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Gil-Rojas S, Suárez M, Martínez-Blanco P, Torres AM, Martínez-García N, Blasco P, Torralba M, Mateo J. Application of Machine Learning Techniques to Assess Alpha-Fetoprotein at Diagnosis of Hepatocellular Carcinoma. Int J Mol Sci 2024; 25:1996. [PMID: 38396674 PMCID: PMC10888351 DOI: 10.3390/ijms25041996] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2024] [Revised: 01/29/2024] [Accepted: 02/05/2024] [Indexed: 02/25/2024] Open
Abstract
Hepatocellular carcinoma (HCC) is the most common primary liver tumor and is associated with high mortality rates. Approximately 80% of cases occur in cirrhotic livers, posing a significant challenge for appropriate therapeutic management. Adequate screening programs in high-risk groups are essential for early-stage detection. The extent of extrahepatic tumor spread and hepatic functional reserve are recognized as two of the most influential prognostic factors. In this retrospective multicenter study, we utilized machine learning (ML) methods to analyze predictors of mortality at the time of diagnosis in a total of 208 patients. The eXtreme gradient boosting (XGB) method achieved the highest values in identifying key prognostic factors for HCC at diagnosis. The etiology of HCC was found to be the variable most strongly associated with a poorer prognosis. The widely used Barcelona Clinic Liver Cancer (BCLC) classification in our setting demonstrated superiority over the TNM classification. Although alpha-fetoprotein (AFP) remains the most commonly used biological marker, elevated levels did not correlate with reduced survival. Our findings suggest the need to explore new prognostic biomarkers for individualized management of these patients.
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Affiliation(s)
- Sergio Gil-Rojas
- Gastroenterology Department, Virgen de la Luz Hospital, 16002 Cuenca, Spain
- Medical Analysis Expert Group, Institute of Technology, Universidad de Castilla-La Mancha, 16071 Cuenca, Spain
- Medical Analysis Expert Group, Instituto de Investigación Sanitaria de Castilla-La Mancha (IDISCAM), 45071 Toledo, Spain
| | - Miguel Suárez
- Gastroenterology Department, Virgen de la Luz Hospital, 16002 Cuenca, Spain
- Medical Analysis Expert Group, Institute of Technology, Universidad de Castilla-La Mancha, 16071 Cuenca, Spain
- Medical Analysis Expert Group, Instituto de Investigación Sanitaria de Castilla-La Mancha (IDISCAM), 45071 Toledo, Spain
| | - Pablo Martínez-Blanco
- Gastroenterology Department, Virgen de la Luz Hospital, 16002 Cuenca, Spain
- Medical Analysis Expert Group, Institute of Technology, Universidad de Castilla-La Mancha, 16071 Cuenca, Spain
- Medical Analysis Expert Group, Instituto de Investigación Sanitaria de Castilla-La Mancha (IDISCAM), 45071 Toledo, Spain
| | - Ana M. Torres
- Medical Analysis Expert Group, Institute of Technology, Universidad de Castilla-La Mancha, 16071 Cuenca, Spain
- Medical Analysis Expert Group, Instituto de Investigación Sanitaria de Castilla-La Mancha (IDISCAM), 45071 Toledo, Spain
| | | | - Pilar Blasco
- Department of Pharmacy, General University Hospital, 46014 Valencia, Spain
| | - Miguel Torralba
- Internal Medicine Unit, University Hospital of Guadalajara, 19002 Guadalajara, Spain
- Faculty of Medicine, Universidad de Alcalá de Henares, 28801 Alcalá de Henares, Spain
- Translational Research Group in Cellular Immunology (GITIC), Instituto de Investigación Sanitaria de Castilla-La Mancha (IDISCAM), 45071 Toledo, Spain
| | - Jorge Mateo
- Medical Analysis Expert Group, Institute of Technology, Universidad de Castilla-La Mancha, 16071 Cuenca, Spain
- Medical Analysis Expert Group, Instituto de Investigación Sanitaria de Castilla-La Mancha (IDISCAM), 45071 Toledo, Spain
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Balko C, Torres AM, Gutierrez N. Variability in drought stress response in a panel of 100 faba bean genotypes. Front Plant Sci 2023; 14:1236147. [PMID: 37719225 PMCID: PMC10499557 DOI: 10.3389/fpls.2023.1236147] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/07/2023] [Accepted: 08/14/2023] [Indexed: 09/19/2023]
Abstract
Faba bean is an important protein crop for food and feed worldwide and provides a range of advantages in crop rotations. Its limited use in modern agriculture is mainly due to the high fluctuations in yield. A well known limiting factor in most legumes, and particularly in faba bean, is the high sensitivity to water shortage, which is further aggravated by climate change. The present study was undertaken to exploit the genetic variation in drought stress response in a faba bean collection of 100 accessions with diverse origins and to assess selection criteria for identifying drought tolerant genotypes. Physiological, phenological and yield related traits evaluated under drought or water-sufficient conditions responded significantly to the end-terminated drought stress. Comparison of yield relations showed the advantage of using a stress tolerance index (STI) to identify genotypes combining high yield potential with high stress yield. With regard to physiological traits, SPAD (chlorophyll content) values were significantly related to yield as well as to STI, while the other traits also contributed to different extents to variation in yield formation. Among the yield related traits, seeds per plant proved to be the most important trait followed by pods per plant. Interestingly, the eight genotypes with the best STI performance use different strategies to cope with drought stress.
