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1. Balancing trade-offs for sustainable water resources management: reconciling climate change, hydropower, and environmental flows in the Central Sierra Nevada, California

Author

Facincani Dourado, Gustavo

Subjects
Water resources management, Hydrologic sciences, Environmental engineering, climate adaptation, climate warming, linear programming, renewable energy, San Joaquin River, water management
Abstract

Decisions on water allocation to humans and the environment depend on physical engineering structures, various operations and allocation policies, supplies, and demands of numerous end-users. Different assumptions of current and future scenarios can anticipate decisions that best meet human and environmental objectives, under different stressors (e.g., climate change, increased demands). Environmental water allocation especially presents intricate challenges, given the interplay of various regulations and the complexities of managing water resources across different regions. Therefore, the goal of this collection of studies is to provide new insights on reservoir operations, hydropower generation and water management in the Central Sierra Nevada, California, aiming to balance human demands, while achieving greater environmental benefits. This work involves the use of a novel method for water-power modeling with a specific application to the Central Sierra Nevada, California introduced in Chapter 1, and used in Chapters 2 and 4. The modeling framework includes more detailed and facility-specific information to provide a more comprehensive and finer temporal resolution (daily time-step) of water allocation decisions than those found in most modeling efforts. This is a potentially crucial method for modeling water management, due to the reconciliation of water and power systems through the integration of hydroeconomic needs (e.g., hydropower operations) and rule-based simulation (e.g., instream flow requirements), which is one of the biggest challenges in modeling water systems. Better representation of real-world systems is essential to address the difficulties in water management and to analyze solutions. These models are made available for use in a broad range of scenario analyses, including different hydrological inputs (historical and future climates), electricity prices, and a variety of management objectives.Chapter 2 delves into the nuanced landscape of environmental flow (e-flows) requirements, primarily anchored on water year types (WYTs), to understand the efficacy and adaptability of current strategies. Through an extensive examination of pertinent hydropower licensing documents, the research identifies a lack of standardized adoption of WYTs in many river reaches, manifesting as minimal variation across different year types and limited seasonal fluctuations. Incorporating climate change projections from multiple Global Circulations Models, the study reveals significant variability in WYT distributions under existing management strategies. This variability has led to inconsistencies in e-flow management, exacerbating potential conflicts among stakeholders. To address these challenges, an adaptive strategy is proposed, employing a method to recalibrate WYT thresholds, aiming to bolster the reliability and resilience of e-flows. As a result, Chapter 3 critically analyzes the systemic barriers hindering the effective implementation of e-flows. A comprehensive systematic review and bibliometric analysis were conducted, yielding insights into the major impediments such as competing priorities of human water uses, data deficiencies, and resource and capacity limitations. To enhance the successful implementation of e-flows, the dissertation recommends a system analysis approach, utilizing modeling tools to navigate competing demands and foster holistic flow allocations based on hydroecological principles. In turn, Chapter 4 evaluates the resilience of water systems and hydropower against climate whiplash. Through 200 synthetic hydrologic sequences of different lengths of dry-wet-dry combinations, the research underscores the vulnerability of water storage and the implications for water resource management, offering policy suggestions to enhance system flexibility and resilience against climatic shocks. Finally, Chapter 5 concludes by providing policy insights and recommendations based on these studies to help inform stakeholders and decision-makers in the search for sustainable solutions to water management problems.

Published
2024

2. Novel insights into the genomic basis of citrus canker based on the genome sequences of two strains of Xanthomonas fuscans subsp. aurantifolii

Author

Moreira, Leandro M, Almeida, Nalvo F, Potnis, Neha, Digiampietri, Luciano A, Adi, Said S, Bortolossi, Julio C, da Silva, Ana C, da Silva, Aline M, de Moraes, Fabrício E, de Oliveira, Julio C, de Souza, Robson F, Facincani, Agda P, Ferraz, André L, Ferro, Maria I, Furlan, Luiz R, Gimenez, Daniele F, Jones, Jeffrey B, Kitajima, Elliot W, Laia, Marcelo L, Leite, Rui P, Nishiyama, Milton Y, Rodrigues Neto, Julio, Nociti, Letícia A, Norman, David J, Ostroski, Eric H, Pereira, Haroldo A, Staskawicz, Brian J, Tezza, Renata I, Ferro, Jesus A, Vinatzer, Boris A, and Setubal, João C

