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1.
J Fungi (Basel) ; 8(2)2022 Jan 21.
Article in English | MEDLINE | ID: mdl-35205858

ABSTRACT

Acetic acid is a major inhibitory compound in several industrial bioprocesses, in particular in lignocellulosic yeast biorefineries. Cell envelope remodeling, involving cell wall and plasma membrane composition, structure and function, is among the mechanisms behind yeast adaptation and tolerance to stress. Pdr18 is a plasma membrane ABC transporter of the pleiotropic drug resistance family and a reported determinant of acetic acid tolerance mediating ergosterol transport. This study provides evidence for the impact of Pdr18 expression in yeast cell wall during adaptation to acetic acid stress. The time-course of acetic-acid-induced transcriptional activation of cell wall biosynthetic genes (FKS1, BGL2, CHS3, GAS1) and of increased cell wall stiffness and cell wall polysaccharide content in cells with the PDR18 deleted, compared to parental cells, is reported. Despite the robust and more intense adaptive response of the pdr18Δ population, the stress-induced increase of cell wall resistance to lyticase activity was below parental strain levels, and the duration of the period required for intracellular pH recovery from acidification and growth resumption was higher in the less tolerant pdr18Δ population. The ergosterol content, critical for plasma membrane stabilization, suffered a drastic reduction in the first hour of cultivation under acetic acid stress, especially in pdr18Δ cells. Results revealed a crosstalk between plasma membrane ergosterol content and cell wall biophysical properties, suggesting a coordinated response to counteract the deleterious effects of acetic acid.

2.
Curr Opin Biotechnol ; 74: 32-41, 2022 04.
Article in English | MEDLINE | ID: mdl-34781103

ABSTRACT

Among the mechanisms used by yeasts to overcome the deleterious effects of chemical and other environmental stresses is the activity of plasma membrane efflux pumps involved in multidrug resistance (MDR), a role on the focus of intensive research for years in pathogenic yeasts. More recently, these active transporters belonging to the MFS (Drug: H+ antiporters) or the ABC superfamily have been involved in resistance to xenobiotic compounds and in the transport of substrates with a clear physiological role. This review paper focuses on these putative efflux pumps concerning their tolerance phenotypes towards bioprocess-specific multiple stress factors, expression levels, physiological roles, and mechanisms by which they may lead to multistress resistance. Their association with the increased secretion of metabolites and other bioproducts and in the development of more robust superior strains for Yeast Chemical Biotechnology is highlighted.


Subject(s)
Membrane Transport Proteins , Saccharomyces cerevisiae , Biological Transport , Cell Membrane , Saccharomyces cerevisiae/metabolism
3.
FEMS Yeast Res ; 21(6)2021 09 11.
Article in English | MEDLINE | ID: mdl-34427650

ABSTRACT

Responding to the recent interest of the yeast research community in non-Saccharomyces cerevisiae species of biotechnological relevance, the N.C.Yeastract (http://yeastract-plus.org/ncyeastract/) was associated to YEASTRACT + (http://yeastract-plus.org/). The YEASTRACT + portal is a curated repository of known regulatory associations between transcription factors (TFs) and target genes in yeasts. N.C.Yeastract gathers all published regulatory associations and TF-binding sites for Komagataellaphaffii (formerly Pichia pastoris), the oleaginous yeast Yarrowia lipolytica, the lactose fermenting species Kluyveromyces lactis and Kluyveromyces marxianus, and the remarkably weak acid-tolerant food spoilage yeast Zygosaccharomyces bailii. The objective of this review paper is to advertise the update of the existing information since the release of N.C.Yeastract in 2019, and to raise awareness in the community about its potential to help the day-to-day work on these species, exploring all the information available in the global YEASTRACT + portal. Using simple and widely used examples, a guided exploitation is offered for several tools: (i) inference of orthologous genes; (ii) search for putative TF binding sites and (iii) inter-species comparison of transcription regulatory networks and prediction of TF-regulated networks based on documented regulatory associations available in YEASTRACT + for well-studied species. The usage potentialities of the new CommunityYeastract platform by the yeast community are also discussed.


Subject(s)
Gene Expression Regulation, Fungal , Yarrowia , Databases, Genetic , Genomics , Saccharomyces cerevisiae , Yeasts/genetics
4.
BMC Bioinformatics ; 22(1): 399, 2021 Aug 10.
Article in English | MEDLINE | ID: mdl-34376148

