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1.
Membranes (Basel) ; 14(7)2024 Jul 05.
Artigo em Inglês | MEDLINE | ID: mdl-39057657

RESUMO

A validation study using recycled ultrafiltration membranes (r-UF) on an aerobic membrane bioreactor (aMBR) was conducted for the first time. Four different polyethersulfone (PES) membranes were tested using synthetic urban wastewater (COD 0.4-0.5 g/L) during two experimental periods: (i) recycled ultrafiltration membrane (r-UF) and commercial UF membrane (molecular weight cut-off (MWCO) 150 kDa) (c-150 kDa); (ii) r-UF membrane modified by dip-coating using catechol (CA) and polyethyleneimine (PEI) (mr-UF) and c-20 kDa membrane. Permeability, fouling behavior, and permeate quality were evaluated. Extensive membrane characterization was conducted using scanning electron microscopy (SEM), atomic force microscopy (AFM), energy-dispersive X-ray (EDX), and confocal laser scanning microscopy (CLSM). Permeate quality for r-UF and mr-UF membranes was excellent and comparable to that obtained using commercial membranes under similar conditions. Additionally, r-UF and mr-UF membranes presented a steadier performance time. Additionally, r-UF membrane demonstrated less tendency to be fouled (Rf, m-1) r-UF 7.92 ± 0.57 × 1012; mr-UF 9.90 ± 0.14 × 1012, c-150 kDa 1.56 ± 0.07 × 1013 and c-20 kDa 1.25 ± 0.50 × 1013. The r-UF membrane showed an excellent antibiofouling character. Therefore, r-UF membranes can be successfully implemented for wastewater treatment in aMBR, being a sustainable and cost-effective alternative to commercial membranes that can contribute to overcome membrane fouling and membrane replacement issues.

2.
J Hazard Mater ; 467: 133685, 2024 Apr 05.
Artigo em Inglês | MEDLINE | ID: mdl-38335604

RESUMO

Marine sediments polluted from anthropogenic activities can be major reservoirs of toxic mercury species. Some microorganisms in these environments have the capacity to detoxify these pollutants, by using the mer operon. In this study, we characterized microbial cultures isolated from polluted marine sediments growing under diverse environmental conditions of salinity, oxygen availability and mercury tolerance. Specific growth rates and percentage of mercury removal were measured in batch cultures for a selection of isolates. A culture affiliated with Pseudomonas putida (MERCC_1942), which contained a mer operon as well as other genes related to metal resistances, was selected as the best candidate for mercury elimination. In order to optimize mercury detoxification conditions for strain MERCC_1942 in continuous culture, three different dilution rates were tested in bioreactors until the cultures achieved steady state, and they were subsequently exposed to a mercury spike; after 24 h, strain MERCC_1942 removed up to 76% of the total mercury. Moreover, when adapted to high growth rates in bioreactors, this strain exhibited the highest specific mercury detoxification rates. Finally, an immobilization protocol using the sol-gel technology was optimized. These results highlight that some sediment bacteria show capacity to detoxify mercury and could be used for bioremediation applications.


Assuntos
Poluentes Ambientais , Mercúrio , Mercúrio/toxicidade , Mercúrio/análise , Bactérias/genética , Reatores Biológicos
3.
Bioorg Med Chem Lett ; 98: 129546, 2024 Jan 15.
Artigo em Inglês | MEDLINE | ID: mdl-37944866

RESUMO

Epigenetic proteins containing YEATS domains (YD) are an emerging target class in drug discovery. Described herein are the discovery and characterization efforts associated with PFI-6, a new chemical probe for the YD of MLLT1 (ENL/YEATS1) and MLLT3 (AF9/YEATS3). For hit identification, fragment-like mimetics of endogenous YD ligands (crotonylated histone-containing proteins), were synthesized via parallel medicinal chemistry (PMC) and screened for MLLT1 binding. Subsequent SAR studies led to iterative MLLT1/3 binding and selectivity improvements, culminating in the discovery of PFI-6. PFI-6 demonstrates good affinity and selectivity for MLLT1/3 vs. other human YD proteins (YEATS2/4) and engages MLLT3 in cells. Small-molecule X-ray co-crystal structures of two molecules, including PFI-6, bound to the YD of MLLT1/3 are also described. PFI-6 may be a useful tool molecule to better understand the biological effects associated with modulation of MLLT1/3.


