, financed by national funds through the Portuguese Foundation for Science and Technology (FCT/MEC) and when appropriate co-financed by European Regional Development Fund (FEDER) under the PT2020 Partnership Agreement. This work was also funded by the FCT through UIDB/00070/2020 (ALMBC and MPMM), PO-CI-01-0145-FEDER-0016786, and Centro-01-0145-FEDER-029956 (co-financed by COMPETE 2020, Portugal 2020 and European Community through FEDER). It also received financial support from PT national funds (FCT/MCTES, Fundação para a Ciência e Tecnologia and Ministério da Ciência, Tecnologia e Ensino Superior) through the project UIDB/50006/2020. We also acknowledge the Portuguese National NMR Network (PTNMR), supported by FCT funds as the NMR spectrometer used is part of PTNMR and partially supported by Infrastructure Project Nº 022161 (co-financed by FEDER through COMPETE 2020, POCI and PORL, and the FCT through PIDDAC). M.V. thanks the FCT and the PhD Program in the department of Medicines and Pharmaceutical Innovation (i3DU) for their PhD grant PD/BD/135460/2017 and T.J.C. thanks FCT for their PhD grant SFRH/BD/145920/2019, both grants were funded by the European Social Fund of the European Union and national funds FCT/MCTES.publishe

Multi-organ NMR metabolomics to assess in vivo overall metabolic impact of cisplatin in mice

This work describes, to our knowledge, the first NMR metabolomics analysis of mice kidney, liver, and breast tissue in response to cisplatin exposure, in search of early metabolic signatures of cisplatin biotoxicity. Balb/c mice were exposed to a single 3.5 mg/kg dose of cisplatin and then euthanized; organs (kidney, liver, breast tissue) were collected at 1, 12, and 48 h. Polar tissue extracts were analyzed by NMR spectroscopy, and the resulting spectra were studied by multivariate and univariate analyses. The results enabled the identification of the most significant deviant metabolite levels at each time point, and for each tissue type, and showed that the largest metabolic impact occurs for kidney, as early as 1 h post-injection. Kidney tissue showed a marked depletion in several amino acids, comprised in an overall 13-metabolites signature. The highest number of changes in all tissues was noted at 12 h, although many of those recovered to control levels at 48 h, with the exception of some persistently deviant tissue-specific metabolites, thus enabling the identification of relatively longer-term effects of cDDP. This work reports, for the first time, early (1-48 h) concomitant effects of cDDP in kidney, liver, and breast tissue metabolism, thus contributing to the understanding of multi-organ cDDP biotoxicity.publishe

Bio-based synthesis of oxidation resistant copper nanowires using an aqueous plant extract

Copper nanowires have recently emerged as promising nanomaterials for transparent conducting electrodes applications, however, their production commonly involves the use of harmful reagents. In this study, we describe for the first time a simple and cost-effective bio-based synthesis of copper nanowires using an aqueous plant extract (Eucalyptus globulus) as the reducing/stabilizing agent and oleic acid and oleylamine as surfactants. Well-dispersed crystalline copper nanowires (λmáx = 584–613 nm) were obtained with average diameters in the nanometric range (44 and 145 nm) and lengths in the micrometric range (from 5 to dozens of micrometres) using extract concentrations between 10 and 50 mg mL−1. Moreover, the aspect ratio of these nanowires can be adjusted (from around 14–20 to 160–400) by changing the experimental conditions, namely the use of oleic acid. Phenolic compounds were found to have a key role in this bioreduction process allowing to obtain practically only nanowires (without other morphologies). Nevertheless, the use of oleic acid/oleylamine is essential to manipulate their size and aspect ratio. Most importantly, these bio-based copper nanowires were found to be resistant under storage in ethanol and when submitted to air exposure, both for 2 weeks, certainly due to the adsorption of antioxidant biomolecules (phenolic) at their surface, thus avoiding the use of other polymeric protective layers. The conductivity of the CuNWs was found to be 0.009 S cm−1. As a result, this study opens a new standpoint in this field, “closing the door” to the use of hazardous reagents and synthetic polymeric protective layers, on the production of stable copper nanowires with potential application as conductive materials.publishe

THE NURSING WORK ON THE HIGH BLOOD PRESSURE´S TRACKING IN CHILDREN AND ADOLESCENTS OF A PUBLIC SCHOOL OF GOIÂNIA-GOIÁS

This paper was written during the development of an assistance project by students of the FederalUniversity of Goiás Nursing College. The purpose was to investigate the prevalence of the high blood pressure in 160children and preadolescents students from 5th to 7th high classes in Goiânia Goiás state school., from August 2002to February - 2003. 4% of the students evaluated had out of standard blood pressure. All of them were lead to healthappointment to the Youth High-Pressure League of the Federal University of Goiás Clinical Hospital

Design and processing as ultrathin films of a sublimable Iron(II) spin crossover material exhibiting efficient and fast light-induced spin transition

Materials based on spin crossover (SCO) molecules have centred the attention in Molecular Magnetism for more than forty years as they provide unique examples of multifunctional and stimuli-responsive materials, which can be then integrated into electronic devices to exploit their molecular bistability. This process often requires the preparation of thermally stable SCO molecules that can sublime and remain intact in contact with surfaces. However, the number of robust sublimable SCO molecules is still very scarce. Here we report a novel example of this kind. It is based on a neutral iron (II) coordination complex formulated as [FeII(neoim)2], where neoimH is the ionogenic ligand 2-(1H-imidazol-2-yl)-9-methyl-1,10-phenanthroline. In the first part a comprehensive study, which covers the synthesis and magneto-structural characterization of the [FeII(neoim)2] complex as a bulk microcrystalline material, is reported. Then, in the second part we investigate the suitability of this material to form thin films through high vacuum (HV) sublimation. Finally, the retainment of all present SCO capabilities in the bulk when the material is processed is thoroughly studied by means of X-ray absorption spectroscopy. In particular, a very efficient and fast light-induced spin transition (LIESST effect) has been observed, even for ultrathin films of 15 nm.Comment: 27 pages, 2 schemes, 5 figures, 1 tabl

Preclinical pharmacokinetics and biodistribution of anticancer dinuclear Palladium(II)-Spermine Complex (Pd2Spm) in mice

Palladium-based compounds are regarded as potential analogs to platinum anticancer drugs with improved properties. The present study assessed the pharmacokinetics and biodistribution of a dinuclear palladium(II)-spermine chelate (Pd2Spm), which has previously been shown to possess promising in vitro activity against several therapy-resistant cancers. Using inductively coupled plasma-mass spectrometry, the kinetic profiles of palladium/platinum in serum, serum ultrafiltrate and tissues (kidney, liver, brain, heart, lungs, ovaries, adipose tissue and mammary glands) were studied in healthy female Balb/c mice after a single intraperitoneal bolus injection of Pd2Spm (3 mg/kg bw) or cisplatin (3.5 mg/kg bw) between 0.5 and 48 h post-injection. Palladium in serum exhibited biphasic kinetics with a terminal half-life of 20.7 h, while the free palladium in serum ultrafiltrate showed a higher terminal half-life than platinum (35.5 versus 31.5 h). Palladium was distributed throughout most of the tissues except for the brain, with the highest values in the kidney, followed by the liver, lungs, ovaries, adipose tissue and mammary glands. The in vitro cellular accumulation was also evaluated in breast cancer cells, evidencing a passive diffusion as a mechanism of Pd2Spm’s cellular entry. This study reports, for the first time, the favorable pharmacokinetics and biodistribution of Pd2Spm, which may become a promising pharmacological agent for cancer treatmentinfo:eu-repo/semantics/publishedVersio