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Publicações - ciências biológicas

Genetic and functional characterisation of a novel meta-pathway for degradation of naringenin in SmR1 MARIN, ANELIS MARIA; DUQUE, ESTRELLA; RAMOS, JUAN LUIS; DE LA TORRE, JÉSUS; OLIVEIRA, ALFREDO RICARDO MARQUES; Barison, Andersson; Leda Satie Chubatsu; Rose Adele Monteiro; DE OLIVEIRA PEDROSA, FABIO; Emanuel Maltempi de Souza; Roseli Wassem Environmental Microbiology (Print), v. 18, p. 4653-4661, 2016 DOI Palavra-chave: Herbaspirillium seropedicae; naringenin degradation resumo ... In this study, a random mutant library of Herbaspirillum seropedicae SmR1 was constructed by Tn5 insertion and a mutant incapable of utilizing naringenin as a carbon source was isolated. The Tn5 tran...
Genetic and functional characterization of a novel meta-pathway for degradation of naringenin in Herbaspirillum seropedicae SmR1 MARIA MARIN, ANELIS; DUQUE, ESTRELLA; RAMOS, JUAN-LUIS; DE LA TORRE, JÉSUS; RICARDO MARQUES OLIVEIRA, ALFREDO; Barison, Andersson; SATIE CHUBATSU, LEDA; ADELE MONTEIRO, ROSE; DE OLIVEIRA PEDROSA, FABIO; MALTEMPI DE SOUZA, EMANUEL; WASSEM, ROSELI Environmental Microbiology (Print), v. 18, n. 12, p. 4653-4661, 2016 DOI Palavra-chave: RMN Áreas do conhecimento: Ciências Exatas e da Terra; Química; Ressonancia Magnetica Nuclear; Ciências Biológicas; Bioquímica; Bioquímica dos Microorganismos resumo ... In this study, a random mutant library of Herbaspirillum seropedicae SmR1 was constructed by Tn5 insertion and a mutant incapable of utilizing naringenin as a carbon source was isolated. The Tn5 tran...
Genetic and Hematologic Endpoints in Astyanax altiparanae (Characidae) After Exposure and Recovery to Water-Soluble Fraction of Gasoline (WSFG) GALVAN, GABRIELI L.; LIROLA, JULIANA R.; FELISBINO, KAROLINE; VICARI, TAYNAH; Carlos Itsuo Yamamoto; CESTARI, MARTA M. Bulletin of Environmental Contamination and Toxicology, v. 96, p. 1-8, 2016 DOI Home page Palavra-chave: gasolina; ecotoxicidade Áreas do conhecimento: Ciências Biológicas; Ecologia; Ecologia de Ecossistemas resumo ... The sublethal effects of water-soluble fraction of gasoline (WSFG, 1.5 % v/v) were evaluated in the freshwater fish, Astynax altiparanae, after acute exposure (96 h) under a semi-static system. In addition, the recovery process was assessed in the fish following contaminant depuration. Recovery treatments were carried out with gradual depuration (GD), consisting of 7 days in the WSFG, followed by 8 days in clean water; and treatments with total depuration in clean water for 15 (DEP 15) and 30 days (DEP 30). The effects were evaluated through the piscine micronucleus test and by differential counting of organic defense cells. Acute exposure increased the frequency of neutrophils. In the GD treatment, the thrombocyte count and erythrocytic nuclear abnormalities (ENA) increased. In the DEP 15 treatment, there was a reduction of ENA; and following 30 days of depuration (i.e., DEP 30), the number of lymphocytes increased and the thrombocyte count remained high. These results indicate a long-term response to a condition of stress from WSFG.
Genetic structuring among silverside fish (Atherinella brasiliensis) populations from different Brazilian regions Maria Cristina Cortinhas; Ramsdorf, W.A.; Talge Aiex Boni; Alberto José Prioli; Cestari, M.M.; Ralf Kersanach; Maíra Proietti; Luiz Felipe Cestari Dumont; Fernando D'Incao; Ana Luiza F. Lacerda; Pedro Sanmartin Prata; Daniele Aparecida Matoso; Rafael B Noleto Estuarine, Coastal and Shelf Science (Print), v. 178, p. 148-157, 2016 DOI Palavra-chave: Diversidade Genética; RAPD; D-Loop; Carapebus; Itaparica Áreas do conhecimento: Ciências Biológicas; Farmacologia; Genética; Genética Humana; Ciências Biológicas; Genética; Genética Animal; Genética Molecular resumo ...