Assuntos
Histonas , Proteínas Nucleares , Humanos , Proteínas Nucleares/metabolismo , Histonas/metabolismo , Domínios Proteicos , Descoberta de Drogas , Proteínas de Neoplasias/metabolismo , Fatores de Transcrição/metabolismo
4.
J Hazard Mater ; 465: 133120, 2024 03 05.
Artigo em Inglês | MEDLINE | ID: mdl-38101011

RESUMO

Marine sediments impacted by urban and industrial pollutants are typically exposed to reducing conditions and represent major reservoirs of toxic mercury species. Mercury methylation mediated by anaerobic microorganisms is favored under such conditions, yet little is known about potential microbial mechanisms for mercury detoxification. We used culture-independent (metagenomics, metabarcoding) and culture-dependent approaches in anoxic marine sediments to identify microbial indicators of mercury pollution and analyze the distribution of genes involved in mercury reduction (merA) and demethylation (merB). While none of the isolates featured merB genes, 52 isolates, predominantly affiliated with Gammaproteobacteria, were merA positive. In contrast, merA genes detected in metagenomes were assigned to different phyla, including Desulfobacterota, Actinomycetota, Gemmatimonadota, Nitrospirota, and Pseudomonadota. This indicates a widespread capacity for mercury reduction in anoxic sediment microbiomes. Notably, merA genes were predominately identified in Desulfobacterota, a phylum previously associated only with mercury methylation. Marker genes involved in the latter process (hgcAB) were also mainly assigned to Desulfobacterota, implying a potential central and multifaceted role of this phylum in the mercury cycle. Network analysis revealed that Desulfobacterota were associated with anaerobic fermenters, methanogens and sulfur-oxidizers, indicating potential interactions between key players of the carbon, sulfur and mercury cycling in anoxic marine sediments.


Assuntos
Mercúrio , Microbiota , Mercúrio/análise , Sedimentos Geológicos/microbiologia , Bactérias/genética , Enxofre
5.
Membranes (Basel) ; 13(7)2023 Jul 21.
Artigo em Inglês | MEDLINE | ID: mdl-37505049

RESUMO

Despite the high removal ability of the wastewater treatment technologies, research efforts have been limited to the relatively large-sized microplastics, leaving nanoplastics outside the studied size spectrum. This study aims to evaluate the process performance of MF and UF membranes for the removal of single and mixed solutions of polystyrene nanospheres (120 and 500 nm) and BSA. The process performance was evaluated in terms of the rejection coefficient, the normalized flux, and the permeability recovery. The fouling mechanism of these pollutants was studied, evaluating the effect of different membrane materials, membrane pore sizes, and nanoplastic sizes, as well as the synergetic effect of the mixture of foulants. This study was complemented by surface membrane characterization. Polystyrene nanospheres were successfully removed with all the membranes studied, except for the MF membrane that obtained PS 120 nm rejection coefficients of 26%. Single nanoplastic particles were deposited in UF membranes creating a pore blocking and cake layer formation, whilst the nanoplastics of 120 nm were accumulated inside the MF membrane creating an internal pore blocking. In mixed solutions, the BSA acted in two different ways: (i) as a stabilizer, hindering the deposition of nanoplastics and (ii) as a main foulant that caused a substantial flux reduction.