Abstract

Abstract Background Citrus canker is a disease that has severe economic impact on the citrus industry worldwide. There are three types of canker, called A, B, and C. The three types have different phenotypes and affect different citrus species. The causative agent for type A is Xanthomonas citri subsp. citri, whose genome sequence was made available in 2002. Xanthomonas fuscans subsp. aurantifolii strain B causes canker B and Xanthomonas fuscans subsp. aurantifolii strain C causes canker C. Results We have sequenced the genomes of strains B and C to draft status. We have compared their genomic content to X. citri subsp. citri and to other Xanthomonas genomes, with special emphasis on type III secreted effector repertoires. In addition to pthA, already known to be present in all three citrus canker strains, two additional effector genes, xopE3 and xopAI, are also present in all three strains and are both located on the same putative genomic island. These two effector genes, along with one other effector-like gene in the same region, are thus good candidates for being pathogenicity factors on citrus. Numerous gene content differences also exist between the three cankers strains, which can be correlated with their different virulence and host range. Particular attention was placed on the analysis of genes involved in biofilm formation and quorum sensing, type IV secretion, flagellum synthesis and motility, lipopolysacharide synthesis, and on the gene xacPNP, which codes for a natriuretic protein. Conclusion We have uncovered numerous commonalities and differences in gene content between the genomes of the pathogenic agents causing citrus canker A, B, and C and other Xanthomonas genomes. Molecular genetics can now be employed to determine the role of these genes in plant-microbe interactions. The gained knowledge will be instrumental for improving citrus canker control.

Published
2010

6. The genome sequence of the plant pathogen Xylella fastidiosa

Author

Simpson, A. J. G., Reinach, F.C., Arruda, P., Abreu, F. A., Acencio, M., Alvarenga, R., Alves, L. M. C., Araya, J. E., Baia, G. S., Baptista, C. S., Barros, M. H., Bonaccorsi, E. D., Bordin, S., Bové, J. M., Briones, M. R. S., Bueno, M. R. P., Camargo, A. A., Camargo, L. E. A., Carraro, D. M., Carrer, H., Colauto, N. B., Colombo, C., Costa, F. F., Costa, M. C. R., Costa-Neto, C. M., Coutinho, L. L., Cristofani, M., Dias-Neto, E., Docena, C., El-Dorry, H., Facincani, A. P., Ferreira, A. J. S., Ferreira, V. C. A., Ferro, J. A., Fraga, J. S., França, S. C., Franco, M. C., Frohme, M., Furlan, L. R., Garnier, M., Goldman, G. H., Goldman, M. H. S., Gomes, S. L., Gruber, A., Ho, P. L., Hoheisel, J. D., Junqueira, M. L., Kemper, E. L., Kitajima, J.P., Krieger, J. E., Kuramae, E. E., Laigret, F., Lambais, M. R., Leite, L. C. C., Lemos, E. G. M., Lemos, M. V. F., Lopes, S. A., Lopes, C. R., Machado, J. A., Machado, M. A., Madeira, A. M. B. N., Madeira, H. M. F., Marino, C. L., Marques, M. V., Martins, E. A. L., Martins, E. M. F., Matsukuma, A. Y., Menck, C. F. M., Miracca, E. C., Miyaki, C. Y., Monteiro-Vitorello, C. B., Moon, D. H., Nagai, M. A., Nascimento, A. L. T. O., Netto, L. E. S., Nhani, Jr, A., Nobrega, F. G., Nunes, L. R., Oliveira, M. A., de Oliveira, M. C., de Oliveira, R. C., Palmieri, D. A., Paris, A., Peixoto, B. R., Pereira, G. A. G., Pereira, Jr, H. A., Pesquero, J. B., Quaggio, R. B., Roberto, P. G., Rodrigues, V., de M. Rosa, A. J., de Rosa, Jr, V. E., de Sá, R. G., Santelli, R. V., Sawasaki, H. E., da Silva, A. C. R., da Silva, A. M., da Silva, F. R., Silva, W. A., da Silveira, J. F., Silvestri, M. L. Z., Siqueira, W. J., de Souza, A. A., de Souza, A. P., Terenzi, M. F., Truffi, D., Tsai, S. M., Tsuhako, M. H., Vallada, H., Van Sluys, M. A., Verjovski-Almeida, S., Vettore, A. L., Zago, M. A., Zatz, M., Meidanis, J., and Setubal, J. C.

