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1,213 results on '"Guimarães, A. C. A."'

3. Allelic variability in the Rpp1 locus conferring resistance to Asian soybean rust revealed by genome-wide association

Author

Aoyagi, Luciano Nobuhiro, Ferreira, Everton Geraldo Capote, da Silva, Danielle C. Gregorio, dos Santos, Adriana Brombini, Avelino, Bruna Barbosa, Lopes-Caitar, Valeria S., de Oliveira, Marcelo Fernandes, Abdelnoor, Ricardo V., de Souto, Eliezer Rodrigues, Arias, Carlos Arrabal, Belzile, François, and Marcelino-Guimarães, Francismar C.

Published
2024
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7. Major proliferation of transposable elements shaped the genome of the soybean rust pathogen Phakopsora pachyrhizi

Author

Gupta, Yogesh K, Marcelino-Guimarães, Francismar C, Lorrain, Cécile, Farmer, Andrew, Haridas, Sajeet, Ferreira, Everton Geraldo Capote, Lopes-Caitar, Valéria S, Oliveira, Liliane Santana, Morin, Emmanuelle, Widdison, Stephanie, Cameron, Connor, Inoue, Yoshihiro, Thor, Kathrin, Robinson, Kelly, Drula, Elodie, Henrissat, Bernard, LaButti, Kurt, Bini, Aline Mara Rudsit, Paget, Eric, Singan, Vasanth, Daum, Christopher, Dorme, Cécile, van Hoek, Milan, Janssen, Antoine, Chandat, Lucie, Tarriotte, Yannick, Richardson, Jake, Melo, Bernardo do Vale Araújo, Wittenberg, Alexander HJ, Schneiders, Harrie, Peyrard, Stephane, Zanardo, Larissa Goulart, Holtman, Valéria Cristina, Coulombier-Chauvel, Flavie, Link, Tobias I, Balmer, Dirk, Müller, André N, Kind, Sabine, Bohnert, Stefan, Wirtz, Louisa, Chen, Cindy, Yan, Mi, Ng, Vivian, Gautier, Pierrick, Meyer, Maurício Conrado, Voegele, Ralf Thomas, Liu, Qingli, Grigoriev, Igor V, Conrath, Uwe, Brommonschenkel, Sérgio H, Loehrer, Marco, Schaffrath, Ulrich, Sirven, Catherine, Scalliet, Gabriel, Duplessis, Sébastien, and van Esse, H Peter

Subjects
Biological Sciences, Bioinformatics and Computational Biology, Genetics, Human Genome, Generic health relevance, Good Health and Well Being, Phakopsora pachyrhizi, DNA Transposable Elements, Glycine max, Ecosystem, Basidiomycota, Cell Proliferation
Abstract

With >7000 species the order of rust fungi has a disproportionately large impact on agriculture, horticulture, forestry and foreign ecosystems. The infectious spores are typically dikaryotic, a feature unique to fungi in which two haploid nuclei reside in the same cell. A key example is Phakopsora pachyrhizi, the causal agent of Asian soybean rust disease, one of the world's most economically damaging agricultural diseases. Despite P. pachyrhizi's impact, the exceptional size and complexity of its genome prevented generation of an accurate genome assembly. Here, we sequence three independent P. pachyrhizi genomes and uncover a genome up to 1.25 Gb comprising two haplotypes with a transposable element (TE) content of ~93%. We study the incursion and dominant impact of these TEs on the genome and show how they have a key impact on various processes such as host range adaptation, stress responses and genetic plasticity.

Published
2023

10. Predi\c{c}\~ao de Incid\^encia de Les\~ao por Press\~ao em Pacientes de UTI usando Aprendizado de M\'aquina

Author

Silva, Henrique P., Reys, Arthur D., Severo, Daniel S., Ruther, Dominique H., Silva, Flávio A. O. B., Guimarães, Maria C. S. S., Pinto, Roberto Z. A., Pedro, Saulo D. S., Navarro, Túlio P., and Silva, Danilo