ABSTRACT

Numerous genomes are sequenced and made available to the community through the NCBI portal. However, and, unlike what happens for gene function annotation, annotation of promoter sequences and the underlying prediction of regulatory associations is mostly unavailable, severely limiting the ability to interpret genome sequences in a functional genomics perspective. Here we present an approach where one can download a genome of interest from NCBI in the GenBank Flat File (.gbff) format and, with a minimum set of commands, have all the information parsed, organized and made available through the platform web interface. Also, the new genomes are compared with a given genome of reference in search of homologous genes, shared regulatory elements and predicted transcription associations. We present this approach within the context of Community YEASTRACT of the YEASTRACT + portal, thus benefiting from immediate access to all the comparative genomics queries offered in the YEASTRACT + portal. Besides the yeast community, other communities can install the platform independently, without any constraints. In this work, we exemplify the usefulness of the presented tool, within Community YEASTRACT, in constructing a dedicated database and analysing the genome of the highly promising oleaginous red yeast species Rhodotorula toruloides currently poorly studied at the genome and transcriptome levels and with limited genome editing tools. Regulatory prediction is based on the conservation of promoter sequences and available regulatory networks. The case-study examined is focused on the Haa1 transcription factor-a key regulator of yeast resistance to acetic acid, an important inhibitor of industrial bioconversion of lignocellulosic hydrolysates. The new tool described here led to the prediction of a RtHaa1 regulon with expected impact in the optimization of R. toruloides robustness for lignocellulosic and pectin-rich residue biorefinery processes.


Subject(s)
Regulon , Yeasts , Molecular Sequence Annotation , Rhodotorula , Transcription Factors , Yeasts/genetics
5.
Sci Rep ; 11(1): 12652, 2021 06 16.
Article in English | MEDLINE | ID: mdl-34135398

ABSTRACT

This work describes a coordinate and comprehensive view on the time course of the alterations occurring at the level of the cell wall during adaptation of a yeast cell population to sudden exposure to a sub-lethal stress induced by acetic acid. Acetic acid is a major inhibitory compound in industrial bioprocesses and a widely used preservative in foods and beverages. Results indicate that yeast cell wall resistance to lyticase activity increases during acetic acid-induced growth latency, corresponding to yeast population adaptation to sudden exposure to this stress. This response correlates with: (i) increased cell stiffness, assessed by atomic force microscopy (AFM); (ii) increased content of cell wall ß-glucans, assessed by fluorescence microscopy, and (iii) slight increase of the transcription level of the GAS1 gene encoding a ß-1,3-glucanosyltransferase that leads to elongation of (1→3)-ß-D-glucan chains. Collectively, results reinforce the notion that the adaptive yeast response to acetic acid stress involves a coordinate alteration of the cell wall at the biophysical and molecular levels. These alterations guarantee a robust adaptive response essential to limit the futile cycle associated to the re-entry of the toxic acid form after the active expulsion of acetate from the cell interior.


Subject(s)
Acetic Acid/adverse effects , Adaptation, Physiological , Cell Wall , Saccharomyces cerevisiae , Cell Wall/chemistry , Cell Wall/metabolism , Cell Wall/pathology , Microscopy, Atomic Force , Microscopy, Fluorescence , Saccharomyces cerevisiae/drug effects , Saccharomyces cerevisiae/metabolism , Saccharomyces cerevisiae/physiology , Saccharomyces cerevisiae Proteins/metabolism , Stress, Physiological , beta-Glucans/chemistry , beta-Glucans/metabolism
6.
Environ Microbiol ; 23(1): 69-80, 2021 01.
Article in English | MEDLINE | ID: mdl-32985771

ABSTRACT

Among the mechanisms by which yeast overcomes multiple stresses is the expression of genes encoding ATP-binding cassette (ABC) transporters required for resistance to a wide range of toxic compounds. These substrates may include weak acids, alcohols, agricultural pesticides, polyamines, metal cations, as in the case of Pdr18. This pleotropic drug resistance transporter was previously proposed to transport ergosterol at the plasma membrane (PM) level contributing to the maintenance of PM lipid organization and reduced diffusional permeation induced by lipophilic compounds. The present work reports a novel phenotype associated with the putative drug/xenobiotic-efflux-pump transporter Pdr18: the resistance to heat shock and to long-term growth at supra-optimal temperatures. Cultivation at 40°C was demonstrated to lead to higher PM permeabilization of a pdr18Δ cell population with the PDR18 gene deleted compared with the parental strain population, as indicated by flow cytometry analysis of propidium iodide stained cells. Cells of pdr18Δ grown at 40°C also exhibited increased transcription levels from genes of the ergosterol biosynthetic pathway, compared with parental cells. However, this adaptive response at 40°C was not enough to maintain PM physiological ergosterol levels in the population lacking the Pdr18 transporter and free ergosterol precursors accumulate in the deletion mutant cells.


Subject(s)
ATP-Binding Cassette Transporters/metabolism , Cell Membrane/metabolism , Ergosterol/metabolism , Saccharomyces cerevisiae Proteins/metabolism , Saccharomyces cerevisiae/metabolism , ATP-Binding Cassette Transporters/genetics , Biological Transport , Cell Membrane/chemistry , Cell Membrane/genetics , Hot Temperature , Saccharomyces cerevisiae/chemistry , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae Proteins/genetics , Thermotolerance
7.
Dement Neuropsychol ; 14(4): 366-371, 2020 Dec.
Article in English | MEDLINE | ID: mdl-33354289