Published
2000
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8. Origin and diversification of Xanthomonas citri subsp. citri pathotypes revealed by inclusive phylogenomic, dating, and biogeographic analyses

Author

Patané, José S. L., Martins, Joaquim, Rangel, Luiz T., Belasque, José, Digiampietri, Luciano A., Facincani, Agda P., Ferreira, Rafael M., Jaciani, Fabrício J., Zhang, Yunzeng, Varani, Alessandro M., Almeida, Nalvo F., Wang, Nian, Ferro, Jesus A., Moreira, Leandro M., and Setubal, João C.

Subjects
stomatognathic system
Abstract

Background Xanthomonas citri subsp. citri pathotypes cause bacterial citrus canker, being responsible for severe agricultural losses worldwide. The A pathotype has a broad host spectrum, while A* and Aw are more restricted both in hosts and in geography. Two previous phylogenomic studies led to contrasting well-supported clades for sequenced genomes of these pathotypes. No extensive biogeographical or divergence dating analytic approaches have been so far applied to available genomes. Results Based on a larger sampling of genomes than in previous studies (including six new genomes sequenced by our group, adding to a total of 95 genomes), phylogenomic analyses resulted in different resolutions, though overall indicating that A + AW is the most likely true clade. Our results suggest the high degree of recombination at some branches and the fast diversification of lineages are probable causes for this phylogenetic blurring effect. One of the genomes analyzed, X. campestris pv. durantae, was shown to be an A* strain; this strain has been reported to infect a plant of the family Verbenaceae, though there are no reports of any X. citri subsp. citri pathotypes infecting any plant outside the Citrus genus. Host reconstruction indicated the pathotype ancestor likely had plant hosts in the family Fabaceae, implying an ancient jump to the current Rutaceae hosts. Extensive dating analyses indicated that the origin of X. citri subsp. citri occurred more recently than the main phylogenetic splits of Citrus plants, suggesting dispersion rather than host-directed vicariance as the main driver of geographic expansion. An analysis of 120 pathogenic-related genes revealed pathotype-associated patterns of presence/absence. Conclusions Our results provide novel insights into the evolutionary history of X. citri subsp. citri as well as a sound phylogenetic foundation for future evolutionary and genomic studies of its pathotypes. Published version

Published
2019

9. Proteome of the phytopathogen Xanthomonas citri subsp. citri: a global expression profile

Author

Ferro Jesus A, de Oliveira Julio CF, Moreira Leandro M, Ferreira Rafael M, Facincani Agda P, Soares Márcia R, Ferro Maria IT, Meneghini Rogério, and Gozzo Fábio C

Subjects
Cytology, QH573-671
Abstract

Abstract Background Citrus canker is a disease caused by Xantomonas citri subsp.citri (Xac), and has emerged as one of the major threats to the worldwide citrus crop because it affects all commercial citrus varieties, decreases the production and quality of the fruits and can spread rapidly in citrus growing areas. In this work, the first proteome of Xac was analyzed using two methodologies, two-dimensional liquid chromatography (2D LC) and tandem mass spectrometry (MS/MS). Results In order to gain insight into the metabolism of Xac, cells were grown on two different media (NB - Nutrient Broth and TSE - Tryptone Sucrose broth enriched with glutamic acid), and proteins were proteolyzed with trypsin and examined by 2D LC-MS/MS. Approximately 39% of all predicted proteins by annotation of Xac were identified with their component peptides unambiguously assigned to tandem mass spectra. The proteins, about 1,100, were distributed in all annotated functional categories. Conclusions This is the first proteomic reference map for the most aggressive strain of Xanthomonas pathogen of all orange varieties. The compilation of metabolic pathways involved with bacterial growth showed that Xac expresses a complete central and intermediary metabolism, replication, transcription and translation machineries and regulation factors, distinct membrane transporters (ABC, MFS and pumps) and receptors (MCP, TonB dependent and metabolites acquisition), two-component systems (sensor and regulatory components) and response regulators. These data corroborate the growth curve in vitro and are the first reports indicating that many of these genome annotated genes are translated into operative in Xac. This proteomic analysis also provided information regarding the influence of culture medium on growth and protein expression of Xac.