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Affiliation(s)
- Christiane Balko
- Julius Kühn-Institut (JKI), Federal Research Centre for Cultivated Plants, Institute for Resistance Research and Stress Tolerance, Sanitz, Germany
| | - Ana M. Torres
- Área de Mejora Vegetal y Biotecnología, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, Córdoba, Spain
| | - Natalia Gutierrez
- Área de Mejora Vegetal y Biotecnología, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, Córdoba, Spain
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Nunez M, Praglin CR, Torres AM, Agudelo EZ, Braun HJ, Huang CY, Syed S, Roberts JP, Roll GR. Steroid Avoidance After Adult Living Donor Liver Transplant: A Cohort Analysis. Transplant Direct 2023; 9:e1488. [PMID: 37250489 PMCID: PMC10212610 DOI: 10.1097/txd.0000000000001488] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Revised: 03/14/2023] [Accepted: 04/04/2023] [Indexed: 05/31/2023] Open
Abstract
Although steroid avoidance (SA) has been studied in deceased donor liver transplant, little is known about SA in living donor liver transplant (LDLT). We report the characteristics and outcomes, including the incidence of early acute rejection (AR) and complications of steroid use, in 2 cohorts of LDLT recipients. Methods Routine steroid maintenance (SM) after LDLT was stopped in December 2017. Our single-center retrospective cohort study spans 2 eras. Two hundred forty-two adult recipients underwent LDLT with SM (January 2000-December 2017), and 83 adult recipients (December 2017-August 2021) underwent LDLT with SA. Early AR was defined as a biopsy showing pathologic characteristics within 6 mo after LDLT. Univariate and multivariate logistic regressions were performed to evaluate the effects of relevant recipient and donor characteristics on the incidence of early AR in our cohort. Results Neither the difference in early AR rate between cohorts (SA 19/83 [22.9%] versus SM 41/242 [17%]; P = 0.46) nor a subset analysis of patients with autoimmune disease (SA 5/17 [29.4%] versus SM 19/58 [22.4%]; P = 0.71) reached statistical significance. Univariate and multivariate logistic regressions for early AR identified recipient age to be a statistically significant risk factor (P < 0.001). Of the patients without diabetes before LDLT, 3 of 56 (5.4%) on SA versus 26 of 200 (13%) on SM needed medications prescribed for glucose control at the time of discharge (P = 0.11). Patient survival was similar between SA and SM cohorts (SA 94% versus SM 91%, P = 0.34) 3 y after transplant. Conclusions LDLT recipients treated with SA do not exhibit significantly higher rates of rejection or increased mortality than patients treated with SM. Notably, this result is similar for recipients with autoimmune disease.
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Affiliation(s)
- Miguel Nunez
- School of Medicine, University of California San Francisco, San Francisco, CA
| | - Claudia R. Praglin
- Division of Transplant Surgery, Department of Surgery, University of California San Francisco, San Francisco, CA
| | - Ana M. Torres
- Division of Transplant Surgery, Department of Surgery, University of California San Francisco, San Francisco, CA
| | - Eliana Z. Agudelo
- Division of Transplant Surgery, Department of Surgery, University of California San Francisco, San Francisco, CA
| | - Hillary J. Braun
- Department of Surgery, University of California San Francisco, San Francisco, CA
| | - Chiung-Yu Huang
- Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, CA
| | - Shareef Syed
- Division of Transplant Surgery, Department of Surgery, University of California San Francisco, San Francisco, CA
| | - John P. Roberts
- Division of Transplant Surgery, Department of Surgery, University of California San Francisco, San Francisco, CA
| | - Garrett R. Roll
- Division of Transplant Surgery, Department of Surgery, University of California San Francisco, San Francisco, CA
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Jayakodi M, Golicz AA, Kreplak J, Fechete LI, Angra D, Bednář P, Bornhofen E, Zhang H, Boussageon R, Kaur S, Cheung K, Čížková J, Gundlach H, Hallab A, Imbert B, Keeble-Gagnère G, Koblížková A, Kobrlová L, Krejčí P, Mouritzen TW, Neumann P, Nadzieja M, Nielsen LK, Novák P, Orabi J, Padmarasu S, Robertson-Shersby-Harvie T, Robledillo LÁ, Schiemann A, Tanskanen J, Törönen P, Warsame AO, Wittenberg AHJ, Himmelbach A, Aubert G, Courty PE, Doležel J, Holm LU, Janss LL, Khazaei H, Macas J, Mascher M, Smýkal P, Snowdon RJ, Stein N, Stoddard FL, Stougaard J, Tayeh N, Torres AM, Usadel B, Schubert I, O'Sullivan DM, Schulman AH, Andersen SU. The giant diploid faba genome unlocks variation in a global protein crop. Nature 2023; 615:652-659. [PMID: 36890232 PMCID: PMC10033403 DOI: 10.1038/s41586-023-05791-5] [Citation(s) in RCA: 25] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Accepted: 02/03/2023] [Indexed: 03/10/2023]
Abstract
Increasing the proportion of locally produced plant protein in currently meat-rich diets could substantially reduce greenhouse gas emissions and loss of biodiversity1. However, plant protein production is hampered by the lack of a cool-season legume equivalent to soybean in agronomic value2. Faba bean (Vicia faba L.) has a high yield potential and is well suited for cultivation in temperate regions, but genomic resources are scarce. Here, we report a high-quality chromosome-scale assembly of the faba bean genome and show that it has expanded to a massive 13 Gb in size through an imbalance between the rates of amplification and elimination of retrotransposons and satellite repeats. Genes and recombination events are evenly dispersed across chromosomes and the gene space is remarkably compact considering the genome size, although with substantial copy number variation driven by tandem duplication. Demonstrating practical application of the genome sequence, we develop a targeted genotyping assay and use high-resolution genome-wide association analysis to dissect the genetic basis of seed size and hilum colour. The resources presented constitute a genomics-based breeding platform for faba bean, enabling breeders and geneticists to accelerate the improvement of sustainable protein production across the Mediterranean, subtropical and northern temperate agroecological zones.