Genetically Determined MBL Deficiency Is Associated with Protection against Chronic Cardiomyopathy in Chagas Disease Paola; M. C. Padeski; A. C. M. Barros; Angelica Beate Winter Boldt; Iara J. T. Messias-Reason PLoS Neglected Tropical Diseases (Online), v. 10, n. 1, p. e0004257 2016 DOI Palavra-chave: MBL; lectina ligante de manose; doença de Chagas; cardiomiopatia; haplótipo; complemento Áreas do conhecimento: Ciências Biológicas; Genética Humana e Médica; Ciências Biológicas; Genética; Genética Humana e Médica; Imunogenética resumo ... Author Summary Chagas disease is considered an important neglected tropical disease, affecting approximately ten million people in Latin America. Although most infected individuals remain asymptomatic, one third of patients develop a chronic heart disease, with progressive inflammation, increase of myocardium, arrhythmia, cardiac insufficiency and heart failure. To date, there is no available marker to indicate the progression neither to determinate the severity of heart damage. Mannan binding lectin (MBL) is an important protein of the immune system able to recognize specific regions on the microorganism surfaces (including Trypanosoma cruzi, the causal agent of Chagas disease) which activate the complement system, a crucial mechanism of the effector immunity. MBL levels and protein activity are affected by genetic differences, named polymorphisms, in the MBL2 gene. This is the first Brazilian study with MBL2 polymorphisms in chronic Chagas disease. We sequenced two regions of MBL2 gene in 196 patients and 202 controls. We found that a polymorphism associated with deficient complement activation protects against Chagas disease and patients with deficiency-associated genotypes presented less echocardiographic alterations. Among the patients, those with alleles causing MBL deficiency presented lower levels of cytokines and chemokines possibly implicated in symptom development (IL9, p = 0.013; PDGFB, p = 0.036 and RANTES, p = 0.031). These findings lead us to suggest that genetically determined MBL deficiency plays a protective role against the development and progression of chronic Chagas disease.
GFinisher: a new strategy to refine and finish bacterial genome assemblies GUIZELINI, DIEVAL; RAITTZ, ROBERTO T.; Leonardo Magalhães Cruz; Emanuel Maltempi de Souza; STEFFENS, M; Fábio de Oliveira Pedrosa Scientific Reports, v. 6, p. 34963 2016 DOI Palavra-chave: genome assembler; genome sequencing; new generation sequencing Áreas do conhecimento: Ciências Biológicas; Bioquímica; Biologia Molecular; Genômica resumo ... Despite the development in DNA sequencing technology, improving the number and the length of reads, the process of reconstruction of complete genome sequences, the so called genome assembly, is still complex. Only 13% of the prokaryotic genome sequencing projects have been completed. Draft genome sequences deposited in public databases are fragmented in contigs and may lack the full gene complement. The aim of the present work is to identify assembly errors and improve the assembly process of bacterial genomes. The biological patterns observed in genomic sequences and the application of a priori information can allow the identification of misassembled regions, and the reorganization and improvement of the overall de novo genome assembly. GFinisher starts generating a Fuzzy GC skew graphs for each contig in an assembly and follows breaking down the contigs in critical points in order to reassemble and close them using jFGap. This has been successfully applied to dataset from 96 genome assemblies, decreasing the number of contigs by up to 86%. GFinisher can easily optimize assemblies of prokaryotic draft genomes and can be used to improve the assembly programs based on nucleotide sequence patterns in the genome. The software and source code are available at http://gfinisher.sourceforge.net/ .