6.
mBio ; 14(3): e0342522, 2023 06 27.
Artigo em Inglês | MEDLINE | ID: mdl-37052490

RESUMO

Low temperature limits the growth and the distribution of the key oceanic primary producer Prochlorococcus, which does not proliferate above a latitude of ca. 40°. Yet, the molecular basis of thermal acclimation in this cyanobacterium remains unexplored. We analyzed the transcriptional response of the Prochlorococcus marinus strain MIT9301 in long-term acclimations and in natural Prochlorococcus populations along a temperature range enabling its growth (17 to 30°C). MIT9301 upregulated mechanisms of the global stress response at the temperature minimum (17°C) but maintained the expression levels of genes involved in essential metabolic pathways (e.g., ATP synthesis and carbon fixation) along the whole thermal niche. Notably, the declining growth of MIT9301 from the optimum to the minimum temperature was coincident with a transcriptional suppression of the photosynthetic apparatus and a dampening of its circadian expression patterns, indicating a loss in their regulatory capacity under cold conditions. Under warm conditions, the cellular transcript inventory of MIT9301 was strongly streamlined, which may also induce regulatory imbalances due to stochasticity in gene expression. The daytime transcriptional suppression of photosynthetic genes at low temperature was also observed in metatranscriptomic reads mapping to MIT9301 across the global ocean, implying that this molecular mechanism may be associated with the restricted distribution of Prochlorococcus to temperate zones. IMPORTANCE Prochlorococcus is a major marine primary producer with a global impact on atmospheric CO2 fixation. This cyanobacterium is widely distributed across the temperate ocean, but virtually absent at latitudes above 40° for yet unknown reasons. Temperature has been suggested as a major limiting factor, but the exact mechanisms behind Prochlorococcus thermal growth restriction remain unexplored. This study brings us closer to understanding how Prochlorococcus functions under challenging temperature conditions, by focusing on its transcriptional response after long-term acclimation from its optimum to its thermal thresholds. Our results show that the drop in Prochlorococcus growth rate under cold conditions was paralleled by a transcriptional suppression of the photosynthetic machinery during daytime and a loss in the organism's regulatory capacity to maintain circadian expression patterns. Notably, warm temperature induced a marked shrinkage of the organism's cellular transcript inventory, which may also induce regulatory imbalances in the future functioning of this cyanobacterium.


Assuntos
Prochlorococcus , Prochlorococcus/metabolismo , Oceanos e Mares , Aclimatação , Bactérias , Fotossíntese
7.
J Med Chem ; 66(1): 460-472, 2023 01 12.
Artigo em Inglês | MEDLINE | ID: mdl-36562986

RESUMO

A series of small-molecule YEATS4 binders have been discovered as part of an ongoing research effort to generate high-quality probe molecules for emerging and/or challenging epigenetic targets. Analogues such as 4d and 4e demonstrate excellent potency and selectivity for YEATS4 binding versus YEATS1,2,3 and exhibit good physical properties and in vitro safety profiles. A new X-ray crystal structure confirms direct binding of this chemical series to YEATS4 at the lysine acetylation recognition site of the YEATS domain. Multiple analogues engage YEATS4 with nanomolar potency in a whole-cell nanoluciferase bioluminescent resonance energy transfer assay. Rodent pharmacokinetic studies demonstrate the competency of several analogues as in vivo-capable binders.


Assuntos
Regulação da Expressão Gênica , Processamento de Proteína Pós-Traducional , Domínios Proteicos , Acetilação , Epigênese Genética
8.
Environ Microbiol Rep ; 15(1): 31-37, 2023 02.
Artigo em Inglês | MEDLINE | ID: mdl-36102203

RESUMO

Although bulk bacterial metabolism in response to temperature has been determined for different oceanic regions, the impact of temperature on the functional diversity of dissolved organic matter (DOM) utilization has been largely unexplored. Here, we hypothesized that besides modifying the rates of carbon utilization, temperature can also alter the diversity of substrates utilized. The patterns of utilization of 31 model DOM compounds (as represented in Biolog EcoPlate™) by bacterioplankton were assessed using inocula from surface waters of the southern Bay of Biscay continental shelf over 1 year. Bacteria utilized more polymers and carbohydrates in late spring and summer than in winter, likely reflecting changes in substrate availability linked to the release and accumulation of DOM in phytoplankton post-bloom conditions. Seawater temperature correlated positively with the number of substrates utilized (i.e. functional richness) and this relationship was maintained in monthly experimental incubations spanning 3°C below and above in situ values. The enhancement of functional richness with experimental warming displayed a unimodal response to ambient temperature, peaking at 16°C. This temperature acted as a threshold separating nutrient-sufficient from nutrient-deficient conditions at the study site, suggesting that trophic conditions will be critical in the response of microbial DOM utilization to future warming.