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Affiliation(s)
- Murukarthick Jayakodi
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
| | - Agnieszka A Golicz
- Department of Plant Breeding, Justus Liebig University Giessen, Giessen, Germany
| | - Jonathan Kreplak
- Agroécologie, INRAE, Institut Agro, University Bourgogne, University Bourgogne Franche-Comté, Dijon, France
| | - Lavinia I Fechete
- Department of Molecular Biology and Genetics, Aarhus University, Aarhus C, Denmark
| | - Deepti Angra
- School of Agriculture, Policy and Development, University of Reading, Reading, UK
| | - Petr Bednář
- Department of Analytical Chemistry, Faculty of Science, Palacky University, Olomouc, Czech Republic
| | - Elesandro Bornhofen
- Center for Quantitative Genetics and Genomics, Aarhus University, Aarhus C, Denmark
| | - Hailin Zhang
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
| | - Raphaël Boussageon
- Agroécologie, INRAE, Institut Agro, University Bourgogne, University Bourgogne Franche-Comté, Dijon, France
| | - Sukhjiwan Kaur
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Victoria, Australia
| | - Kwok Cheung
- School of Agriculture, Policy and Development, University of Reading, Reading, UK
| | - Jana Čížková
- Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czech Republic
| | - Heidrun Gundlach
- Plant Genome and Systems Biology (PGSB), Helmholtz Center Munich, German Research Center for Environmental Health, Neuherberg, Germany
| | - Asis Hallab
- IBG-4 Bioinformatics Forschungszentrum Jülich, Jülich, Germany
- Bingen Technical University of Applied Sciences, Bingen, Germany
| | - Baptiste Imbert
- Agroécologie, INRAE, Institut Agro, University Bourgogne, University Bourgogne Franche-Comté, Dijon, France
| | | | - Andrea Koblížková
- Biology Centre, Czech Academy of Sciences, Institute of Plant Molecular Biology, České Budějovice, Czech Republic
| | - Lucie Kobrlová
- Department of Botany, Faculty of Science, Palacky University, Olomouc, Czech Republic
| | - Petra Krejčí
- Department of Analytical Chemistry, Faculty of Science, Palacky University, Olomouc, Czech Republic
| | - Troels W Mouritzen
- Department of Molecular Biology and Genetics, Aarhus University, Aarhus C, Denmark
| | - Pavel Neumann
- Biology Centre, Czech Academy of Sciences, Institute of Plant Molecular Biology, České Budějovice, Czech Republic
| | - Marcin Nadzieja
- Department of Molecular Biology and Genetics, Aarhus University, Aarhus C, Denmark
| | | | - Petr Novák
- Biology Centre, Czech Academy of Sciences, Institute of Plant Molecular Biology, České Budějovice, Czech Republic
| | | | - Sudharsan Padmarasu
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
| | | | - Laura Ávila Robledillo
- Biology Centre, Czech Academy of Sciences, Institute of Plant Molecular Biology, České Budějovice, Czech Republic
| | | | | | - Petri Törönen
- Institute of Biotechnology, University of Helsinki, Helsinki, Finland
| | - Ahmed O Warsame
- School of Agriculture, Policy and Development, University of Reading, Reading, UK
| | | | - Axel Himmelbach
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
| | - Grégoire Aubert
- Agroécologie, INRAE, Institut Agro, University Bourgogne, University Bourgogne Franche-Comté, Dijon, France
| | - Pierre-Emmanuel Courty
- Agroécologie, INRAE, Institut Agro, University Bourgogne, University Bourgogne Franche-Comté, Dijon, France
| | - Jaroslav Doležel
- Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czech Republic
| | - Liisa U Holm
- Institute of Biotechnology, University of Helsinki, Helsinki, Finland
| | - Luc L Janss
- Center for Quantitative Genetics and Genomics, Aarhus University, Aarhus C, Denmark
| | - Hamid Khazaei
- Natural Resources Institute Finland (Luke), Helsinki, Finland
| | - Jiří Macas
- Biology Centre, Czech Academy of Sciences, Institute of Plant Molecular Biology, České Budějovice, Czech Republic
| | - Martin Mascher
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany
| | - Petr Smýkal
- Department of Botany, Faculty of Science, Palacky University, Olomouc, Czech Republic
| | - Rod J Snowdon
- Department of Plant Breeding, Justus Liebig University Giessen, Giessen, Germany
| | - Nils Stein
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
- Center of Integrated Breeding Research (CiBreed), Georg-August-University, Göttingen, Germany
| | - Frederick L Stoddard
- Department of Agricultural Sciences, University of Helsinki, Helsinki, Finland
- Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland, Córdoba, Spain
| | - Jens Stougaard
- Department of Molecular Biology and Genetics, Aarhus University, Aarhus C, Denmark
| | - Nadim Tayeh
- Agroécologie, INRAE, Institut Agro, University Bourgogne, University Bourgogne Franche-Comté, Dijon, France
| | - Ana M Torres
- Instituto Andaluz de Investigación y Formación Agraria, Pesquera, Alimentaria y de la Producción Ecológica (IFAPA), Área de Mejora y Biotecnología, Centro Alameda del Obispo, Córdoba, Spain
| | - Björn Usadel
- IBG-4 Bioinformatics Forschungszentrum Jülich, Jülich, Germany
- Institute for Biological Data Science, CEPLAS, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| | - Ingo Schubert
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
| | | | - Alan H Schulman
- Natural Resources Institute Finland (Luke), Helsinki, Finland.
- Institute of Biotechnology, University of Helsinki, Helsinki, Finland.
- Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland, Córdoba, Spain.
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Gutiérrez N, Pégard M, Balko C, Torres AM. Genome-wide association analysis for drought tolerance and associated traits in faba bean ( Vicia faba L.). Front Plant Sci 2023; 14:1091875. [PMID: 36818887 PMCID: PMC9928957 DOI: 10.3389/fpls.2023.1091875] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Accepted: 01/16/2023] [Indexed: 06/18/2023]
Abstract
Faba bean (Vicia faba L.) is an important high protein legume adapted to diverse climatic conditions with multiple benefits for the overall sustainability of the cropping systems. Plant-based protein demand is being expanded and faba bean is a good candidate to cover this need. However, the crop is very sensitive to abiotic stresses, especially drought, which severely affects faba bean yield and development worldwide. Therefore, identifying genes associated with drought stress tolerance is a major challenge in faba bean breeding. Although the faba bean response to drought stress has been widely studied, the molecular approaches to improve drought tolerance in this crop are still limited. Here we built on recent genomic advances such as the development of the first high-density SNP genotyping array, to conduct a genome-wide association study (GWAS) using thousands of genetic polymorphisms throughout the entire faba bean genome. A worldwide collection of 100 faba bean accessions was grown under control and drought conditions and 10 morphological, phenological and physiological traits were evaluated to identify single nucleotide polymorphism (SNP) markers associated with drought tolerance. We identified 29 SNP markers significantly correlated with these traits under drought stress conditions. The flanking sequences were blasted to the Medicago truncatula reference genomes in order to annotate potential candidate genes underlying the causal variants. Three of the SNPs for chlorophyll content after the stress, correspond to uncharacterized proteins indicating the presence of novel genes associated with drought tolerance in faba bean. The significance of stress-inducible signal transducers provides valuable information on the possible mechanisms underlying the faba bean response to drought stress, thus providing a foundation for future marker-assisted breeding in the crop.