ABSTRACT

BACKGROUND: Intentionality to remember is associated with better performances in episodic memory retrieval. The practice effect has better performance in memory retrieval. However, little is known about the effect of intentionality on memory over days and the influence of age, gender, and level of education on it as well as on practice effect. OBJECTIVES: To verify the effect of intentionality and practice effect on memory performance over days, using an ecological approach. METHODS: One hundred and twenty subjects from 18 to 81 years of age and free of psychiatric and neurological disorders were evaluated. They were randomized into a "testing effect group" and a "intentionality group" and then were asked to read a text on the FIFA World Cup. The "intentionality group" was instructed to pay careful attention to the text because they would answer a questionnaire with 10 factual items from the text after 2 and 7 days. The "testing effect group" had the same procedure at the same time as the first group but were not instructed about the intentionality, and answered the questionnaire immediately after reading the text. RESULTS: Memory performance was better 2 days after the exposure session than 7 days later in the "intentionality group". On the other hand, there was no difference in memory performance from the "testing effect group" 2 and 7 days later. CONCLUSIONS: Intention to recall may enhance memory over a short period of days, while retaining similar amount of information over days to what was acquired immediately after text exposure.


INTRODUÇÃO: A intencionalidade de lembrar associa-se a melhores desempenhos na recuperação da memória episódica. O efeito da prática também apresenta melhores desempenhos na recuperação da memória. Entretanto, pouco se sabe sobre a intencionalidade na memória ao longo dos dias sob influência da idade, sexo e escolaridade, assim como sob efeito da prática. OBJETIVOS: Verificar o efeito da intencionalidade e de testes no desempenho da memória ao longo dos dias, utilizando abordagem ecológica. MÉTODOS: Foram avaliados 120 sujeitos (idade 18-81 anos) e a ausência de distúrbios psiquiátricos e neurológicos. Eles foram randomizados para o "grupo de efeito de testes" ou para o "grupo de intencionalidade" e expostos ao texto da Copa do Mundo de Futebol. O "grupo de intencionalidade" foi instruído a prestar muita atenção ao texto, pois seria aplicado um questionário com 10 itens factuais do texto 2 e 7 dias depois. O "grupo de efeito de testes" realizou o mesmo procedimento no mesmo tempo que o primeiro grupo, mas não foi instruído em relação à intencionalidade e responderam ao questionário imediatamente após a leitura do texto. RESULTADOS: O desempenho da memória foi melhor 2 dias após a exposição do que 7 dias depois no "grupo de intencionalidade". Por outro lado, não houve diferença no desempenho de memória no "grupo de efeito de testes" 2 e 7 dias depois. CONCLUSÕES: A intenção de recordar pode melhorar a memória por um curto período de dias. Enquanto o efeito de teste pode reter ao longo de dias quantidade similar de informação que foi adquirida imediatamente após a exposição do texto.

8.
Dement. neuropsychol ; 14(4): 366-371, Oct.-Dec. 2020. tab, graf
Article in English | LILACS | ID: biblio-1142830

ABSTRACT

ABSTRACT Background: Intentionality to remember is associated with better performances in episodic memory retrieval. The practice effect has better performance in memory retrieval. However, little is known about the effect of intentionality on memory over days and the influence of age, gender, and level of education on it as well as on practice effect. Objectives: To verify the effect of intentionality and practice effect on memory performance over days, using an ecological approach. Methods: One hundred and twenty subjects from 18 to 81 years of age and free of psychiatric and neurological disorders were evaluated. They were randomized into a "testing effect group" and a "intentionality group" and then were asked to read a text on the FIFA World Cup. The "intentionality group" was instructed to pay careful attention to the text because they would answer a questionnaire with 10 factual items from the text after 2 and 7 days. The "testing effect group" had the same procedure at the same time as the first group but were not instructed about the intentionality, and answered the questionnaire immediately after reading the text. Results: Memory performance was better 2 days after the exposure session than 7 days later in the "intentionality group". On the other hand, there was no difference in memory performance from the "testing effect group" 2 and 7 days later. Conclusions: Intention to recall may enhance memory over a short period of days, while retaining similar amount of information over days to what was acquired immediately after text exposure.


RESUMO Introdução: A intencionalidade de lembrar associa-se a melhores desempenhos na recuperação da memória episódica. O efeito da prática também apresenta melhores desempenhos na recuperação da memória. Entretanto, pouco se sabe sobre a intencionalidade na memória ao longo dos dias sob influência da idade, sexo e escolaridade, assim como sob efeito da prática. Objetivos: Verificar o efeito da intencionalidade e de testes no desempenho da memória ao longo dos dias, utilizando abordagem ecológica. Métodos: Foram avaliados 120 sujeitos (idade 18-81 anos) e a ausência de distúrbios psiquiátricos e neurológicos. Eles foram randomizados para o "grupo de efeito de testes" ou para o "grupo de intencionalidade" e expostos ao texto da Copa do Mundo de Futebol. O "grupo de intencionalidade" foi instruído a prestar muita atenção ao texto, pois seria aplicado um questionário com 10 itens factuais do texto 2 e 7 dias depois. O "grupo de efeito de testes" realizou o mesmo procedimento no mesmo tempo que o primeiro grupo, mas não foi instruído em relação à intencionalidade e responderam ao questionário imediatamente após a leitura do texto. Resultados: O desempenho da memória foi melhor 2 dias após a exposição do que 7 dias depois no "grupo de intencionalidade". Por outro lado, não houve diferença no desempenho de memória no "grupo de efeito de testes" 2 e 7 dias depois. Conclusões: A intenção de recordar pode melhorar a memória por um curto período de dias. Enquanto o efeito de teste pode reter ao longo de dias quantidade similar de informação que foi adquirida imediatamente após a exposição do texto.