Published
2010
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10. Novel insights into the genomic basis of citrus canker based on the genome sequences of two strains of Xanthomonas fuscans subsp. aurantifolii

Author

Nociti Letícia A, Rodrigues Neto Julio, Leite Rui P, Nishiyama Milton Y, Laia Marcelo L, Kitajima Elliot W, Jones Jeffrey B, Gimenez Daniele F, Furlan Luiz R, Ferro Maria I, Ferraz André L, Facincani Agda P, de Souza Robson F, de Oliveira Julio C, de Moraes Fabrício E, da Silva Aline M, da Silva Ana C, Bortolossi Julio C, Adi Said S, Digiampietri Luciano A, Potnis Neha, Almeida Nalvo F, Moreira Leandro M, Norman David J, Ostroski Eric H, Pereira Haroldo A, Staskawicz Brian J, Tezza Renata I, Ferro Jesus A, Vinatzer Boris A, and Setubal João C

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Citrus canker is a disease that has severe economic impact on the citrus industry worldwide. There are three types of canker, called A, B, and C. The three types have different phenotypes and affect different citrus species. The causative agent for type A is Xanthomonas citri subsp. citri, whose genome sequence was made available in 2002. Xanthomonas fuscans subsp. aurantifolii strain B causes canker B and Xanthomonas fuscans subsp. aurantifolii strain C causes canker C. Results We have sequenced the genomes of strains B and C to draft status. We have compared their genomic content to X. citri subsp. citri and to other Xanthomonas genomes, with special emphasis on type III secreted effector repertoires. In addition to pthA, already known to be present in all three citrus canker strains, two additional effector genes, xopE3 and xopAI, are also present in all three strains and are both located on the same putative genomic island. These two effector genes, along with one other effector-like gene in the same region, are thus good candidates for being pathogenicity factors on citrus. Numerous gene content differences also exist between the three cankers strains, which can be correlated with their different virulence and host range. Particular attention was placed on the analysis of genes involved in biofilm formation and quorum sensing, type IV secretion, flagellum synthesis and motility, lipopolysacharide synthesis, and on the gene xacPNP, which codes for a natriuretic protein. Conclusion We have uncovered numerous commonalities and differences in gene content between the genomes of the pathogenic agents causing citrus canker A, B, and C and other Xanthomonas genomes. Molecular genetics can now be employed to determine the role of these genes in plant-microbe interactions. The gained knowledge will be instrumental for improving citrus canker control.

Published
2010
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11. Stress Testing California's Hydroclimatic Whiplash: Potential Challenges, Trade‐Offs and Adaptations in Water Management and Hydropower Generation

Author

Facincani Dourado, Gustavo, Rheinheimer, David E., Abaztoglou, John T., and Viers, Joshua H.