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Affiliation(s)
- Natalia Gutiérrez
- Área de Mejora y Biotecnología, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, Córdoba, Spain
| | - Marie Pégard
- INRAE P3F, 86600 Lusignan, France, INRA, Centre Nouvelle-Aquitaine-Poitiers, Lusignan, France
| | - Christiane Balko
- Julius Kühn-Institut (JKI), Federal Research Centre for Cultivated Plants, Institute for Resistance Research and Stress Tolerance, Sanitz, Germany
| | - Ana M. Torres
- Área de Mejora y Biotecnología, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, Córdoba, Spain
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Crescitelli MC, Simon I, Ferrini L, Calvo H, Torres AM, Cabero I, Panedas MM, Rauschemberger MB, Aguirre MV, Rodríguez JP, Hernández M, Nieto ML. Anti-Neuroinflammatory Potential of a Nectandra angustifolia ( Laurel Amarillo) Ethanolic Extract. Antioxidants (Basel) 2023; 12:antiox12020232. [PMID: 36829791 PMCID: PMC9952224 DOI: 10.3390/antiox12020232] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Revised: 01/13/2023] [Accepted: 01/16/2023] [Indexed: 01/20/2023] Open
Abstract
Microglia, the resident macrophage-like population in the CNS, plays an important role in the pathogenesis of many neurodegenerative disorders. Nectandra genus is known to produce different metabolites with anti-inflammatory, anti-oxidant and analgesic properties. Although the species Nectandra angustifolia is popularly used for the treatment of different types of inflammatory processes, its biological effects on neuroinflammation have not yet been addressed. In this study, we have investigated the role of a Nectandra angustifolia ethanolic extract (NaE) in lipopolysaccharide (LPS)-induced neuroinflammation in vitro and in vivo. In LPS-activated BV2 microglial cells, NaE significantly reduced the induced proinflammatory mediators TNF-α, IL-1β, IL-6, COX-2 and iNOS, as well as NO accumulation, while it promoted IL-10 secretion and YM-1 expression. Likewise, reduced CD14 expression levels were detected in microglial cells in the NaE+LPS group. NaE also attenuated LPS-induced ROS and lipid peroxidation build-up in BV2 cells. Mechanistically, NaE prevented NF-κB and MAPKs phosphorylation, as well as NLRP3 upregulation when added before LPS stimulation, although it did not affect the level of some proteins related to antioxidant defense such as Keap-1 and HO-1. Additionally, we observed that NaE modulated some activated microglia functions, decreasing cell migration, without affecting their phagocytic capabilities. In LPS-injected mice, NaE pre-treatment markedly suppressed the up-regulated TNF-α, IL-6 and IL-1β mRNA expression induced by LPS in brain. Our findings indicate that NaE is beneficial in preventing the neuroinflammatory response both in vivo and in vitro. NaE may regulate microglia homeostasis, not only restraining activation of LPS towards the M1 phenotype but promoting an M2 phenotype.
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Affiliation(s)
- María Carla Crescitelli
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
- Cátedra de Inmunología, Instituto de Ciencias Biológicas y Biomédicas del Sur (INBIOSUR), Universidad Nacional del Sur (UNS), Consejo de Investigaciones Científicas y Técnicas (CONICET), Departamento de Biología, Bioquímica y Farmacia, San Juan 670, 8000 Bahía Blanca, Argentina
| | - Inmaculada Simon
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
| | - Leandro Ferrini
- Laboratorio de Investigaciones Bioquímicas de La Facultad de Medicina (LIBIM), Instituto de Química Básica y Aplicada del NEA, (IQUIBA NEA-UNNE-CONICET), Facultad de Medicina, Universidad Nacional del Nordeste, Corrientes 3400, Argentina
- Laboratorio de Productos Naturales Prof. Armando Ricciardi (LabProdNat), Instituto de Química Básica y Aplicada del NEA, (IQUIBA NEA-UNNE-CONICET), Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Corrientes 3400, Argentina
| | - Hugo Calvo
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
| | - Ana M. Torres
- Laboratorio de Investigaciones Bioquímicas de La Facultad de Medicina (LIBIM), Instituto de Química Básica y Aplicada del NEA, (IQUIBA NEA-UNNE-CONICET), Facultad de Medicina, Universidad Nacional del Nordeste, Corrientes 3400, Argentina
- Laboratorio de Productos Naturales Prof. Armando Ricciardi (LabProdNat), Instituto de Química Básica y Aplicada del NEA, (IQUIBA NEA-UNNE-CONICET), Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Corrientes 3400, Argentina
| | - Isabel Cabero
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
| | - Mónica Macías Panedas
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
| | - Maria B. Rauschemberger
- Cátedra de Inmunología, Instituto de Ciencias Biológicas y Biomédicas del Sur (INBIOSUR), Universidad Nacional del Sur (UNS), Consejo de Investigaciones Científicas y Técnicas (CONICET), Departamento de Biología, Bioquímica y Farmacia, San Juan 670, 8000 Bahía Blanca, Argentina
| | - Maria V. Aguirre
- Laboratorio de Investigaciones Bioquímicas de La Facultad de Medicina (LIBIM), Instituto de Química Básica y Aplicada del NEA, (IQUIBA NEA-UNNE-CONICET), Facultad de Medicina, Universidad Nacional del Nordeste, Corrientes 3400, Argentina
| | - Juan Pablo Rodríguez
- Laboratorio de Investigaciones Bioquímicas de La Facultad de Medicina (LIBIM), Instituto de Química Básica y Aplicada del NEA, (IQUIBA NEA-UNNE-CONICET), Facultad de Medicina, Universidad Nacional del Nordeste, Corrientes 3400, Argentina
| | - Marita Hernández
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
| | - María Luisa Nieto
- Instituto de Biomedicina y Genética Molecular de Valladolid (IBGM), CSIC-Universidad de Valladolid, 47003 Valladolid, Spain
- Correspondence: ; Tel.: +34-983184836
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Fuel M, Mesas C, Martínez R, Ortiz R, Quiñonero F, Bermúdez F, Gutiérrez N, Torres AM, Kapravelou G, Lozano A, Perazzoli G, Prados J, Porres JM, Melguizo C. Antioxidant and Chemopreventive Activity of Protein Hydrolysates from Raw and Germinated Flour of Legumes with Commercial Interest in Colorectal Cancer. Antioxidants (Basel) 2022; 11:antiox11122421. [PMID: 36552629 PMCID: PMC9774143 DOI: 10.3390/antiox11122421] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Revised: 12/01/2022] [Accepted: 12/05/2022] [Indexed: 12/14/2022] Open
Abstract
Legumes are a highly nutritious source of plant protein, fiber, minerals and vitamins. However, they also contain several bioactive compounds with significant potential benefits for human health. The objectives of this study were to evaluate the antioxidant, antitumor and chemopreventive activity of functional extracts from legumes using raw and germinated flours of six legume species of commercial interest. The methodology carried out consisted on the development of protein hydrolysates, assessment of their antioxidant capacity and in vitro tests on T84, HCT15 and SW480 colorectal cancer (CRC) cell lines. Our results showed a high antitumor activity of protein hydrolysate from M. sativa. Likewise, when combined with 5-Fluorouracile (5-Fu), there was a synergistic effect using extract concentrations from 50 to 175 µg/mL and 5-Fu concentrations from 1.5 to 5 µM. Similarly, the induction effect on detoxifying enzymes by the extracts of M. sativa, germinated V. faba Baraca × LVzt1 and V. narbonensis, which produced a higher induction rate than the positive control sulforaphane (10 µM), should be highlighted. Therefore, incorporating these enzymes into the diet could provide nutritional effects, as well as play an effective role in cancer chemoprevention and therapy.