Subjects
Computer Science - Machine Learning
Abstract

Pressure ulcers have high prevalence in ICU patients but are preventable if identified in initial stages. In practice, the Braden scale is used to classify high-risk patients. This paper investigates the use of machine learning in electronic health records data for this task, by using data available in MIMIC-III v1.4. Two main contributions are made: a new approach for evaluating models that considers all predictions made during a stay, and a new training method for the machine learning models. The results show a superior performance in comparison to the state of the art; moreover, all models surpass the Braden scale in every operating point in the precision-recall curve. -- -- Les\~oes por press\~ao possuem alta preval\^encia em pacientes de UTI e s\~ao preven\'iveis ao serem identificadas em est\'agios iniciais. Na pr\'atica utiliza-se a escala de Braden para classifica\c{c}\~ao de pacientes em risco. Este artigo investiga o uso de aprendizado de m\'aquina em dados de registros eletr\^onicos para este fim, a partir da base de dados MIMIC-III v1.4. S\~ao feitas duas contribui\c{c}\~oes principais: uma nova abordagem para a avalia\c{c}\~ao dos modelos e da escala de Braden levando em conta todas as predi\c{c}\~oes feitas ao longo das interna\c{c}\~oes, e um novo m\'etodo de treinamento para os modelos de aprendizado de m\'aquina. Os resultados obtidos superam o estado da arte e verifica-se que os modelos superam significativamente a escala de Braden em todos os pontos de opera\c{c}\~ao da curva de precis\~ao por sensibilidade., Comment: 3 pages, 1 figure, in Portuguese, accepted at XVIII Congresso Brasileiro de Inform\'atica em Sa\'ude (CBIS 2021)

Published
2021

12. The soybean rust pathogen Phakopsora pachyrhizi displays transposable element proliferation that correlates with broad host-range adaptation on legumes

Author

Gupta, Yogesh K, Marcelino-Guimarães, Francismar C, Lorrain, Cécile, Farmer, Andrew, Haridas, Sajeet, Ferreira, Everton Geraldo Capote, Lopes-Caitar, Valéria S, Oliveira, Liliane Santana, Morin, Emmanuelle, Widdison, Stephanie, Cameron, Connor, Inoue, Yoshihiro, Thor, Kathrin, Robinson, Kelly, Drula, Elodie, Henrissat, Bernard, LaButti, Kurt, Bini, Aline Mara Rudsit, Paget, Eric, Singan, Vasanth, Daum, Christopher, Dorme, Cécile, van Hoek, Milan, Janssen, Antoine, Chandat, Lucie, Tarriotte, Yannick, Richardson, Jake, do Vale Araújo Melo, Bernardo, Wittenberg, Alexander, Schneiders, Harrie, Peyrard, Stephane, Zanardo, Larissa Goulart, Holtman, Valéria Cristina, Coulombier-Chauvel, Flavie, Link, Tobias I, Balmer, Dirk, Müller, André N, Kind, Sabine, Bohnert, Stefan, Wirtz, Louisa, Chen, Cindy, Yan, Mi, Ng, Vivian, Gautier, Pierrick, Meyer, Maurício Conrado, Voegele, Ralf Thomas, Liu, Qingli, Grigoriev, Igor V, Conrath, Uwe, Brommonschenkel, Sérgio H, Loehrer, Marco, Schaffrath, Ulrich, Sirven, Catherine, Scalliet, Gabriel, Duplessis, Sébastien, and van Esse, H Peter

Subjects
Human Genome, Biotechnology, Genetics, Aetiology, 2.2 Factors relating to the physical environment
Abstract

ABSTRACT: Asian soybean rust, caused by Phakopsora pachyrhizi, is one of the world’s most economically damaging agricultural diseases. Despite P. pachyrhizi’s impact, the exceptional size and complexity of its genome prevented generation of an accurate genome assembly. We simultaneously sequenced three P. pachyrhizi genomes uncovering a genome up to 1.25 Gb comprising two haplotypes with a transposable element (TE) content of ~93%. The proliferation of TEs within the genome occurred in several bursts and correlates with the radiation and speciation of the legumes. We present data of clear de-repression of TEs that mirrors expression of virulence-related candidate effectors. We can see a unique expansion in amino acid metabolism for this fungus. Our data shows that TEs play a dominant role in P. pachyrhizi’s genome and have a key impact on various processes such as host range adaptation, stress responses and genetic plasticity of the genome.