Abstract

Inter‐annual precipitation in California is highly variable, and future projections indicate an increase in the intensity and frequency of hydroclimatic “whiplash.” Understanding the implications of these shocks on California's water system and its degree of resiliency is critical from a planning perspective. Therefore, we quantify the resilience of reservoir services provided by water and hydropower systems in four basins in the western Sierra Nevada. Using downscaled runoff from 10 climate model outputs, we generated 200 synthetic hydrologic whiplash sequences of alternating dry and wet years to represent a wide range of extremes and transitional conditions used as inputs to a water system simulation model. Sequences were derived from upper (wet) and lower (dry) quintiles of future streamflow projections (2030–2060). Results show that carryover storage was negatively affected in all basins, particularly in those with lower storage capacity. All basins experienced negative impacts on hydropower generation, with losses ranging from 5% to nearly 90%. Reservoir sizes and inflexible operating rules are a particular challenge for flood control, as in extremely wet years spillage averaged nearly the annual basins' total discharge. The reliability of environmental flows and agricultural deliveries varied depending on the basin, intensity, and duration of whiplash sequences. Overall, wet years temporarily rebound negative drought effects, and greater storage capacity results in higher reliability and resiliency, and lesser volatility in services. We highlight potential policy changes to improve flexibility, increase resilience, and better equip managers to face challenges posed by whiplash while meeting human and environmental needs. Inter‐annual precipitation is naturally highly variable in California, and future projections indicate an increase in the intensity and frequency of hydroclimatic “whiplash.” This study investigates the potential impacts of these hydroclimatic events to comprehend their implications on California's water system and its level of resilience, which holds critical importance from a planning perspective. We focus on four basins in the western Sierra Nevada, to quantify the resilience of reservoir services provided by the water and hydropower systems in the region. Using downscaled runoff data from 10 climate models, we generated 200 synthetic hydrologic whiplash sequences to represent combinations of extreme wet and dry conditions. Results show that all basins experienced negative effects on carryover storage, with losses ranging from 5% to nearly 90%, consequently decreasing hydropower generation. Flood control is challenged during extremely wet years due to reservoir sizes and operating rules. The reliability of environmental flows and agricultural deliveries varied across basins and whiplash sequences. Wet years tend to mitigate negative drought effects temporarily, and greater storage capacity improved the reliability and resilience of services. We highlight the need for potential policy changes to enhance flexibility and resilience, and equip managers to face challenges posed by whiplash. Wet years can temporarily rebound negative drought effects, although challenging flood control due to reservoir sizes and operating rules.Environmental flows and agricultural deliveries oscillated depending on the basin, intensity, and duration of whiplash sequences.Greater storage capacity generally provided greater reliability and resiliency, and lesser volatility in water and power services. Wet years can temporarily rebound negative drought effects, although challenging flood control due to reservoir sizes and operating rules. Environmental flows and agricultural deliveries oscillated depending on the basin, intensity, and duration of whiplash sequences. Greater storage capacity generally provided greater reliability and resiliency, and lesser volatility in water and power services.

Published
2024
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12. Proteomics-based identification of differentially abundant proteins reveals adaptation mechanisms of Xanthomonas citri subsp. citri during Citrus sinensis infection

Author

Moreira, Leandro M., primary, Soares, Márcia R., additional, Facincani, Agda P., additional, Ferreira, Cristiano B., additional, Ferreira, Rafael M., additional, Ferro, Maria I. T., additional, Gozzo, Fábio C., additional, Felestrino, Érica B., additional, Assis, Renata A. B., additional, Garcia, Camila Carrião M., additional, Setubal, João C., additional, Ferro, Jesus A., additional, and de Oliveira, Julio C.F., additional

Published
2017
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13. Curcuma longaL. (turmeric) as adjuvant therapy in childhood idiopathic nephrotic syndrome: A double-blind, randomized, placebo-controlled clinical trial

Author

Machado, Ivan Coelho, Facincani, Inalda, Aragon, Davi Casale, da Silva Coppede, Juliana, Pereira, Ana Maria Soares, and Carmona, Fabio

Abstract

Treating childhood idiopathic nephrotic syndrome (CINS) with steroids can cause significant side effects. Curcuma longaL. (turmeric, Zingiberaceae) has anti-inflammatory activity and may decrease the need for steroid use.