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Affiliation(s)
- Marco Fuel
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
| | - Cristina Mesas
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
- Department of Anatomy and Embryology, Faculty of Medicine, University of Granada, 18071 Granada, Spain
- Instituto Biosanitario de Granada (ibs.GRANADA), 18014 Granada, Spain
| | - Rosario Martínez
- Cellbitec S.L., N.I.F. B04847216, Scientific Headquarters of the Almería Technology Park, Universidad de Almería, 04128 La Cañada, Spain
- Department of Physiology, Institute of Nutrition and Food Technology (INyTA), Biomedical Research Center (CIBM), Universidad de Granada, 18100 Granada, Spain
| | - Raúl Ortiz
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
- Department of Anatomy and Embryology, Faculty of Medicine, University of Granada, 18071 Granada, Spain
- Instituto Biosanitario de Granada (ibs.GRANADA), 18014 Granada, Spain
| | - Francisco Quiñonero
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
- Department of Anatomy and Embryology, Faculty of Medicine, University of Granada, 18071 Granada, Spain
- Instituto Biosanitario de Granada (ibs.GRANADA), 18014 Granada, Spain
| | - Francisco Bermúdez
- Cellbitec S.L., N.I.F. B04847216, Scientific Headquarters of the Almería Technology Park, Universidad de Almería, 04128 La Cañada, Spain
| | - Natalia Gutiérrez
- IFAPA Centro Alameda del Obispo, Área de Genómica y Biotecnología, Apdo 3092, 14080 Córdoba, Spain
| | - Ana M. Torres
- IFAPA Centro Alameda del Obispo, Área de Genómica y Biotecnología, Apdo 3092, 14080 Córdoba, Spain
| | - Garyfallia Kapravelou
- Department of Physiology, Institute of Nutrition and Food Technology (INyTA), Biomedical Research Center (CIBM), Universidad de Granada, 18100 Granada, Spain
| | - Aída Lozano
- Department of Physiology, Institute of Nutrition and Food Technology (INyTA), Biomedical Research Center (CIBM), Universidad de Granada, 18100 Granada, Spain
| | - Gloria Perazzoli
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
- Instituto Biosanitario de Granada (ibs.GRANADA), 18014 Granada, Spain
| | - Jose Prados
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
- Department of Anatomy and Embryology, Faculty of Medicine, University of Granada, 18071 Granada, Spain
- Instituto Biosanitario de Granada (ibs.GRANADA), 18014 Granada, Spain
- Correspondence:
| | - Jesús M. Porres
- Department of Physiology, Institute of Nutrition and Food Technology (INyTA), Biomedical Research Center (CIBM), Universidad de Granada, 18100 Granada, Spain
| | - Consolación Melguizo
- Institute of Biopathology and Regenerative Medicine (IBIMER), Center of Biomedical Research (CIBM), University of Granada, 18100 Granada, Spain
- Department of Anatomy and Embryology, Faculty of Medicine, University of Granada, 18071 Granada, Spain
- Instituto Biosanitario de Granada (ibs.GRANADA), 18014 Granada, Spain
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8
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Naranjo-Alcazar J, Perez-Castanos S, Zuccarello P, Torres AM, Lopez JJ, Ferri FJ, Cobos M. An Open-Set Recognition and Few-Shot Learning Dataset for Audio Event Classification in Domestic Environments. Pattern Recognit Lett 2022. [DOI: 10.1016/j.patrec.2022.10.019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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9
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Aguilar-Benitez D, Casimiro-Soriguer I, Ferrandiz C, Torres AM. Study and QTL mapping of reproductive and morphological traits implicated in the autofertility of faba bean. BMC Plant Biol 2022; 22:175. [PMID: 35387612 PMCID: PMC8985305 DOI: 10.1186/s12870-022-03499-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Accepted: 02/23/2022] [Indexed: 06/14/2023]
Abstract
Autofertility describes the ability of faba bean flowers to self-fertilize thereby ensuring the productivity of this crop in the absence of pollinators or mechanical disturbance. In the legume crop faba bean (Vicia faba L.), lack of autofertility in a context of insufficient pollination can lead to a severe decrease in grain yield. Here we performed the first QTL analysis aimed at identifying the genomic regions controlling autofertility in this crop. We combined pod and seed setting scores from a recombinant inbred population (RIL) segregating for autofertility in different environments and years with measurements of morphological floral traits and pollen production and viability. This approach revealed 19 QTLs co-localizing in six genomic regions. Extensive co-localization was evident for various floral features whose QTLs clustered in chrs. I, II and V, while other QTLs in chrs. III, IV and VI revealed co-localization of flower characteristics and pod and seed set data. The percentage of phenotypic variation explained by the QTLs ranged from 8.9 for style length to 25.7 for stigma angle. In the three QTLs explaining the highest phenotypic variation (R 2 > 20), the marker alleles derived from the autofertile line Vf27. We further inspected positional candidates identified by these QTLs which represent a valuable resource for further validation. Our results advance the understanding of autofertility in faba bean and will aid the identification of responsible genes for genomic-assisted breeding in this crop.
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Affiliation(s)
- David Aguilar-Benitez
- Área de Mejora y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo. 3092, 14080, Córdoba, Spain
| | - Inés Casimiro-Soriguer
- Área de Mejora y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo. 3092, 14080, Córdoba, Spain.
| | - Cristina Ferrandiz
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas - Universitat Politécnica de Valencia, 46022, Valencia, Spain
| | - Ana M Torres
- Área de Mejora y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo. 3092, 14080, Córdoba, Spain
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10
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Gutierrez N, Torres AM. QTL dissection and mining of candidate genes for Ascochyta fabae and Orobanche crenata resistance in faba bean (Vicia faba L.). BMC Plant Biol 2021; 21:551. [PMID: 34809555 PMCID: PMC8607628 DOI: 10.1186/s12870-021-03335-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Accepted: 11/08/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Ascochyta blight caused by Ascochyta fabae Speg. and broomrape (Orobanche crenata) are among the economically most significant pathogens of faba bean. Several QTLs conferring resistance against the two pathogens have been identified and validated in different genetic backgrounds. The aim of this study was to saturate the most stable QTLs for ascochyta and broomrape resistance in two Recombinant Inbred Line (RIL) populations, 29H x Vf136 and Vf6 x Vf136, to identify candidate genes conferring resistance against these two pathogens. RESULTS We exploited the synteny between faba bean and the model species Medicago truncatula by selecting a set of 219 genes encoding putative WRKY transcription factors and defense related proteins falling within the target QTL intervals, for genotyping and marker saturation in the two RIL populations. Seventy and 50 of the candidate genes could be mapped in 29H x Vf136 and Vf6 x Vf136, respectively. Besides the strong reduction of the QTL intervals, the mapping process allowed replacing previous dominant and pedigree-specific RAPD flanking markers with robust and transferrable SNP markers, revealing promising candidates for resistance against the two pathogens. CONCLUSIONS Although further efforts in association mapping and expression studies will be required to corroborate the candidate genes for resistance, the fine-mapping approach proposed here increases the genetic resolution of relevant QTL regions and paves the way for an efficient deployment of useful alleles for faba bean ascochyta and broomrape resistance through marker-assisted breeding.