Subject(s)
Humans , Aging , Cognition , Intention , Memory, Episodic , Learning
9.
Article in English | MEDLINE | ID: mdl-32714902

ABSTRACT

The Burkholderia cepacia complex (Bcc) is a group of opportunistic pathogenic bacteria with a remarkable metabolic capacity and broad genotypic/phenotypic plasticity, allowing their adaptation to hostile conditions, including nutrient depleted solutions containing antimicrobial agents. Bcc bacteria are feared contaminants in pharmaceutical industries and cause nosocomial outbreaks, posing health threats to immunocompromised individuals and cystic fibrosis (CF) patients. In this study, the adaptation and survival of B. cepacia and B. contaminans isolates was investigated after long-term incubation in nutrient depleted saline solutions supplemented with increasing concentrations of the biocidal preservative benzalkonium chloride (BZK), recreating the storage conditions of pharmaceutical products. These epidemiologically related isolates were recovered from intrinsically contaminated saline solutions for nasal application and from two CF patients. Long-term incubation in saline solutions containing BZK led to the development of bacterial sub-populations that survived for at least 16 months, despite an initial 2-3 log decrease in viability, displaying a progressive dose-dependent decrease of colony and cell size, including the appearance of small colony variants (SCVs). Bacterial colonies lost pigmentation, changed the morphotype from rough to smooth and produced more spherical cells during extended incubation with BZK. The development of macroscopically visible cellular aggregates, rich in polysaccharide and harboring viable cells in their interior was triggered by BZK. The existence of a metabolic pathway for BZK degradation was confirmed through genome analysis. This study reveals mechanisms underlying the prevalence of Bcc bacteria as contaminants of pharmaceutical products containing BZK, which often lead to false-negative results during quality control and routine testing.

10.
Nucleic Acids Res ; 48(D1): D642-D649, 2020 01 08.
Article in English | MEDLINE | ID: mdl-31586406

ABSTRACT

The YEASTRACT+ information system (http://YEASTRACT-PLUS.org/) is a wide-scope tool for the analysis and prediction of transcription regulatory associations at the gene and genomic levels in yeasts of biotechnological or human health relevance. YEASTRACT+ is a new portal that integrates the previously existing YEASTRACT (http://www.yeastract.com/) and PathoYeastract (http://pathoyeastract.org/) databases and introduces the NCYeastract (Non-Conventional Yeastract) database (http://ncyeastract.org/), focused on the so-called non-conventional yeasts. The information in the YEASTRACT database, focused on Saccharomyces cerevisiae, was updated. PathoYeastract was extended to include two additional pathogenic yeast species: Candida parapsilosis and Candida tropicalis. Furthermore, the NCYeastract database was created, including five biotechnologically relevant yeast species: Zygosaccharomyces baillii, Kluyveromyces lactis, Kluyveromyces marxianus, Yarrowia lipolytica and Komagataella phaffii. The YEASTRACT+ portal gathers 289 706 unique documented regulatory associations between transcription factors (TF) and target genes and 420 DNA binding sites, considering 247 TFs from 10 yeast species. YEASTRACT+ continues to make available tools for the prediction of the TFs involved in the regulation of gene/genomic expression. In this release, these tools were upgraded to enable predictions based on orthologous regulatory associations described for other yeast species, including two new tools for cross-species transcription regulation comparison, based on multi-species promoter and TF regulatory network analyses.


Subject(s)
Computational Biology/methods , Databases, Genetic , Gene Expression Regulation, Fungal , Genome, Fungal , Genomics , Yeasts/genetics , Binding Sites , Candida tropicalis/genetics , Gene Regulatory Networks , Kluyveromyces/genetics , Phylogeny , Promoter Regions, Genetic , Saccharomyces cerevisiae/genetics , Software , Species Specificity , Transcription Factors/genetics , Transcription, Genetic , Yarrowia/genetics , Zygosaccharomyces/genetics
11.
Prog Mol Subcell Biol ; 58: 1-35, 2019.
Article in English | MEDLINE | ID: mdl-30911887

ABSTRACT

The contemporary approach of physiological genomics is vital in providing the indispensable holistic understanding of the complexity of the molecular targets, signalling pathways and molecular mechanisms underlying the responses and tolerance to stress, a topic of paramount importance in biology and biotechnology. This chapter focuses on the toxicity and tolerance to relevant stresses in the cell factory and eukaryotic model yeast Saccharomyces cerevisiae. Emphasis is given to the function and regulation of multidrug/multixenobiotic resistance (MDR/MXR) transporters. Although these transporters have been considered drug/xenobiotic efflux pumps, the exact mechanism of their involvement in multistress resistance is still open to debate, as highlighted in this chapter. Given the conservation of transport mechanisms from S. cerevisiae to less accessible eukaryotes such as plants, this chapter also provides a proof of concept that validates the relevance of the exploitation of the experimental yeast model to uncover the function of novel MDR/MXR transporters in the plant model Arabidopsis thaliana. This knowledge can be explored for guiding the rational design of more robust yeast strains with improved performance for industrial biotechnology, for overcoming and controlling the deleterious activities of spoiling yeasts in the food industry, for developing efficient strategies to improve crop productivity in agricultural biotechnology.