Published
2024
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14. Novel insights into the genomic basis of citrus canker based on the genome sequences of two strains of Xanthomonas fuscans subsp aurantifolii

Author

Moreira, Leandro M., Almeida, Nalvo F., Potnis, Neha, Digiampietri, Luciano A., Adi, Said S., Bortolossi, Julio C., da Silva, Ana C., da Silva, Aline M., de Moraes, Fabrício E., de Oliveira, Julio C., de Souza, Robson F., Facincani, Agda P., Ferraz, André L., Ferro, Maria I., Furlan, Luiz R., Gimenez, Daniele F., Jones, Jeffrey B., Kitajima, Elliot W., Laia, Marcelo L., Leite, Rui P., Jr, Nishiyama, Milton Y., Rodrigues Neto, Julio, Nociti, Letícia A., Norman, David J., Ostroski, Eric H., Pereira, Haroldo A. Jr., Staskawicz, Brian J., Tezza, Renata I., Ferro, Jesus A., Vinatzer, Boris A., Setubal, João C., Computer Science, Fralin Life Sciences Institute, and School of Plant and Environmental Sciences

Subjects
Genetics & Heredity, PATHOGEN RALSTONIA-SOLANACEARUM, AXONOPODIS PV.-CITRI, Biotechnology & Applied Microbiology, ESCHERICHIA-COLI, AFFECT TWITCHING MOTILITY, SPIROPLASMA-CITRI, food and beverages, PLANT PATHOGEN, III EFFECTORS, XYLELLA-FASTIDIOSA, AGROBACTERIUM-TUMEFACIENS C58, IV SECRETION SYSTEMS
Abstract

Background Citrus canker is a disease that has severe economic impact on the citrus industry worldwide. There are three types of canker, called A, B, and C. The three types have different phenotypes and affect different citrus species. The causative agent for type A is Xanthomonas citri subsp. citri, whose genome sequence was made available in 2002. Xanthomonas fuscans subsp. aurantifolii strain B causes canker B and Xanthomonas fuscans subsp. aurantifolii strain C causes canker C. Results We have sequenced the genomes of strains B and C to draft status. We have compared their genomic content to X. citri subsp. citri and to other Xanthomonas genomes, with special emphasis on type III secreted effector repertoires. In addition to pthA, already known to be present in all three citrus canker strains, two additional effector genes, xopE3 and xopAI, are also present in all three strains and are both located on the same putative genomic island. These two effector genes, along with one other effector-like gene in the same region, are thus good candidates for being pathogenicity factors on citrus. Numerous gene content differences also exist between the three cankers strains, which can be correlated with their different virulence and host range. Particular attention was placed on the analysis of genes involved in biofilm formation and quorum sensing, type IV secretion, flagellum synthesis and motility, lipopolysacharide synthesis, and on the gene xacPNP, which codes for a natriuretic protein. Conclusion We have uncovered numerous commonalities and differences in gene content between the genomes of the pathogenic agents causing citrus canker A, B, and C and other Xanthomonas genomes. Molecular genetics can now be employed to determine the role of these genes in plant-microbe interactions. The gained knowledge will be instrumental for improving citrus canker control. Published version

Published
2010

15. Prospective cohort analyzing risk factors for chronic kidney disease progression in children

Author

Belangero, Vera M.S., Prates, Liliane C., Watanabe, Andreia, Schvartsman, Benita S.G., Nussenzveig, Paula, Cruz, Natalia A., Abreu, Ana L.S., Paz, Isabel P., Facincani, Inalda, Morgantetti, Fernanda E.C., Silva, Andreia O., Andrade, Olberes V.B., Camargo, Maria F.C., and Nogueira, Paulo C. Koch

Abstract

To identify risk factors for chronic kidney disease progression in Brazilian children and to evaluate the interactions between factors.

Published
2018
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16. Novel insights into the genomic basis of citrus canker based on the genome sequences of two strains of Xanthomonas fuscans subsp aurantifolii

