Integrating Phylogenetic and Network Approaches to Study Gene Family Evolution: The Case of the \u3ci\u3eAGAMOUS\u3c/i\u3e Family of Floral Genes

The study of gene family evolution has benefited from the use of phylogenetic tools, which can greatly inform studies of both relationships within gene families and functional divergence. Here, we propose the use of a network-based approach that in combination with phylogenetic methods can provide additional support for models of gene family evolution. We dissect the contributions of each method to the improved understanding of relationships and functions within the well-characterized family of AGAMOUS floral development genes. The results obtained with the two methods largely agreed with one another. In particular, we show how network approaches can provide improved interpretations of branches with low support in a conventional gene tree. The network approach used here may also better reflect known and suspected patterns of functional divergence relative to phylogenetic methods. Overall, we believe that the combined use of phylogenetic and network tools provide a more robust assessment of gene family evolution

Integrating Phylogenetic and Network Approaches to Study Gene Family Evolution: The Case of the \u3ci\u3eAGAMOUS\u3c/i\u3e Family of Floral Genes

The study of gene family evolution has benefited from the use of phylogenetic tools, which can greatly inform studies of both relationships within gene families and functional divergence. Here, we propose the use of a network-based approach that in combination with phylogenetic methods can provide additional support for models of gene family evolution. We dissect the contributions of each method to the improved understanding of relationships and functions within the well-characterized family of AGAMOUS floral development genes. The results obtained with the two methods largely agreed with one another. In particular, we show how network approaches can provide improved interpretations of branches with low support in a conventional gene tree. The network approach used here may also better reflect known and suspected patterns of functional divergence relative to phylogenetic methods. Overall, we believe that the combined use of phylogenetic and network tools provide a more robust assessment of gene family evolution

MicroRNA deregulation and chemotaxis and phagocytosis impairment in Alzheimer's disease

AbstractIntroductionMononuclear phagocytes play a critical role during Alzheimer's disease (AD) pathogenesis due to their contribution to innate immune responses and amyloid beta (Aβ) clearance mechanisms.MethodsBlood-derived monocytes (BDMs) and monocyte-derived macrophages (MDMs) were isolated from blood of AD, mild cognitive impairment (MCI) patients, and age-matched healthy controls for molecular and phenotypic comparisons.ResultsThe chemokine/chemokine receptor CCL2/CCR2 axis was impaired in BDMs from AD and MCI patients, causing a deficit in cell migration. Changes were also observed in MDM-mediated phagocytosis of Aβ fibrils, correlating with alterations in the expression and processing of the triggering receptor expressed on myeloid cells 2 (TREM2). Finally, immune-related microRNAs (miRNAs), including miR-155, -154, -200b, -27b, and -128, were found to be differentially expressed in these cells.DiscussionThis work provides evidence that chemotaxis and phagocytosis, two crucial innate immune functions, are impaired in AD and MCI patients. Correlations with miRNA levels suggest an epigenetic contribution to systemic immune dysfunction in AD

Influence of preparation procedures on the phenolic content, antioxidant and antidiabetic activities of green and black teas

The influence of common tea preparation procedures (temperature, infusion time, consumption time interval and tea bag/loose-leaf) and the type of water used, on the total phenolic content (TPC), the radical scavenging activity and the alpha-glucosidase inhibitory activity were assessed. Higher TPC and antioxidant activity were obtained when using lower mineralized waters. Tea bags also evidenced higher antioxidant activity than loose-leaf samples. Under the same conditions (90 degrees C and five minutes of infusion time) green tea contains almost twice the quantity of polyphenols and the free radical scavenging ability of black tea. In the alpha-glucosidase assay all infusions were active (97-100 %). Furthermore, HPLC allowed to identify some of the polyphenols present in both teas and to monitor their composition change with time. After twenty-four hours, the antioxidant activity was maintained without significant changes, but a small decrease in enzyme inhibition was observed, although this activity was still very high.info:eu-repo/semantics/publishedVersio

Interviewing Peter Gow — Dundee, June 24, 2017

This interview presents an initial dialogue about Peter Gow’s trajectory as an anthropologist, trying to bring to light particularly the fieldwork experiences and events that it had not been possible to commenton and explore in the published material. Its aim is to understand more closely the particular ways in which Peter Gow had come to arrive at the insights and the analyses presented in his brilliant ethnographies with the Yine/Piro people of Amazonia

Tailoring carbon nanotubes surface chemistry for the purification of antileukemic drugs