Subject(s)
Drug Resistance, Multiple, Fungal/genetics , Genomics , Membrane Transport Proteins/genetics , Membrane Transport Proteins/metabolism , Models, Biological , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae/metabolism , Arabidopsis/genetics , Arabidopsis/metabolism , Drug Resistance, Multiple, Fungal/drug effects , Saccharomyces cerevisiae/cytology , Saccharomyces cerevisiae/drug effects
12.
Front Genet ; 9: 476, 2018.
Article in English | MEDLINE | ID: mdl-30374366

ABSTRACT

Pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters play a key role in the simultaneous acquisition of resistance to a wide range of structurally and functionally unrelated cytotoxic compounds in yeasts. Saccharomyces cerevisiae Pdr18 was proposed to transport ergosterol at the plasma membrane, contributing to the maintenance of adequate ergosterol content and decreased levels of stress-induced membrane disorganization and permeabilization under multistress challenge leading to resistance to ethanol, acetic acid and the herbicide 2,4-D, among other compounds. PDR18 is a paralog of SNQ2, first described as a determinant of resistance to the chemical mutagen 4-NQO. The phylogenetic and neighborhood analysis performed in this work to reconstruct the evolutionary history of ScPDR18 gene in Saccharomycetaceae yeasts was focused on the 214 Pdr18/Snq2 homologs from the genomes of 117 strains belonging to 29 yeast species across that family. Results support the idea that a single duplication event occurring in the common ancestor of the Saccharomyces genus yeasts was at the origin of PDR18 and SNQ2, and that by chromosome translocation PDR18 gained a subtelomeric region location in chromosome XIV. The multidrug/multixenobiotic phenotypic profiles of S. cerevisiae pdr18Δ and snq2Δ deletion mutants were compared, as well as the susceptibility profile for Candida glabrata snq2Δ deletion mutant, given that this yeast species has diverged previously to the duplication event on the origin of PDR18 and SNQ2 genes and encode only one Pdr18/Snq2 homolog. Results show a significant overlap between ScSnq2 and CgSnq2 roles in multidrug/multixenobiotic resistance (MDR/MXR) as well as some overlap in azole resistance between ScPdr18 and CgSnq2. The fact that ScSnq2 and ScPdr18 confer resistance to different sets of chemical compounds with little overlapping is consistent with the subfunctionalization and neofunctionalization of these gene copies. The elucidation of the real biological role of ScSNQ2 will enlighten this issue. Remarkably, PDR18 is only found in Saccharomyces genus genomes and is present in almost all the recently available 1,000 deep coverage genomes of natural S. cerevisiae isolates, consistent with the relevant encoded physiological function.

13.
Sci Rep ; 8(1): 7860, 2018 05 18.
Article in English | MEDLINE | ID: mdl-29777118

ABSTRACT

Saccharomyces cerevisiae has the ability to become less sensitive to a broad range of chemically and functionally unrelated cytotoxic compounds. Among multistress resistance mechanisms is the one mediated by plasma membrane efflux pump proteins belonging to the ABC superfamily, questionably proposed to enhance the kinetics of extrusion of all these compounds. This study provides new insights into the biological role and impact in yeast response to acetic acid stress of the multistress resistance determinant Pdr18 proposed to mediate ergosterol incorporation in plasma membrane. The described coordinated activation of the transcription of PDR18 and of several ergosterol biosynthetic genes (ERG2-4, ERG6, ERG24) during the period of adaptation to acetic acid inhibited growth provides further support to the involvement of Pdr18 in yeast response to maintain plasma membrane ergosterol content in stressed cells. Pdr18 role in ergosterol homeostasis helps the cell to counteract acetic acid-induced decrease of plasma membrane lipid order, increase of the non-specific membrane permeability and decrease of transmembrane electrochemical potential. Collectively, our results support the notion that Pdr18-mediated multistress resistance is closely linked to the status of plasma membrane lipid environment related with ergosterol content and the associated plasma membrane properties.