Author

Computer Science, Fralin Life Sciences Institute, School of Plant and Environmental Sciences, Moreira, Leandro M., Almeida, Nalvo F., Potnis, Neha, Digiampietri, Luciano A., Adi, Said S., Bortolossi, Julio C., da Silva, Ana C., da Silva, Aline M., de Moraes, Fabrício E., de Oliveira, Julio C., de Souza, Robson F., Facincani, Agda P., Ferraz, André L., Ferro, Maria I., Furlan, Luiz R., Gimenez, Daniele F., Jones, Jeffrey B., Kitajima, Elliot W., Laia, Marcelo L., Leite, Rui P., Jr, Nishiyama, Milton Y., Rodrigues Neto, Julio, Nociti, Letícia A., Norman, David J., Ostroski, Eric H., Pereira, Haroldo A. Jr., Staskawicz, Brian J., Tezza, Renata I., Ferro, Jesus A., Vinatzer, Boris A., Setubal, João C., Computer Science, Fralin Life Sciences Institute, School of Plant and Environmental Sciences, Moreira, Leandro M., Almeida, Nalvo F., Potnis, Neha, Digiampietri, Luciano A., Adi, Said S., Bortolossi, Julio C., da Silva, Ana C., da Silva, Aline M., de Moraes, Fabrício E., de Oliveira, Julio C., de Souza, Robson F., Facincani, Agda P., Ferraz, André L., Ferro, Maria I., Furlan, Luiz R., Gimenez, Daniele F., Jones, Jeffrey B., Kitajima, Elliot W., Laia, Marcelo L., Leite, Rui P., Jr, Nishiyama, Milton Y., Rodrigues Neto, Julio, Nociti, Letícia A., Norman, David J., Ostroski, Eric H., Pereira, Haroldo A. Jr., Staskawicz, Brian J., Tezza, Renata I., Ferro, Jesus A., Vinatzer, Boris A., and Setubal, João C.

Abstract

Background Citrus canker is a disease that has severe economic impact on the citrus industry worldwide. There are three types of canker, called A, B, and C. The three types have different phenotypes and affect different citrus species. The causative agent for type A is Xanthomonas citri subsp. citri, whose genome sequence was made available in 2002. Xanthomonas fuscans subsp. aurantifolii strain B causes canker B and Xanthomonas fuscans subsp. aurantifolii strain C causes canker C. Results We have sequenced the genomes of strains B and C to draft status. We have compared their genomic content to X. citri subsp. citri and to other Xanthomonas genomes, with special emphasis on type III secreted effector repertoires. In addition to pthA, already known to be present in all three citrus canker strains, two additional effector genes, xopE3 and xopAI, are also present in all three strains and are both located on the same putative genomic island. These two effector genes, along with one other effector-like gene in the same region, are thus good candidates for being pathogenicity factors on citrus. Numerous gene content differences also exist between the three cankers strains, which can be correlated with their different virulence and host range. Particular attention was placed on the analysis of genes involved in biofilm formation and quorum sensing, type IV secretion, flagellum synthesis and motility, lipopolysacharide synthesis, and on the gene xacPNP, which codes for a natriuretic protein. Conclusion We have uncovered numerous commonalities and differences in gene content between the genomes of the pathogenic agents causing citrus canker A, B, and C and other Xanthomonas genomes. Molecular genetics can now be employed to determine the role of these genes in plant-microbe interactions. The gained knowledge will be instrumental for improving citrus canker control.

Published
2010

17. Comparative proteomic analysis reveals that T3SS, Tfp, and xanthan gum are key factors in initial stages of Citrus sinensis infection by Xanthomonas citri subsp. citri

Author

Facincani, Agda P., primary, Moreira, Leandro M., additional, Soares, Márcia R., additional, Ferreira, Cristiano B., additional, Ferreira, Rafael M., additional, Ferro, Maria I. T., additional, Ferro, Jesus A., additional, Gozzo, Fabio C., additional, and de Oliveira, Julio C. F., additional

Published
2013
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19. AVALIAÇÃO DA COMPOSIÇÃO CORPORAL E DO CONSUMO ALIMENTAR DE NADADORES ADOLESCENTES.

Author

de Mello, Aline Veroneze, Facincani Villarim, Walleska Luctke, Machado, Alisson Diego, Olivon, Edilene Vitorino, da Cruz, Daniele Lima, Nogueira, Luana Romão, and Nacif, Marcia

Abstract

Copyright of Revista Brasileira de Medicina do Esporte is the property of Redprint Editora Ltda. and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Published
2015
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20. Caracterização biométrica e acúmulo de nutrientes em porta-enxertos de caramboleira cultivada em solução nutritiva.