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Affiliation(s)
- Natalia Gutierrez
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain.
| | - Ana M Torres
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain
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11
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Azón E, Mir E, Hernández J, Aguilón JJ, Torres AM, Satústegui PJ. [Update on the effectiveness and evidence of antenatal perineal massage]. An Sist Sanit Navar 2021; 44:437-444. [PMID: 34703032 DOI: 10.23938/assn.0976] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
The impact and morbidity generated by perineal trauma during vaginal delivery justifies the need to find strategies to minimize it. Antenatal perineal massage (APM) is proposed as a technique that increases the elasticity of the perineum and that could reduce damage to the pelvic floor. This review set out to discover the effectiveness and the scientific evidence that supports this procedure. The Medline, Cochrane, Tripdatabase and Cuiden databases for the last six years were consulted, in Spanish and English. Ten studies with different levels of evidence were found. All of them favoured the use of this technique. Although further research is needed, evidence currently available suggests that the use of APM in late pregnancy could be an effective and safe procedure to reduce perineal trauma in childbirth, especially in primiparous women, and postpartum pain in multi-parous women.
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Affiliation(s)
- E Azón
- C.S Villarroya Sierra. Zaragoza. España..
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12
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Abstract
Flowering time marks the transition from vegetative to reproductive growth and is key for optimal yield in any crop. The molecular mechanisms controlling this trait have been extensively studied in model plants such as Arabidopsis thaliana and rice. While knowledge on the molecular regulation of this trait is rapidly increasing in sequenced galegoid legume crops, understanding in faba bean remains limited. Here we exploited translational genomics from model legume crops to identify and fine map QTLs linked to flowering time in faba bean. Among the 31 candidate genes relevant for flowering control in A. thaliana and Cicer arietinum assayed, 25 could be mapped in a segregating faba bean RIL population. While most of the genes showed conserved synteny among related legume species, none of them co-localized with the 9 significant QTL regions identified. The FT gene, previously implicated in the control of flowering time in numerous members of the temperate legume clade, mapped close to the most relevant stable and conserved QTL in chromosome V. Interestingly, QTL analysis suggests an important role of epigenetic modifications in faba bean flowering control. The new QTLs and candidate genes assayed here provide a robust framework for further genetic studies and will contribute to the elucidation of the molecular mechanisms controlling this trait.
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Affiliation(s)
- David Aguilar-Benitez
- Área de Genómica y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo 3092, 14080, Córdoba, Spain
| | - Inés Casimiro-Soriguer
- Área de Genómica y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo 3092, 14080, Córdoba, Spain
| | - Fouad Maalouf
- International Center for Agricultural Research in the Dry Areas (ICARDA), Beirut, Lebanon
| | - Ana M Torres
- Área de Genómica y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo 3092, 14080, Córdoba, Spain.
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13
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Aguilar-Benitez D, Casimiro-Soriguer I, Maalouf F, Torres AM. Linkage mapping and QTL analysis of flowering time in faba bean. Sci Rep 2021; 11:13716. [PMID: 34215783 PMCID: PMC8253854 DOI: 10.1038/s41598-021-92680-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Accepted: 06/03/2021] [Indexed: 11/22/2022] Open
Abstract
Flowering time marks the transition from vegetative to reproductive growth and is key for optimal yield in any crop. The molecular mechanisms controlling this trait have been extensively studied in model plants such as Arabidopsis thaliana and rice. While knowledge on the molecular regulation of this trait is rapidly increasing in sequenced galegoid legume crops, understanding in faba bean remains limited. Here we exploited translational genomics from model legume crops to identify and fine map QTLs linked to flowering time in faba bean. Among the 31 candidate genes relevant for flowering control in A. thaliana and Cicer arietinum assayed, 25 could be mapped in a segregating faba bean RIL population. While most of the genes showed conserved synteny among related legume species, none of them co-localized with the 9 significant QTL regions identified. The FT gene, previously implicated in the control of flowering time in numerous members of the temperate legume clade, mapped close to the most relevant stable and conserved QTL in chromosome V. Interestingly, QTL analysis suggests an important role of epigenetic modifications in faba bean flowering control. The new QTLs and candidate genes assayed here provide a robust framework for further genetic studies and will contribute to the elucidation of the molecular mechanisms controlling this trait.
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Affiliation(s)
- David Aguilar-Benitez
- Área de Genómica y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo 3092, 14080, Córdoba, Spain
| | - Inés Casimiro-Soriguer
- Área de Genómica y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo 3092, 14080, Córdoba, Spain
| | - Fouad Maalouf
- International Center for Agricultural Research in the Dry Areas (ICARDA), Beirut, Lebanon
| | - Ana M Torres
- Área de Genómica y Biotecnología, IFAPA Centro "Alameda del Obispo", Apdo 3092, 14080, Córdoba, Spain.