Subject(s)
ATP-Binding Cassette Transporters/metabolism , Acetic Acid/pharmacology , Cell Membrane/drug effects , Ergosterol/metabolism , Saccharomyces cerevisiae Proteins/metabolism , Saccharomyces cerevisiae/metabolism , ATP-Binding Cassette Transporters/genetics , Cell Membrane/metabolism , Cell Membrane Permeability/drug effects , Drug Resistance, Fungal , Ether-A-Go-Go Potassium Channels/genetics , Ether-A-Go-Go Potassium Channels/metabolism , Membrane Potentials/drug effects , Saccharomyces cerevisiae/drug effects , Saccharomyces cerevisiae/growth & development , Saccharomyces cerevisiae Proteins/genetics , Transcriptional Activation
14.
Nucleic Acids Res ; 46(D1): D348-D353, 2018 01 04.
Article in English | MEDLINE | ID: mdl-29036684

ABSTRACT

The YEAst Search for Transcriptional Regulators And Consensus Tracking (YEASTRACT-www.yeastract.com) information system has been, for 11 years, a key tool for the analysis and prediction of transcription regulatory associations at the gene and genomic levels in Saccharomyces cerevisiae. Since its last update in June 2017, YEASTRACT includes approximately 163000 regulatory associations between transcription factors (TF) and target genes in S. cerevisiae, based on more than 1600 bibliographic references; it also includes 247 specific DNA binding consensus recognized by 113 TFs. This release of the YEASTRACT database provides new visualization tools to visualize each regulatory network in an interactive fashion, enabling the user to select and observe subsets of the network such as: (i) considering only DNA binding evidence or both DNA binding and expression evidence; (ii) considering only either positive or negative regulatory associations; or (iii) considering only one set of related environmental conditions. A further tool to observe TF regulons is also offered, enabling a clear-cut understanding of the exact meaning of the available data. We believe that with this new version, YEASTRACT will improve its role as an open web resource instrumental for Yeast Biologists and Systems Biology researchers.


Subject(s)
Databases, Genetic , Gene Expression Regulation, Fungal , Gene Regulatory Networks , Saccharomyces cerevisiae/genetics , Transcription, Genetic , Regulon , Transcription Factors/metabolism
15.
Sci Rep ; 7(1): 4529, 2017 07 03.
Article in English | MEDLINE | ID: mdl-28674455

ABSTRACT

Soil contamination is a major hindrance for plant growth and development. The lack of effective strategies to remove chemicals released into the environment has raised the need to increase plant resilience to soil pollutants. Here, we investigated the ability of two Saccharomyces cerevisiae plasma-membrane transporters, the Major Facilitator Superfamily (MFS) member Tpo1p and the ATP-Binding Cassette (ABC) protein Pdr5p, to confer Multiple Drug Resistance (MDR) in Arabidopsis thaliana. Transgenic plants expressing either of the yeast transporters were undistinguishable from the wild type under control conditions, but displayed tolerance when challenged with the herbicides 2,4-D and barban. Plants expressing ScTPO1 were also more resistant to the herbicides alachlor and metolachlor as well as to the fungicide mancozeb and the Co2+, Cu2+, Ni2+, Al3+ and Cd2+ cations, while ScPDR5-expressing plants exhibited tolerance to cycloheximide. Yeast mutants lacking Tpo1p or Pdr5p showed increased sensitivity to most of the agents tested in plants. Our results demonstrate that the S. cerevisiae Tpo1p and Pdr5p transporters are able to mediate resistance to a broad range of compounds of agricultural interest in yeast as well as in Arabidopsis, underscoring their potential in future biotechnological applications.


Subject(s)
ATP-Binding Cassette Transporters/genetics , Antiporters/genetics , Arabidopsis/drug effects , Arabidopsis/physiology , Drug Resistance/genetics , Ectopic Gene Expression , Organic Cation Transport Proteins/genetics , Saccharomyces cerevisiae Proteins/genetics , Xenobiotics/pharmacology , ATP-Binding Cassette Transporters/metabolism , Antiporters/metabolism , Cell Membrane/metabolism , Herbicides/pharmacology , Microscopy, Confocal , Organic Cation Transport Proteins/metabolism , Plant Development/genetics , Plants, Genetically Modified , Saccharomyces cerevisiae Proteins/metabolism
16.
Appl Microbiol Biotechnol ; 101(12): 5005-5018, 2017 Jun.
Article in English | MEDLINE | ID: mdl-28409382

ABSTRACT

The action of benzoic acid in the food and beverage industries is compromised by the ability of spoilage yeasts to cope with this food preservative. Benzoic acid occurs naturally in many plants and is an intermediate compound in the biosynthesis of many secondary metabolites. The understanding of the mechanisms underlying the response and resistance to benzoic acid stress in the eukaryotic model yeast is thus crucial to design more suitable strategies to deal with this toxic lipophilic weak acid. In this study, the Saccharomyces cerevisiae multidrug transporter Tpo1 was demonstrated to confer resistance to benzoic acid. TPO1 transcript levels were shown to be up-regulated in yeast cells suddenly exposed to this stress agent. This up-regulation is under the control of the Gcn4 and Stp1 transcription factors, involved in the response to amino acid availability, but not under the regulation of the multidrug resistance transcription factors Pdr1 and Pdr3 that have binding sites in TPO1 promoter region. Benzoic acid stress was further shown to affect the intracellular pool of amino acids and polyamines. The observed decrease in the concentration of these nitrogenous compounds, registered upon benzoic acid stress exposure, was not found to be dependent on Tpo1, although the limitation of yeast cells on nitrogenous compounds was found to activate Tpo1 expression. Altogether, the results described in this study suggest that Tpo1 is one of the key players standing in the crossroad between benzoic acid stress response and tolerance and the control of the intracellular concentration of nitrogenous compounds. Also, results can be useful to guide the design of more efficient preservation strategies and the biotechnological synthesis of benzoic acid or benzoic acid-derived compounds.