Assuntos
Bactérias , Matéria Orgânica Dissolvida , Temperatura , Bactérias/metabolismo , Oceanos e Mares , Água do Mar/microbiologia
9.
Environ Microbiol ; 24(12): 6052-6070, 2022 12.
Artigo em Inglês | MEDLINE | ID: mdl-36054533

RESUMO

Pico- and nanoplankton are key players in the marine ecosystems due to their implication in the biogeochemical cycles, nutrient recycling and the pelagic food webs. However, the specific dynamics and niches of most bacterial, archaeal and eukaryotic plankton remain unknown, as well as the interactions between them. Better characterization of these is critical for understanding and predicting ecosystem functioning under anthropogenic pressures. We used environmental DNA metabarcoding across a 6-year time series to explore the structure and seasonality of pico- and nanoplankton communities in two sites of the Bay of Biscay, one coastal and one offshore, and construct association networks to reveal potential keystone and connector taxa. Temporal trends in alpha diversity were similar between the two sites, and concurrent communities more similar than within the same site at different times. However, we found differences between the network topologies of the two sites, with both shared and site-specific keystones and connectors. For example, Micromonas, with lower abundance in the offshore site is a keystone here, indicating a stronger effect of associations such as resource competition. This study provides an example of how time series and association network analysis can reveal how similar communities may function differently despite being geographically close.


Assuntos
Baías , Ecossistema , Plâncton/genética , Archaea/genética , Eucariotos/genética
10.
Int J Mol Sci ; 23(12)2022 Jun 19.
Artigo em Inglês | MEDLINE | ID: mdl-35743268

RESUMO

The behavior against temperature and thermal stability of enzymes is a topic of importance for industrial biocatalysis. This study focuses on the kinetics and thermodynamics of the thermal inactivation of Lipase PS from B. cepacia and Palatase from R. miehei. Thermal inactivation was investigated using eight inactivation models at a temperature range of 40-70 °C. Kinetic modeling showed that the first-order model and Weibull distribution were the best equations to describe the residual activity of Lipase PS and Palatase, respectively. The results obtained from the kinetic parameters, decimal reduction time (D and tR), and temperature required (z and z') indicated a higher thermal stability of Lipase PS compared to Palatase. The activation energy values (Ea) also indicated that higher energy was required to denature bacterial (34.8 kJ mol-1) than fungal (23.3 kJ mol-1) lipase. The thermodynamic inactivation parameters, Gibbs free energy (ΔG#), entropy (ΔS#), and enthalpy (ΔH#) were also determined. The results showed a ΔG# for Palatase (86.0-92.1 kJ mol-1) lower than for Lipase PS (98.6-104.9 kJ mol-1), and a negative entropic and positive enthalpic contribution for both lipases. A comparative molecular dynamics simulation and structural analysis at 40 °C and 70 °C were also performed.


Assuntos
Burkholderia cepacia , Estabilidade Enzimática , Cinética , Lipase/metabolismo , Simulação de Dinâmica Molecular , Rhizomucor , Temperatura , Termodinâmica
11.
Membranes (Basel) ; 12(2)2022 Feb 14.
Artigo em Inglês | MEDLINE | ID: mdl-35207139

RESUMO

The use of recycled ultrafiltration (r-UF) membranes, originating from end-of-life reverse osmosis membranes, as submerged flat-sheet membranes in an aerobic membrane bioreactor (aMBR) system is described herein for the first time. A feasibility study of this new approach was performed in a laboratory-scale aMBR system. The r-UF membrane performance was evaluated in terms of permeability, fouling behavior, and permeate quality using a widely used commercial flat sheet microfiltration membrane (c-MF) as a reference. Tests were conducted under steady-flux operation (at 12 and 14 L·m-2·h-1) and a variable trans-membrane pressure. Synthetic wastewater simulating urban wastewater characteristics with approx. 0.4-0.5 g/L COD concentration was used as the feed. The obtained results showed that the rejection performance of the r-UF membrane was similar to the performance of the commercial flat sheet microfiltration membrane (c-MF) under comparable operating conditions. Moreover, concerning fouling behavior, the r-UF membrane exhibited higher fouling resistance compared with the c-MF membrane, although the permeability decline rate was lower. Both membranes had comparable fouling mechanisms behavior, with cake layer fouling resistance accounting for approx. 60% of the total fouling resistance. Finally, a preliminary economic assessment pointed out the potential competitiveness of using r-UF membranes for aMBRs (5.9-10.9 EUR·m-2) and the scaling-up challenges toward industrial applications.