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14
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Palacios SA, Del Canto A, Erazo J, Torres AM. Fusarium cerealis causing Fusarium head blight of durum wheat and its associated mycotoxins. Int J Food Microbiol 2021; 346:109161. [PMID: 33773354 DOI: 10.1016/j.ijfoodmicro.2021.109161] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 02/19/2021] [Accepted: 03/07/2021] [Indexed: 10/21/2022]
Abstract
Fusarium Head Blight (FHB) is a very important fungal disease that affects small grain cereals worldwide. This disease not only causes yield loses but also crops contamination with mycotoxins such as deoxynivalenol (DON) and nivalenol (NIV). Species within the Fusarium graminearum species complex have been described as the main causal agents of this disease, however lately there have been few reports of Fusarium cerealis causing the disease in wheat and barley in different parts of the world. This study evaluated the aggressiveness of F. cerealis to durum wheat cultivars and also mycotoxin production in planta. Moreover, the mycotoxin profile of F. cerealis strains was characterized molecularly and chemically. All durum wheat cultivars showed typical FHB symptoms but the disease severity varied among them in levels up to 66%. In addition, seventeen different compounds were detected in the infected heads including DON, NIV and nivalenol-3-β-d-glucose (NIV3G). NIV was detected in all cultivars and was the most produced mycotoxin with levels ranging from 1.04 to 6.8 mg/kg. On the other hand, the molecular analysis of F. cerealis strains showed that all of them possessed NIV genotype while the chemical assessment showed that the strains were able to produce not only this toxin in vitro but also DON, zearalenone and other twenty-one secondary metabolites. The increasing incidence of F. cerealis and the possible contamination of crops with the mycotoxins that it produces are of great concern for food security and world cereal trade since it has been reported that NIV is more toxic for humans and animals than DON.
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Affiliation(s)
- S A Palacios
- Research Institute on Mycology and Mycotoxicology (IMICO), National Scientific and Technical Research Council - Argentina (CONICET), Universidad Nacional de Rio Cuarto (UNRC), Ruta 36, Km 601, Río Cuarto 5800, Córdoba, Argentina
| | - A Del Canto
- Research Institute on Mycology and Mycotoxicology (IMICO), National Scientific and Technical Research Council - Argentina (CONICET), Universidad Nacional de Rio Cuarto (UNRC), Ruta 36, Km 601, Río Cuarto 5800, Córdoba, Argentina
| | - J Erazo
- Research Institute on Mycology and Mycotoxicology (IMICO), National Scientific and Technical Research Council - Argentina (CONICET), Universidad Nacional de Rio Cuarto (UNRC), Ruta 36, Km 601, Río Cuarto 5800, Córdoba, Argentina
| | - A M Torres
- Research Institute on Mycology and Mycotoxicology (IMICO), National Scientific and Technical Research Council - Argentina (CONICET), Universidad Nacional de Rio Cuarto (UNRC), Ruta 36, Km 601, Río Cuarto 5800, Córdoba, Argentina.
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15
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Abstract
Mercury is a widespread pollutant. Mercuric ions uptake into tubular cells is supported by the Organic anion transporter 1 (Oat1) and 3 (Oat3) and its elimination into urine is through the Multidrug resistance-associated protein 2 (Mrp2). We investigated the effect of recombinant human erythropoietin (Epo) on renal function and on renal expression of Oat1, Oat3, and Mrp2 in a model of mercuric chloride (HgCl2)-induced renal damage. Four experimental groups of adult male Wistar rats were used: Control, Epo, HgCl2, and Epo + HgCl2. Epo (3000 IU/kg, b.w., i.p.) was administered 24 h before HgCl2 (4 mg/kg, b.w., i.p.). Experiments were performed 18 h after the HgCl2 dose. Parameters of renal function and structure were evaluated. The protein expression of Oat1, Oat3 and Mrp2 in renal tissue was assessed by immunoblotting techniques. Mercury levels were determined by cold vapor atomic absorption spectrometry. Pretreatment with Epo ameliorated the HgCl2-induced tubular injury as assessed by histopathology and urinary biomarkers. Immunoblotting showed that pretreatment with Epo regulated the renal expression of mercury transporters in a way to decrease mercury content in the kidney. Epo pretreatment ameliorates HgCl2-induced renal tubular injury by modulation of mercury transporters expression in the kidneys.
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Affiliation(s)
- M H Hazelhoff
- Área Farmacología, Facultad de Ciencias Bioquímicas y Farmacéuticas, 63029Universidad Nacional de Rosario, CONICET, Rosario, Argentina
| | - A M Torres
- Área Farmacología, Facultad de Ciencias Bioquímicas y Farmacéuticas, 63029Universidad Nacional de Rosario, CONICET, Rosario, Argentina
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16
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Gutierrez N, Avila CM, Torres AM. The bHLH transcription factor VfTT8 underlies zt2, the locus determining zero tannin content in faba bean (Vicia faba L.). Sci Rep 2020; 10:14299. [PMID: 32868815 PMCID: PMC7459296 DOI: 10.1038/s41598-020-71070-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Accepted: 08/06/2020] [Indexed: 11/24/2022] Open
Abstract
Faba bean (Vicia faba L.) is an important protein-rich fodder crop, which is widely cultivated in temperate areas. However, antinutritional compounds such as condensed tannins, limit the use of this protein source in monogastric feed formulations. Previous studies demonstrated that two recessive and complementary genes, zt1 and zt2, control absence of tannin and white flower colour in faba bean. An ortholog of the Medicago WD40 transcription factor TTG1 was reported to encode the zt1 phenotype, but the responsible gene for zt2 is still unknown. Here we used a candidate gene approach combined with linkage mapping, comparative genomics and gene expression to fine map the zt2 genomic region and to identify the regulatory gene controlling both traits. Seventy-two genes, including 23 MYB and bHLH regulatory genes predicted to be associated with anthocyanin expression together with WRKY proteins, were screened and genotyped in three mapping populations. The linkage groups constructed identified the regulatory gene, TRANSPARENT TESTA8 (TT8), encoding a basic helix-loop-helix (bHLH) transcription factor, as the candidate for zt2. This finding was supported by qPCR analysis and further validated in different genetic backgrounds. Accordingly, VfTT8 was downregulated in white flowered types while showing high levels of expression in wild genotypes. Our results provide new insights on the regulatory mechanisms of tannin biosynthesis in faba bean and will facilitate the development of an ultimate zt2 diagnostic marker for the fast generation of new value-added cultivars free of tannins and with improved nutritional value.
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Affiliation(s)
- Natalia Gutierrez
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain.
| | - Carmen M Avila
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain
| | - Ana M Torres
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain
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17
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Fusco LS, Cajade R, Piñeiro JM, Torres AM, da Silva IRF, Hyslop S, Leiva LC, Pimenta DC, Bustillo S. Biochemical characterization and cytotoxic effect of the skin secretion from the red-spotted Argentina frog Argenteohyla siemersi (Anura: Hylidae). J Venom Anim Toxins Incl Trop Dis 2020; 26:e20190078. [PMID: 32280338 PMCID: PMC7112748 DOI: 10.1590/1678-9199-jvatitd-2019-0078] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
Background: Argenteohyla siemersi (red-spotted Argentina frog) is a
casque-headed tree frog species belonging to the Hylidae family. This
species has a complex combination of anti-predator defense mechanisms that
include a highly lethal skin secretion. However, biochemical composition and
biological effects of this secretion have not yet been studied. Methods: The A. siemersi skin secretion samples were analyzed by mass
spectrometry and chromatographic analysis (MALDI-TOF/MS, RP-HPLC and GC-MS).