Subject(s)
Antiporters/metabolism , Basic-Leucine Zipper Transcription Factors/metabolism , Benzoic Acid/pharmacology , Nuclear Proteins/metabolism , Organic Cation Transport Proteins/metabolism , RNA-Binding Proteins/metabolism , Saccharomyces cerevisiae Proteins/metabolism , Saccharomyces cerevisiae/drug effects , Saccharomyces cerevisiae/genetics , Transcription Factors/metabolism , Amino Acids , Antiporters/genetics , Basic-Leucine Zipper Transcription Factors/genetics , Binding Sites , Drug Resistance, Multiple, Fungal/genetics , Drug Tolerance , Food Preservatives , Gene Expression Regulation, Fungal , Nuclear Proteins/genetics , Organic Cation Transport Proteins/genetics , Polyamines , RNA-Binding Proteins/genetics , Saccharomyces cerevisiae/growth & development , Saccharomyces cerevisiae/metabolism , Saccharomyces cerevisiae Proteins/genetics , Trans-Activators , Transcription Factors/genetics , Transcriptional Activation , Up-Regulation
17.
Neuroepidemiology ; 44(2): 78-82, 2015.
Article in English | MEDLINE | ID: mdl-25765048

ABSTRACT

BACKGROUND: Social interaction is a lifestyle factor associated with a decreased risk of dementia in several studies. However, specific aspects of these social factors influencing dementia are unknown. This study aimed at evaluating the role of the distinct aspects of social support on the incidence of dementia in a community-based cohort of older people in Brazil. METHODS: A total of 345 healthy and independent elderly subjects living in the community were followed by 12 years. Incident cases of dementia and probable Alzheimer's disease were defined by DSM-IV criteria and NINCDS-ADRDA criteria, respectively. Social variables evaluated were marital status, living arrangement, living children, living sibling, confidant and attending recreational groups. Sex, age, education, Mini-Mental State Examination (MMSE) score, depressive symptoms and family income were entered as co-variates in a Cox proportional hazard model. RESULTS: The absence of confidant was the only social variable associated to higher risk of developing dementia (HR = 5.31; p < 0.001), even after adjustment for age (HR = 1.08; p = 0.048) and baseline MMSE score (HR = 0.79; p = 0.002). CONCLUSIONS: Our data suggest that to have a confidant could be an important lifestyle factor associated with dementia.


Subject(s)
Alzheimer Disease/psychology , Social Support , Aged , Aged, 80 and over , Brazil , Female , Follow-Up Studies , Humans , Male , Risk
18.
Arq Neuropsiquiatr ; 73(1): 41-5, 2015 Jan.
Article in English | MEDLINE | ID: mdl-25608126

ABSTRACT

UNLABELLED: The NPI-Q (Neuropsychiatry Inventory-Questionnaire) was developed to facilitate the evaluation of neuropsychiatric symptoms. This study evaluated the internal consistency, the test-retest reliability of the Brazilian NPI-Q version and its convergent validity with the original NPI. METHOD: The NPI-Q and the NPI were administered to 64 caregivers of dementia patients. Thirteen informants were asked to complete a second NPI-Q form. RESULTS: The internal consistency of the Brazilian NPI-Q version was 0.67 for the severity scale and 0.81 for the distress scale. The test-retest reliability of the total NPI-Q severity and the distress scales were 0.97 and 0.92, respectively (p < 0.001). There were significant correlations between the total NPI-Q severity score and the NPI (r = 0.75) and between the total NPI-Q distress score and the total NPI standard distress (r = 0.74). CONCLUSION: The Brazilian NPI-Q version showed evidence of good psychometric properties and can be used in general clinical practice.


Subject(s)
Dementia/diagnosis , Surveys and Questionnaires , Brazil , Cross-Sectional Studies , Cultural Characteristics , Diagnostic and Statistical Manual of Mental Disorders , Educational Status , Female , Humans , Male , Middle Aged , Neuropsychological Tests , Reproducibility of Results , Translating
19.
Arq. neuropsiquiatr ; 73(1): 41-45, 01/2015. tab
Article in English | LILACS | ID: lil-732222

ABSTRACT

The NPI-Q (Neuropsychiatry Inventory-Questionnaire) was developed to facilitate the evaluation of neuropsychiatric symptoms. This study evaluated the internal consistency, the test-retest reliability of the Brazilian NPI-Q version and its convergent validity with the original NPI. Method The NPI-Q and the NPI were administered to 64 caregivers of dementia patients. Thirteen informants were asked to complete a second NPI-Q form. Results The internal consistency of the Brazilian NPI-Q version was 0.67 for the severity scale and 0.81 for the distress scale. The test-retest reliability of the total NPI-Q severity and the distress scales were 0.97 and 0.92, respectively (p < 0.001). There were significant correlations between the total NPI-Q severity score and the NPI (r = 0.75) and between the total NPI-Q distress score and the total NPI standard distress (r = 0.74). Conclusion The Brazilian NPI-Q version showed evidence of good psychometric properties and can be used in general clinical practice. .