GFinisher: a new strategy to refine and finish bacterial genome assemblies GUIZELINI, DIEVAL; RAITTZ, ROBERTO T.; Leonardo Magalhães Cruz; Emanuel Maltempi de Souza; STEFFENS, M; PEDROSA, FÁBIO O. Scientific Reports, v. 6, p. 34963 2016 DOI Palavra-chave: Bioinformatics; Bioinformática; DNA sequencing; Genone sequencing; montagem de genomas Áreas do conhecimento: Ciências Biológicas; Genética; Bioinformática resumo ... Despite the development in DNA sequencing technology, improving the number and the length of reads, the process of reconstruction of complete genome sequences, the so called genome assembly, is still complex. Only 13% of the prokaryotic genome sequencing projects have been completed. Draft genome sequences deposited in public databases are fragmented in contigs and may lack the full gene complement. The aim of the present work is to identify assembly errors and improve the assembly process of bacterial genomes. The biological patterns observed in genomic sequences and the application of a priori information can allow the identification of misassembled regions, and the reorganization and improvement of the overall de novo genome assembly. GFinisher starts generating a Fuzzy GC skew graphs for each contig in an assembly and follows breaking down the contigs in critical points in order to reassemble and close them using jFGap. This has been successfully applied to dataset from 96 genome assemblies, decreasing the number of contigs by up to 86%. GFinisher can easily optimize assemblies of prokaryotic draft genomes and can be used to improve the assembly programs based on nucleotide sequence patterns in the genome. The software and source code are available at http://gfinisher.sourceforge.net/ .
GFinisher: a new strategy to refine and finish bacterial genome assemblies Dieval Guizelini; RAITTZ, ROBERTO T.; CRUZ, LEONARDO M.; SOUZA, EMANUEL M.; STEFFENS, MARIA B. R.; PEDROSA, FÁBIO O. Scientific Reports, v. 6, p. 34963-8, 2016 DOI Home page Palavra-chave: genome assembly; contig sort; genome finisher Áreas do conhecimento: Ciências Biológicas; Genética; Bioinformática resumo ... Despite the development in DNA sequencing technology, improving the number and the length of reads, the process of reconstruction of complete genome sequences, the so called genome assembly, is still complex. Only 13% of the prokaryotic genome sequencing projects have been completed. Draft genome sequences deposited in public databases are fragmented in contigs and may lack the full gene complement. The aim of the present work is to identify assembly errors and improve the assembly process of bacterial genomes. The biological patterns observed in genomic sequences and the application of a priori information can allow the identification of misassembled regions, and the reorganization and improvement of the overall de novo genome assembly. GFinisher starts generating a Fuzzy GC skew graphs for each contig in an assembly and follows breaking down the contigs in critical points in order to reassemble and close them using jFGap. This has been successfully applied to dataset from 96 genome assemblies, decreasing the number of contigs by up to 86%. GFinisher can easily optimize assemblies of prokaryotic draft genomes and can be used to improve the assembly programs based on nucleotide sequence patterns in the genome. The software and source code are available at http://gfinisher.sourceforge.net/ .
GPS as an effective tool for study of the home range of black-and-gold howlers (Alouatta caraya) in riparian forests, southern Brazil Gabriela Ludwig; Lucas M. Aguiar; Fernando C. Passos Neotropical Primates, v. 22, n. 1, p. 19-24, 2016 Palavra-chave: Methodology; GPS; home range; Day range Áreas do conhecimento: Ciências Biológicas; Comportamento Animal; Ciências Biológicas; Ecologia; Ecologia de Ecossistemas; Ciências Biológicas; Zoologia; Zoologia Aplicada; Conservação das Espécies Animais resumo ...
Host species of the non-indigenous brittle star Ophiothela mirabilis (Echinodermata: Ophiuroidea): an invasive generalist in Brazil? Marcelo Checoli Mantelatto; Lara Figueiredo Vidon; Rosana Beatriz Silveira; Carla Menegola; Rosana Moreira da Rocha; Joel Christopher Creed Marine Biodiversity Records, v. 9, p. 1-7, 2016 Palavra-chave: bioinvasão; Echinodermata; epibiose; Rio de Janeiro Áreas do conhecimento: Ciências Biológicas; Bioquímica dos Microorganismos; Enzimologia resumo ...

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