Biopharmaceuticals have been used to overcome fatal diseases related with aging. L-aspariginase (LA), in particular, has shown evidences of being efficient for leukemia therapy. The LA production and purification require several steps increasing the cost of the process. In this work, functionalized carbon nanotubes (CNTs) were studied as a cost-effective support to purify LA. It was shown that CNTs have strong affinity for the target biopharmaceutical, meaning that can be a promising alternative for the adsorption and purification of LA.publishe

Temporal patterns of the catadromous thinlip grey mullet migration in freshwater

The thinlip grey mullet (Chelon ramada Risso, 1827) is a catadromous fish that performs massive migrations to freshwater habitats for feeding purposes that can assume a structuring role on riverine ecology due to the biomass involved in these movements. Seasonal movements of thinlip grey mullet through a vertical slot fish pass located in River Mondego (Portugal) were continuously monitored between 2013 and 2017. The extent of trophic migration, population size structure, biomass and the environmental triggers of bi-directional species' migratory activity were analysed. Between March and November of 2013/2014, ~2 million and 1 million movements were respectively recorded. From a subsampling approach, the upstream movements between 2015 and 2017 were estimated. Annually, around five hundred thousand upstream movements can occur to provide species access to the upstream freshwater reaches. Movements are exclusively diurnal, and the population composed by young adults in their first year of maturity, yet juveniles and larger fish were present (TL range: 90–540 mm). Upstream movements increased with temperatures above 15°C, reaching a peak at around 20°C coupled with a photoperiod of 15 h. Downstream movements attained the higher rates when temperature dropped from 22°C to 20°C and photoperiod to 13 h. However, under wetter hydrological conditions (as in 2014), discharge flows have a higher influence. These finding provide unique information regarding species migration to freshwater habitats in the Atlantic coast, namely the extended periods spent in such environments, overlapping with the spawning migration period. Additionally, highlights the importance of species' trophic migration both for its life cycle and riverine food-web

Functional characterization of Arabidopsis thaliana transthyretin-like protein

<p>Abstract</p> <p>Background</p> <p><it>Arabidopsis thaliana </it>transthyretin-like (TTL) protein is a potential substrate in the brassinosteroid signalling cascade, having a role that moderates plant growth. Moreover, sequence homology revealed two sequence domains similar to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU) decarboxylase (N-terminal domain) and 5-hydroxyisourate (5-HIU) hydrolase (C-terminal domain). TTL is a member of the transthyretin-related protein family (TRP), which comprises a number of proteins with sequence homology to transthyretin (TTR) and the characteristic C-terminal sequence motif Tyr-Arg-Gly-Ser. TRPs are single domain proteins that form tetrameric structures with 5-HIU hydrolase activity. Experimental evidence is fundamental for knowing if TTL is a tetrameric protein, formed by the association of the 5-HIU hydrolase domains and, in this case, if the structural arrangement allows for OHCU decarboxylase activity. This work reports about the biochemical and functional characterization of TTL.</p> <p>Results</p> <p>The TTL gene was cloned and the protein expressed and purified for biochemical and functional characterization. The results show that TTL is composed of four subunits, with a moderately elongated shape. We also found evidence for 5-HIU hydrolase and OHCU decarboxylase activities <it>in vitro</it>, in the full-length protein.</p> <p>Conclusions</p> <p>The <it>Arabidopsis thaliana </it>transthyretin-like (TTL) protein is a tetrameric bifunctional enzyme, since it has 5-HIU hydrolase and OHCU decarboxylase activities, which were simultaneously observed <it>in vitro</it>.</p

Photoinactivation of bacterial and fungal planktonic/biofilm forms using the combination of a porphyrinic formulation with potassium iodide

Antimicrobial photodynamic therapy (aPDT) is a promising approach against multidrug-resistant microorganisms. In this work, we accessed the photodynamic efficiency of an affordable formulation composed of five cationic porphyrins (FORM) and its combined effect with potassium iodide (KI) on a large spectrum of microorganisms. For this purpose, the aPDT assays were conducted with FORM alone and FORM + KI on planktonic and biofilm forms of Gram(+) (Staphylococcus aureus) and Gram(−) (Escherichia coli) bacteria and of the yeast Candida albicans. The results obtained indicate that FORM, at low concentrations (0.5–5.0 μM), had an efficient photodynamic action on the planktonic forms of E. coli, S. aureus, and C. albicans. Moreover, the combination of FORM with KI improved the photodynamic action of this PS, promoting microbial inactivation with lower PS concentrations and treatment time. The combination of FORM + KI was also extremely efficient in the destruction of bacterial and fungal biofilms. This outstanding effect may be due to the action of longer-lived iodine reactive species produced by the reaction of KI with the ROS generated by FORM during the aPDT treatment.info:eu-repo/semantics/publishedVersio