12.
Front Microbiol ; 12: 612732, 2021.
Artigo em Inglês | MEDLINE | ID: mdl-34040590

RESUMO

Interactions between autotrophic and heterotrophic bacteria are fundamental for marine biogeochemical cycling. How global warming will affect the dynamics of these essential microbial players is not fully understood. The aims of this study were to identify the major groups of heterotrophic bacteria present in a Synechococcus culture originally isolated from the Red Sea and assess their joint responses to experimental warming within the metabolic ecology framework. A co-culture of Synechococcus sp. RS9907 and their associated heterotrophic bacteria, after determining their taxonomic affiliation by 16S rRNA gene sequencing, was acclimated and maintained in the lab at different temperatures (24-34°C). The abundance and cellular properties of Synechococcus and the three dominant heterotrophic bacterial groups (pertaining to the genera Paracoccus, Marinobacter, and Muricauda) were monitored by flow cytometry. The activation energy of Synechococcus, which grew at 0.94-1.38 d-1, was very similar (0.34 ± 0.02 eV) to the value hypothesized by the metabolic theory of ecology (MTE) for autotrophs (0.32 eV), while the values of the three heterotrophic bacteria ranged from 0.16 to 1.15 eV and were negatively correlated with their corresponding specific growth rates (2.38-24.4 d-1). The corresponding carrying capacities did not always follow the inverse relationship with temperature predicted by MTE, nor did we observe a consistent response of bacterial cell size and temperature. Our results show that the responses to future ocean warming of autotrophic and heterotrophic bacteria in microbial consortia might not be well described by theoretical universal rules.

13.
Br J Haematol ; 193(5): 976-987, 2021 06.
Artigo em Inglês | MEDLINE | ID: mdl-33973229

RESUMO

The development of anti-drug antibodies (ADAs) is a serious outcome of treatment strategies involving biological medicines. Coagulation factor VIII (FVIII) is used to treat haemophilia A patients, but its immunogenicity precludes a third of severe haemophiliac patients from receiving this treatment. The availability of patient-derived anti-drug antibodies can help us better understand drug immunogenicity and identify ways to overcome it. Thus, there were two aims to this work: (i) to develop and characterise a panel of recombinant, patient-derived, monoclonal antibodies covering a range of FVIII epitopes with varying potencies, kinetics and mechanism of action, and (ii) to demonstrate their applicability to assay development, evaluation of FVIII molecules and basic research. For the first objective we used recombinant antibodies to develop a rapid, sensitive, flexible and reproducible ex vivo assay that recapitulates inhibitor patient blood using blood from healthy volunteers. We also demonstrate how the panel can provide important information about the efficacy of FVIII products and reagents without the need for patient or animal material. These materials can be used as experimental exemplars or controls, as well as tools for rational, hypothesis-driven research and assay development in relation to FVIII immunogenicity and FVIII-related products.


Assuntos
Anticorpos Monoclonais/química , Anticorpos Neutralizantes/química , Inibidores dos Fatores de Coagulação Sanguínea/química , Fator VIII/química , Hemofilia A/sangue , Anticorpos Monoclonais/sangue , Anticorpos Neutralizantes/sangue , Inibidores dos Fatores de Coagulação Sanguínea/sangue , Humanos , Proteínas Recombinantes/química
14.
Environ Microbiol ; 23(6): 3009-3019, 2021 06.
Artigo em Inglês | MEDLINE | ID: mdl-33817943