O Q-INP (Questionário do Inventário Neuropsiquiátrico) foi desenvolvido para facilitar a avaliação dos sintomas neuropsiquiátricos. Este estudo avaliou a consistência interna, confiabilidade teste-reteste e validade convergente da versão brasileira do Q-INP com o INP (Inventário Neuropsiquiátrico). Método Sessenta e quatro cuidadores de pacientes com demência responderam ambas as escalas. O NPI-Q foi reaplicado em 13 informantes. Resultados A consistência interna da versão brasileira do Q-INP foi 0,67 para a escala de gravidade e 0,81 para escala de desgaste. A confiabilidade teste-reteste da escala de gravidade foi 0,97 e 0,92 para a escala de desgaste (p < 0,001). Houve correlação significativa entre o escore de gravidade do Q-INP e INP (r = 0,75) e entre os escores de desgaste destas escalas (r = 0,74). Conclusão A versão brasileira do Q-INP mostrou evidências de boas propriedades psicométricas e pode ser usado na prática clínica geral. .


Subject(s)
Female , Humans , Male , Middle Aged , Dementia/diagnosis , Surveys and Questionnaires , Brazil , Cross-Sectional Studies , Cultural Characteristics , Diagnostic and Statistical Manual of Mental Disorders , Educational Status , Neuropsychological Tests , Reproducibility of Results , Translating
20.
Dement. neuropsychol ; 8(2): 182-186, mar. 14. tab
Article in English | LILACS | ID: lil-718839

ABSTRACT

The definition of successful aging and identification of predictors have been extensively reviewed, less attention however, has been given to the role of this condition on mortality. OBJECTIVE: To evaluate the effect of aging status (normal or successful) on mortality in a South Brazilian population-based cohort, adjusted for sociodemographic and clinical variables, and to report the mortality rate and causes of death in this population. METHODS: The baseline sample comprised 345 community-dwelling, independent and healthy Southern Brazilian older individuals who were followed for 12 years. Clinical, socio-demographic, functional and cognitive variables were assessed at baseline and during the follow-up. At baseline, 214 participants fulfilled criteria for successful aging, and 131 for normal aging. The main outcome was death. RESULTS: The Cox regression model showed an increased risk for mortality in subjects with normal aging (HR=1.9; p=0.003) adjusted by age (HR=1.1; p<0.001) and by sex (HR=1.9; p=0.002). The overall mortality rate was 41% and the rate was significantly lower among successful than normal agers (p=0.001). The main causes of death were cardiovascular disease and cancer. CONCLUSION: Our main finding was an increased risk of mortality among normal in comparison with successful aging subjects, emphasizing the impact of the heterogeneity of the healthy aging process on mortality.


A definição de envelhecimento bem sucedido e a identificação dos seus preditores têm sido extensamente revisadas, entretanto o papel desta condição na mortalidade tem sido menos estudado. OBJETIVO: Avaliar o efeito do status de envelhecimento (normal ou bem sucedido) sobre a mortalidade em uma coorte de base populacional do Sul do Brasil, ajustado para variáveis sociodemográficas e clínicas. Descrever a taxa de mortalidade e as causas de morte nessa população. MÉTODOS: A amostra inicial foi composta de 345 idosos residentes na comunidade, independentes e saudáveis, que foram acompanhados por 12 anos. Variáveis sociodemográficas, funcionais, cognitivas e clínicas foram avaliadas no início e durante o seguimento. No início do estudo, 214 participantes preencheram os critérios para envelhecimento bem-sucedido, e 131 para envelhecimento normal. O desfecho foi mortalidade. RESULTADOS: O modelo de regressão de Cox mostrou um aumento do risco de mortalidade para indivíduos com envelhecimento normal (RC=1,9; p=0,003), ajustado para idade (RC=1,1; p<0,001) e sexo (RC=1,9; p=0,002). A taxa de mortalidade foi significativamente menor entre os idosos com envelhecimento bem sucedido em comparação aos idosos com envelhecimento normal (p=0,001). A taxa de mortalidade geral foi de 41%. As principais causas de morte foram doenças cardiovasculares e câncer. CONCLUSÃO: O principal resultado deste estudo foi o risco de mortalidade aumentado nos indivíduos com envelhecimento normal em comparação com os indivíduos com envelhecimento bem sucedido, enfatizando o impacto da heterogeneidade do processo de envelhecimento saudável sobre a mortalidade.


Subject(s)
Humans , Mortality , Cause of Death , Healthy Aging
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