Published
2022

16. The long-lasting Ascaris suum antigens in the lungs shapes the tissue adaptation modifying the pulmonary architecture and immune response after infection in mice

Author

Oliveira, Fabrício M.S., Kraemer, Lucas, Vieira-Santos, Flaviane, Leal-Silva, Thaís, Gazzinelli-Guimarães, Ana C., Lopes, Camila A., Amorim, Chiara C.O., Pinheiro, Guilherme R.G., Moura, Matheus S., Matias, Pablo H.P., Barbosa, Fernando S., Caliari, Marcelo V., Weatherhead, Jill E., Bueno, Lilian L., Russo, Remo C., and Fujiwara, Ricardo T.

Published
2024
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17. Near-canopy horizontal concentration heterogeneity of semivolatile oxygenated organic compounds and implications for 2-methyltetrols primary emissions

Author

Ye, Jianhuai, Batista, Carla E, Guimarães, Patricia C, Ribeiro, Igor O, Vidoudez, Charles, Barbosa, Rafael G, Oliveira, Rafael L, Ma, Yongjing, Jardine, Kolby J, Surratt, Jason D, Guenther, Alex B, Souza, Rodrigo AF, and Martin, Scot T

Subjects
Earth Sciences, Atmospheric Sciences, Environmental Sciences, Pollution and Contamination, Climate Action
Abstract

Semivolatile oxygenated organic compounds (SV-OVOCs) are important atmospheric species, in particular for the production and chemistry of atmospheric particulate matter and related impacts on air quality and climate. In this study, SV-OVOCs were collected in the horizontal plane of the roughness layer over the tropical forest in the central Amazon during the wet season of 2018. A sampler mounted to a coptertype, hovering unmanned aerial vehicle was used. Underlying the collection region, a plateau forest transitioned into a slope forest across several hundred meters. The concentrations of pinonic and pinic acids, which are monoterpene oxidation products, had no statistical difference over the two forests. By comparison, across the study period, differences in the concentration of 2-methyltetrols, which are products of isoprene oxidation, ranged from _70% to +480% over the two forests. The chemical lifetime of 2-methyltetrols in the atmosphere is sufficiently long that heterogeneity in the isoprene emission rate from the two forests followed by atmospheric oxidation does not explain the concentration heterogeneity of 2-methyltetrols. Standing waves and local meteorology also cannot account for the heterogeneity. Of the possibilities considered, the most plausible explanation is the direct emission from the forest of 2-methyltetrols produced through biological processes within the plants. Under this explanation, the rate of direct SV-OVOC emissions should be modulated by forest type and related environmental stressors. Direct emissions of SV-OVOCs should be more broadly considered for constraining and improving models of atmospheric composition, transport, and chemistry over tropical forests.

Published
2021

23. Intermediate-scale horizontal isoprene concentrations in the near-canopy forest atmosphere and implications for emission heterogeneity

Author

Batista, Carla E, Ye, Jianhuai, Ribeiro, Igor O, Guimarães, Patricia C, Medeiros, Adan SS, Barbosa, Rafael G, Oliveira, Rafael L, Duvoisin, Sergio, Jardine, Kolby J, Gu, Dasa, Guenther, Alex B, McKinney, Karena A, Martins, Leila D, Souza, Rodrigo AF, and Martin, Scot T

Subjects
Earth Sciences, Atmospheric Sciences, Environmental Sciences, Climate Action, Atmosphere, Brazil, Butadienes, Forests, Hemiterpenes, Seasons, Trees, Volatile Organic Compounds, isoprene emissions, landscape heterogeneity, intermediate horizontal scales, Amazon tropical forest, UAV measurements
Abstract

The emissions, deposition, and chemistry of volatile organic compounds (VOCs) are thought to be influenced by underlying landscape heterogeneity at intermediate horizontal scales of several hundred meters across different forest subtypes within a tropical forest. Quantitative observations and scientific understanding at these scales, however, remain lacking, in large part due to a historical absence of canopy access and suitable observational approaches. Herein, horizontal heterogeneity in VOC concentrations in the near-canopy atmosphere was examined by sampling from an unmanned aerial vehicle (UAV) flown horizontally several hundred meters over the plateau and slope forests in central Amazonia during the morning and early afternoon periods of the wet season of 2018. Unlike terpene concentrations, the isoprene concentrations in the near-canopy atmosphere over the plateau forest were 60% greater than those over the slope forest. A gradient transport model constrained by the data suggests that isoprene emissions differed by 220 to 330% from these forest subtypes, which is in contrast to a 0% difference implemented in most present-day biosphere emissions models (i.e., homogeneous emissions). Quantifying VOC concentrations, emissions, and other processes at intermediate horizontal scales is essential for understanding the ecological and Earth system roles of VOCs and representing them in climate and air quality models.