RESUMO

Ostreococcus is a cosmopolitan marine genus of phytoplankton found in mesotrophic and oligotrophic waters, and the smallest free-living eukaryotes known to date, with a cell diameter close to 1 µm. Ostreococcus has been extensively studied as a model system to investigate viral-host dynamics in culture, yet the impact of viruses in naturally occurring populations is largely unknown. Here, we used Virus Fluorescence in situ Hybridization (VirusFISH) to visualize and quantify viral-host dynamics in natural populations of Ostreococcus during a seasonal cycle in the central Cantabrian Sea (Southern Bay of Biscay). Ostreococcus were predominantly found during summer and autumn at surface and 50 m depth, in coastal, mid-shelf and shelf waters, representing up to 21% of the picoeukaryotic communities. Viral infection was only detected in surface waters, and its impact was variable but highest from May to July and November to December, when up to half of the population was infected. Metatranscriptomic data available from the mid-shelf station unveiled that the Ostreococcus population was dominated by the species O. lucimarinus. This work represents a proof of concept that the VirusFISH technique can be used to quantify the impact of viruses on targeted populations of key microbes from complex natural communities.


Assuntos
Fitoplâncton/virologia , Vírus , Hibridização in Situ Fluorescente , Estações do Ano , Água do Mar , Vírus/genética
15.
ACS Chem Biol ; 16(4): 586-595, 2021 04 16.
Artigo em Inglês | MEDLINE | ID: mdl-33724769

RESUMO

Classic galactosemia is caused by loss-of-function mutations in galactose-1-phosphate uridylyltransferase (GALT) that lead to toxic accumulation of its substrate, galactose-1-phosphate. One proposed therapy is to inhibit the biosynthesis of galactose-1-phosphate, catalyzed by galactokinase 1 (GALK1). Existing inhibitors of human GALK1 (hGALK1) are primarily ATP-competitive with limited clinical utility to date. Here, we determined crystal structures of hGALK1 bound with reported ATP-competitive inhibitors of the spiro-benzoxazole series, to reveal their binding mode in the active site. Spurred by the need for additional chemotypes of hGALK1 inhibitors, desirably targeting a nonorthosteric site, we also performed crystallography-based screening by soaking hundreds of hGALK1 crystals, already containing active site ligands, with fragments from a custom library. Two fragments were found to bind close to the ATP binding site, and a further eight were found in a hotspot distal from the active site, highlighting the strength of this method in identifying previously uncharacterized allosteric sites. To generate inhibitors of improved potency and selectivity targeting the newly identified binding hotspot, new compounds were designed by merging overlapping fragments. This yielded two micromolar inhibitors of hGALK1 that were not competitive with respect to either substrate (ATP or galactose) and demonstrated good selectivity over hGALK1 homologues, galactokinase 2 and mevalonate kinase. Our findings are therefore the first to demonstrate inhibition of hGALK1 from an allosteric site, with potential for further development of potent and selective inhibitors to provide novel therapeutics for classic galactosemia.


Assuntos
Inibidores Enzimáticos/uso terapêutico , Galactoquinase/antagonistas & inibidores , Galactosemias/tratamento farmacológico , Cristalografia por Raios X , Galactoquinase/química , Humanos , Conformação Proteica
16.
Mol Ecol ; 30(13): 2937-2958, 2021 07.
Artigo em Inglês | MEDLINE | ID: mdl-32416615

RESUMO

A decade after environmental scientists integrated high-throughput sequencing technologies in their toolbox, the genomics-based monitoring of anthropogenic impacts on the biodiversity and functioning of ecosystems is yet to be implemented by regulatory frameworks. Despite the broadly acknowledged potential of environmental genomics to this end, technical limitations and conceptual issues still stand in the way of its broad application by end-users. In addition, the multiplicity of potential implementation strategies may contribute to a perception that the routine application of this methodology is premature or "in development", hence restraining regulators from binding these tools into legal frameworks. Here, we review recent implementations of environmental genomics-based methods, applied to the biomonitoring of ecosystems. By taking a general overview, without narrowing our perspective to particular habitats or groups of organisms, this paper aims to compare, review and discuss the strengths and limitations of four general implementation strategies of environmental genomics for monitoring: (a) Taxonomy-based analyses focused on identification of known bioindicators or described taxa; (b) De novo bioindicator analyses; (c) Structural community metrics including inferred ecological networks; and (d) Functional community metrics (metagenomics or metatranscriptomics). We emphasise the utility of the three latter strategies to integrate meiofauna and microorganisms that are not traditionally utilised in biomonitoring because of difficult taxonomic identification. Finally, we propose a roadmap for the implementation of environmental genomics into routine monitoring programmes that leverage recent analytical advancements, while pointing out current limitations and future research needs.