Author

Rozane, Danilo Eduardo, de Mello Prado, Renato, Natale, William, Romualdo, Liliane Maria, and Franco, Claudenir Facincani

Abstract

Copyright of Revista Ciência Agronômica is the property of Revista Ciencia Agronomica and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Published
2013
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21. Prevalence and Nutritional Status of Infants With Cystic Fibrosis and Pseudo-Bartter Syndrome During the First Year of Life

Author

Del Ciampo, Ieda, Martins, Natalia, Sawamura, Regina, Facincani, Inalda, Del Ciampo, Luiz, and Fernandes, Maria

Abstract

Background. Cystic fibrosis (CF) is an autosomal recessive disease more commonly occurring among Caucasians. An electrolyte derangement, pseudo-Bartter syndrome (PBS) is a complication leading to failure to thrive. Objectives. To describe the prevalence of PBS and related nutritional status in infants with CF detected after a newborn screening test who were treated in a Brazilian town with a very warm climate. Methods. This was a retrospective study with data collected from medical records. The diagnosis of PBS was based on hypokalemia (K+< 3.5 mEq/L), hyponatremia (Na++< 135 mEq/L), low urinary sodium (Na++< 20 mEq/L), and metabolic alkalosis (pH > 7.45; bicarbonate >28 mEq/L). The anthropometric data assessed were weight and length at the following: birth, diagnosis of CF, diagnosis of PBS, and discharge from hospital after correction of PBS and at 12 months of age. The nutritional indicators were weight/height, weight/age, length/age, and body mass index/age ratios. The cutoff point was z-score < p −2 (World Health Organization reference). Data were analyzed using the Anthro (World Health Organization) and Epi-info 2007 programs. Results. Twelve infants with CF were included, and 41.6% (5) had PBS. There was progressive improvement of nutritional status after CF management and after an early diagnosis and management of PBS. Conclusions. The prevalence of PBS was high. There were mild clinical manifestations of PBS accompanied by compromised nutritional status, identified in patients from a region of hot weather.

Published
2014
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22. Riboswitch theo/ metE as a Transcription Regulation Tool for Xanthomonas citri subsp. citri.

Author

Bueno, Danilo, Pedrolli, Danielle B., Martins, Paula M. M., Bocchini, Daniela A., Moraes, Karen C. M., Facincani, Agda P., Ferro, Jesus A., Varani, Alessandro M., Pena, Michelle M., Ferreira, Henrique, and Dame, Remus

Subjects
XANTHOMONAS campestris, XANTHOMONAS, MICROBIAL genetics, CITRUS canker, GENES, RIBOSWITCHES
Abstract

Xanthomonas citri subsp. citri (X. citri) is the causal agent of Asiatic Citrus Canker (ACC), a disease that affects citrus. ACC has no cure, and growers must rely on special agricultural practices to prevent bacterial spreading. Understanding X. citri basic biology is essential to foresee potential genetic targets to control ACC. Traditionally, microbial genetics use gene deletion/disruption to investigate gene function. However, essential genes are difficult to study this way. Techniques based on small-RNAs and antisense-RNAs are powerful for gene characterization, but not yet fully explored in prokaryotes. One alternative is riboswitches, which derive from bacteria, and can control transcription/translation. Riboswitches are non-coding RNAs able to modulate gene expression in the presence of specific ligands. Here we demonstrate that the riboswitch theo/metE decreases parB expression in X. citri in a platform responsive to theophylline. By monitoring cell respiration, we showed that higher concentrations of the ligand interfered with bacterial viability. Therefore, we determined the safe dose of theophylline to be used with X. citri. Finally, in downstream investigations of parB transcription modulation, we show evidence for the fact that ParB is stable, remains functional throughout the cell cycle, and is inherited by the daughter cells upon cell division. [ABSTRACT FROM AUTHOR]

Published
2021
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23. One Thousand Pages.

Author

Facincani, Sara

Subjects
1000 Pages (Poem), FACINCANI, Sara
Abstract

The article presents the poem "One Thousand Pages," by Sara Facincani. First Line: Looking at this lonely paper; Last Line: You just have to give it friends!

Published
2007

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