Published
2019

25. Determination of the electrochemically active surface area by CO and hydrogen of PtSnRuTa/C-based electrocatalysts and their relationship with catalytic activity against alcohol oxidation

Author

Queiroz, Maria Aparecida Ribeiro, Vasconcellos, Maria de Lourdes Soprani, Ribeiro, Marcos Antônio, Luz, Priscila Paiva, de Moura Souza, Felipe, dos Santos, Mauro Coelho, Guimarães, Marco C. C., Salgado, José Ricardo Cezar, Pedicini, Rolando, and Ribeiro, Josimar

Published
2022
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32. Initial experience in the microsurgical treatment of ruptured brain aneurysms in the endovascular era: characteristics and safety of the learning curve in the first 300 consecutively treated patients

Author

Vieira, Eduardo, Guimarães, Thiago C., Pontes, Erton C. A., Silva, Ana C. V., Carneiro, Marcelle C., Netto, Arlindo U., Pereira, Lívio, Cezar, Jr., Auricélio B., Faquini, Igor, Almeida, Nivaldo S., Griz, Maria F. L., and Azevedo-Filho, Hildo R. C.

Published
2022
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34. Biodiversity and Climate Extremes: Known Interactions and Research Gaps

Author

Mahecha, M. D., primary, Bastos, A., additional, Bohn, F. J., additional, Eisenhauer, N., additional, Feilhauer, H., additional, Hickler, T., additional, Kalesse‐Los, H., additional, Migliavacca, M., additional, Otto, F. E. L., additional, Peng, J., additional, Sippel, S., additional, Tegen, I., additional, Weigelt, A., additional, Wendisch, M., additional, Wirth, C., additional, Al‐Halbouni, D., additional, Deneke, H., additional, Doktor, D., additional, Dunker, S., additional, Duveiller, G., additional, Ehrlich, A., additional, Foth, A., additional, García‐García, A., additional, Guerra, C. A., additional, Guimarães‐Steinicke, C., additional, Hartmann, H., additional, Henning, S., additional, Herrmann, H., additional, Hu, P., additional, Ji, C., additional, Kattenborn, T., additional, Kolleck, N., additional, Kretschmer, M., additional, Kühn, I., additional, Luttkus, M. L., additional, Maahn, M., additional, Mönks, M., additional, Mora, K., additional, Pöhlker, M., additional, Reichstein, M., additional, Rüger, N., additional, Sánchez‐Parra, B., additional, Schäfer, M., additional, Stratmann, F., additional, Tesche, M., additional, Wehner, B., additional, Wieneke, S., additional, Winkler, A. J., additional, Wolf, S., additional, Zaehle, S., additional, Zscheischler, J., additional, and Quaas, J., additional

Published
2024
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39. ABC2-SPH risk score for in-hospital mortality in COVID-19 patients: development, external validation and comparison with other available scores