Assuntos
Ecossistema , Metagenômica , Biodiversidade , Código de Barras de DNA Taxonômico , Monitoramento Ambiental
17.
Mol Ecol ; 30(13): 2969-2987, 2021 07.
Artigo em Inglês | MEDLINE | ID: mdl-32479653

RESUMO

Routine monitoring of benthic biodiversity is critical for managing and understanding the anthropogenic impacts on marine, transitional and freshwater ecosystems. However, traditional reliance on morphological identification generally makes it cost-prohibitive to increase the scale of monitoring programmes. Metabarcoding of environmental DNA has clear potential to overcome many of the problems associated with traditional monitoring, with prokaryotes and other microorganisms showing particular promise as bioindicators. However, due to the limited knowledge regarding the ecological roles and responses of environmental microorganisms to different types of pressure, the use of de novo approaches is necessary. Here, we use two such approaches for the prediction of multiple impacts present in estuaries and coastal areas of the Bay of Biscay based on microbial communities. The first (Random Forests) is a machine learning method while the second (Threshold Indicator Taxa Analysis and quantile regression splines) is based on de novo identification of bioindicators. Our results show that both methods overlap considerably in the indicator taxa identified, but less for sequence variants. Both methods also perform well in spite of the complexity of the studied ecosystem, providing predictive models with strong correlation to reference values and fair to good agreement with ecological status groups. The ability to predict several specific types of pressure is especially appealing. The cross-validated models and biotic indices developed can be directly applied to predict the environmental status of estuaries in the same geographical region, although more work is needed to evaluate and improve them for use in new regions or habitats.


Assuntos
Baías , Ecossistema , Biodiversidade , Monitoramento Ambiental , Estuários
18.
Br J Cancer ; 124(4): 817-830, 2021 02.
Artigo em Inglês | MEDLINE | ID: mdl-33214684

RESUMO

BACKGROUND: Interferon (IFN) signalling pathways, a key element of the innate immune response, contribute to resistance to conventional chemotherapy, radiotherapy, and immunotherapy, and are often deregulated in cancer. The deubiquitylating enzyme USP18 is a major negative regulator of the IFN signalling cascade and is the predominant human protease that cleaves ISG15, a ubiquitin-like protein tightly regulated in the context of innate immunity, from its modified substrate proteins in vivo. METHODS: In this study, using advanced proteomic techniques, we have significantly expanded the USP18-dependent ISGylome and proteome in a chronic myeloid leukaemia (CML)-derived cell line. USP18-dependent effects were explored further in CML and colorectal carcinoma cellular models. RESULTS: Novel ISGylation targets were characterised that modulate the sensing of innate ligands, antigen presentation and secretion of cytokines. Consequently, CML USP18-deficient cells are more antigenic, driving increased activation of cytotoxic T lymphocytes (CTLs) and are more susceptible to irradiation. CONCLUSIONS: Our results provide strong evidence for USP18 in regulating antigenicity and radiosensitivity, highlighting its potential as a cancer target.