Author

Marcolino, Milena S., Pires, Magda C., Ramos, Lucas Emanuel F., Silva, Rafael T., Oliveira, Luana M., Carvalho, Rafael L.R., Mourato, Rodolfo Lucas S., Sánchez-Montalvá, Adrián, Raventós, Berta, Anschau, Fernando, Chatkin, José Miguel, Nogueira, Matheus C.A., Guimarães-Júnior, Milton H., Vietta, Giovanna G., Duani, Helena, Ponce, Daniela, Ziegelmann, Patricia K., Castro, Luís C., Ruschel, Karen B., Cimini, Christiane C.R., Francisco, Saionara C., Floriani, Maiara A., Nascimento, Guilherme F., Farace, Bárbara L., Monteiro, Luanna S., Souza-Silva, Maira V.R., Sales, Thais L.S., Martins, Karina Paula M.P., Borges do Nascimento, Israel J., Fereguetti, Tatiani O., Ferrara, Daniel T.M.O., Botoni, Fernando A., Etges, Ana Paula B.S., Schwarzbold, Alexandre V., Maurílio, Amanda O., Scotton, Ana Luiza B.A., Weber, André P., Costa, André S.M., Glaeser, Andressa B., Madureira, Angélica Aparecida C., Bhering, Angelinda R., de Castro, Bruno Mateus, da Silva, Carla Thais C.A., Ramos, Carolina M., Gomes, Caroline D., de Carvalho, Cíntia A., Silveira, Daniel V., Cezar, Edilson, Pereira, Elayne C., Kroger, Emanuele Marianne S., Vallt, Felipe B., Lucas, Fernanda B., Aranha, Fernando G., Bartolazzi, Frederico, Crestani, Gabriela P., Bastos, Gisele A.N., Madeira, Glícia Cristina de C., Noal, Helena Carolina, Vianna, Heloisa R., Guimarães, Henrique C., Gomes, Isabela M., Molina, Israel, Batista, Joanna d'Arc L., de Alvarenga, Joice C., Guimarães, Júlia D.S.S., de Morais, Júlia D.P., Rugolo, Juliana M., Pontes, Karen Cristina J.R., dos Santos, Kauane Aline M., de Oliveira, Leonardo S., Pinheiro, Lílian S., Pacheco, Liliane S., Sousa, Lucas de D., Couto, Luciana S.F., Kopittke, Luciane, de Moura, Luis Cesar S., Santos, Luisa Elem A., Cabral, Máderson A.S., Souza, Maíra D., Tofani, Marcela G.T., Carneiro, Marcelo, Ferreira, Maria Angélica P., Bicalho, Maria Aparecida C., Lima, Maria Clara P.B., Godoy, Mariana F., Cardoso, Marilia M.A., Figueiredo, Meire P., Sampaio, Natália C.S., Rangel, Natália L., Crespo, Natália T., de Oliveira, Neimy R., Assaf, Pedro L., Martelli, Petrônio José de L., Almeida, Rafaela S.C., Martins, Raphael C., Lutkmeier, Raquel, Valacio, Reginaldo Aparecido, Finger, Renan G., Cardoso, Ricardo B., Pozza, Roberta, Campos, Roberta X., Menezes, Rochele M., de Abreu, Roger M., Silva, Rufino de F., Guimarães, Silvana M.M., Araújo, Silvia F., Pereira, Susany Anastácia, Oliveira, Talita F., Kurtz, Tatiana, de Oliveira, Thainara C., Araújo, Thaíza Simônia M.A., Diniz, Thulio Henrique O., dos Santos, Veridiana B., Gomes, Virginia Mara R., do Vale, Vitor Augusto L., Ramires, Yuri C., Boersma, Eric, and Polanczyk, Carisi A.

Published
2021
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40. Genomic analysis of four strains of Corynebacterium pseudotuberculosis bv. Equi isolated from horses showing distinct signs of infection

Author

Baraúna, Rafael A, Ramos, Rommel TJ, Veras, Adonney AO, de Sá, Pablo HCG, Guimarães, Luís C, das Graças, Diego A, Carneiro, Adriana R, Edman, Judy M, Spier, Sharon J, Azevedo, Vasco, and Silva, Artur

Subjects
Microbiology, Biological Sciences, Genetics, Infectious Diseases, Human Genome, Infection, C. pseudotuberculosis, Biovar equi, Ulcerative lymphangitis, Horse, Genomic, Biochemistry and Cell Biology
Abstract

The genomes of four strains (MB11, MB14, MB30, and MB66) of the species Corynebacterium pseudotuberculosis biovar equi were sequenced on the Ion Torrent PGM platform, completely assembled, and their gene content and structure were analyzed. The strains were isolated from horses with distinct signs of infection, including ulcerative lymphangitis, external abscesses on the chest, or internal abscesses on the liver, kidneys, and lungs. The average size of the genomes was 2.3 Mbp, with 2169 (Strain MB11) to 2235 (Strain MB14) predicted coding sequences (CDSs). An optical map of the MB11 strain generated using the KpnI restriction enzyme showed that the approach used to assemble the genome was satisfactory, producing good alignment between the sequence observed in vitro and that obtained in silico. In the resulting Neighbor-Joining dendrogram, the C. pseudotuberculosis strains sequenced in this study were clustered into a single clade supported by a high bootstrap value. The structural analysis showed that the genomes of the MB11 and MB14 strains were very similar, while the MB30 and MB66 strains had several inverted regions. The observed genomic characteristics were similar to those described for other strains of the same species, despite the number of inversions found. These genomes will serve as a basis for determining the relationship between the genotype of the pathogen and the type of infection that it causes.

Published
2017

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