Assuntos
Neoplasias Colorretais/enzimologia , Neoplasias Colorretais/imunologia , Citocinas/metabolismo , Leucemia Mielogênica Crônica BCR-ABL Positiva/enzimologia , Leucemia Mielogênica Crônica BCR-ABL Positiva/imunologia , Ubiquitina Tiolesterase/metabolismo , Ubiquitinas/metabolismo , Variação Antigênica , Linhagem Celular Tumoral , Neoplasias Colorretais/radioterapia , Técnicas de Inativação de Genes , Células HCT116 , Humanos , Leucemia Mielogênica Crônica BCR-ABL Positiva/radioterapia , Tolerância a Radiação/genética , Tolerância a Radiação/imunologia , Ubiquitina Tiolesterase/deficiência , Ubiquitina Tiolesterase/genética
19.
Int Immunopharmacol ; 89(Pt A): 107026, 2020 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-33045560

RESUMO

Interleukin 17 (IL-17) is a proinflammatory cytokine that acts as an immune checkpoint for several autoimmune diseases. Therapeutic neutralizing antibodies that target this cytokine have demonstrated clinical efficacy in psoriasis. However, biologics have limitations such as their high cost and their lack of oral bioavailability. Thus, it is necessary to expand the therapeutic options for this IL-17A/IL-17RA pathway, applying novel drug discovery methods to find effective small molecules. In this work, we combined biophysical and cell-based assays with structure-based docking to find novel ligands that target this pathway. First, a virtual screening of our chemical library of 60000 compounds was used to identify 67 potential ligands of IL-17A and IL-17RA. We developed a biophysical label-free binding assay to determine interactions with the extracellular domain of IL-17RA. Two molecules (CBG040591 and CBG060392) with quinazolinone and pyrrolidinedione chemical scaffolds, respectively, were confirmed as ligands of IL-17RA with micromolar affinity. The anti-inflammatory activity of these ligands as cytokine-release inhibitors was evaluated in human keratinocytes. Both ligands inhibited the release of chemokines mediated by IL-17A, with an IC50 of 20.9 ± 12.6 µM and 23.6 ± 11.8 µM for CCL20 and an IC50 of 26.7 ± 13.1 µM and 45.3 ± 13.0 µM for CXCL8. Hence, they blocked IL-17A proinflammatory activity, which is consistent with the inhibition of the signalling of the IL-17A receptor by ligand CBG060392. Therefore, we identified two novel immunopharmacological ligands targeting the IL-17A/IL-17RA pathway with antiinflammatory efficacy that can be promising tools for a drug discovery program for psoriasis.


Assuntos
Anti-Inflamatórios/farmacologia , Descoberta de Drogas , Interleucina-17/antagonistas & inibidores , Queratinócitos/efeitos dos fármacos , Psoríase/tratamento farmacológico , Receptores de Interleucina-17/antagonistas & inibidores , Quimiocina CCL20/metabolismo , Células HaCaT , Humanos , Interleucina-17/metabolismo , Interleucina-8/metabolismo , Queratinócitos/imunologia , Queratinócitos/metabolismo , Ligantes , Psoríase/imunologia , Psoríase/metabolismo , Receptores de Interleucina-17/metabolismo , Transdução de Sinais , Bibliotecas de Moléculas Pequenas , Fluxo de Trabalho
20.
Mar Drugs ; 18(9)2020 Aug 27.
Artigo em Inglês | MEDLINE | ID: mdl-32867255

RESUMO

Two Alteromonas sp. strains isolated from deep seawater were grown to promote the production of exopolysaccharides (EPS, E611 and E805), which were incorporated into chitosan solutions to develop films. The combination of the major marine polysaccharides (chitosan and the isolated bacterial EPS) resulted in the formation of homogenous, transparent, colorless films, suggesting good compatibility between the two components of the film-forming formulation. With regards to optical properties, the films showed low values of gloss, in the range of 5-10 GU, indicating the formation of non-glossy and rough surfaces. In addition to the film surface, both showed hydrophobic character, with water contact angles higher than 100 º, regardless of EPS addition. Among the two EPS under analysis, chitosan films with E805 showed better mechanical performance, leading to resistant, flexible, easy to handle films.


Assuntos
Alteromonas/metabolismo , Quitosana/química , Polissacarídeos Bacterianos/química , Cor , Composição de Medicamentos , Interações Hidrofóbicas e Hidrofílicas , Polissacarídeos Bacterianos/isolamento & purificação , Água do Mar/microbiologia , Propriedades de Superfície , Resistência à Tração , Microbiologia da Água
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