Proteins were also studied by SDS-PAGE. Among the biological activities
evaluated, several enzymatic activities (hemolytic, phospholipase
A2, clotting, proteolytic and amidolytic) were assessed.
Furthermore, the cytotoxic activity (cytolysis and fluorescence staining)
was evaluated on myoblasts of the C2C12 cell line. Results: The MALDI-TOF/MS analysis identified polypeptides and proteins in the aqueous
solution of A. siemersi skin secretion. SDS-PAGE revealed
the presence of proteins with molecular masses from 15 to 55 kDa. Steroids,
but no alkaloids or peptides (less than 5 KDa), were detected using mass
spectrometry. Skin secretion revealed the presence of lipids in methanolic
extract, as analyzed by CG-MS. This secretion showed hemolytic and
phospholipase A2 activities, but was devoid of amidolytic,
proteolytic or clotting activities. Moreover, dose-dependent cytotoxicity in
cultured C2C12 myoblasts of the skin secretion was demonstrated.
Morphological analysis, quantification of lactate dehydrogenase release and
fluorescence staining indicated that the cell death triggered by this
secretion involved necrosis. Conclusions: Results presented herein evidence the biochemical composition and biological
effects of A. siemersi skin secretion and contribute to the
knowledge on the defense mechanisms of casque-headed frogs.
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Affiliation(s)
- Luciano S Fusco
- Protein Research Laboratory (LabInPro), IQUIBA-NEA CONICET, National University of the Northeast, Corrientes, Argentina
| | - Rodrigo Cajade
- Herpetology Laboratory, National University of the Northeast, Corrientes, Argentina
| | - Jose M Piñeiro
- Herpetology Laboratory, National University of the Northeast, Corrientes, Argentina
| | - Ana M Torres
- Natural Products Laboratory, National University of the Northeast, Corrientes, Argentina
| | - Igor R F da Silva
- Department of Pharmacology, School of Medical Sciences, State University of Campinas (UNICAMP), Campinas, SP, Brazil
| | - Stephen Hyslop
- Department of Pharmacology, School of Medical Sciences, State University of Campinas (UNICAMP), Campinas, SP, Brazil
| | - Laura C Leiva
- Protein Research Laboratory (LabInPro), IQUIBA-NEA CONICET, National University of the Northeast, Corrientes, Argentina
| | - Daniel C Pimenta
- Laboratory of Biochemistry and Biophysics, Butantan Institute, São Paulo, SP, Brazil
| | - Soledad Bustillo
- Protein Research Laboratory (LabInPro), IQUIBA-NEA CONICET, National University of the Northeast, Corrientes, Argentina
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Gutierrez N, Torres AM. Characterization and diagnostic marker for TTG1 regulating tannin and anthocyanin biosynthesis in faba bean. Sci Rep 2019; 9:16174. [PMID: 31700069 PMCID: PMC6838129 DOI: 10.1038/s41598-019-52575-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2019] [Accepted: 10/11/2019] [Indexed: 02/07/2023] Open
Abstract
Condensed tannins, found in coloured-flowering varieties of faba bean (Vicia faba L) are, after vicine and convicine, one of the major anti-nutritional factors for monogastric animals. The development of tannin-free cultivars is a key goal in breeding to broaden the use of this legume in the animal feed industry. Two recessive genes, zt-1 and zt-2, control the zero-tannin content and promote white-flowered plants. Previous studies exploiting synteny with the model Medicago truncatula reported a mutation in TTG1, a gene encoding a WD40 transcription factor located in chromosome II, as the responsible for the zt-1 phenotypes. Here a comprehensive analysis of VfTTG1 (including phylogenetic relationships, gene structure and gene expression) has been conducted to confirm the identity of the gene and to reveal structural changes that may result in different functional alleles. The results confirmed the identity of the candidate and revealed the existence of two different alleles responsible for the phenotype: ttg1-a, probably due to a mutation in the promoter region, and ttg1-b caused by a deletion at the 5′end of VfTTG1. Based on the sequencing results, an allele-specific diagnostic marker was designed that differentiate zt-1 from wild and zt-2 genotypes and facilitates its deployment in faba bean breeding programs.
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Affiliation(s)
- Natalia Gutierrez
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain.
| | - Ana M Torres
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain
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Calzada M, López N, Noguera JA, Mendiola J, Torres AM. Elevation of isoprostanes in polycystic ovary syndrome and its relationship with cardiovascular risk factors. J Endocrinol Invest 2019; 42:75-83. [PMID: 29687417 DOI: 10.1007/s40618-018-0888-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/06/2017] [Accepted: 04/10/2018] [Indexed: 12/30/2022]
Abstract
PURPOSE To evaluate the plasma level of 8-isoprostanes in women with polycystic ovary syndrome. To also investigate whether there is a relationship between 8-isoprostanes and several cardiovascular risk factors. METHODS A total of 125 women with polycystic ovary syndrome and 169 healthy women were enrolled in this case-control study. 8-Isoprostanes and different parameters were measured in all subjects. Patients were evaluated for the presence of polycystic ovary syndrome according to the Rotterdam Consensus Conference criteria. RESULTS 8-Isoprostanes levels were significantly higher in patients with polycystic ovary syndrome (138.4 ± 104.1 pg/mL) compared with control group (68.6 ± 34.3 pg/mL) (p < 0.001). The mean of triglycerides, lipid accumulation product, C-reactive protein, homocysteine, insulin, and homeostatic model assessment for insulin resistance were significantly higher in polycystic ovary syndrome patients with high 8-isoprostanes than those with normal 8-isoprostanes (p < 0.05). The Pearson correlation analyses showed that 8-isoprostanes levels in polycystic ovary syndrome group had a positive correlation with waist circumference, triglycerides, low-density lipoprotein cholesterol, apolipoprotein B, homocysteine, insulin, homeostatic model assessment for insulin resistance. CONCLUSIONS Patients with polycystic ovary syndrome have higher 8-isoprostanes levels and it is associated with several cardiovascular risk factors.
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Affiliation(s)
- M Calzada
- Clinical Analysis Service, Hospital University "Virgen de la Arrixaca", Ctra. Madrid-Cartagena, s/n, El Palmar, 30120, Murcia, Spain.
| | - N López
- Clinical Analysis Service, Hospital University "Virgen de la Arrixaca", Ctra. Madrid-Cartagena, s/n, El Palmar, 30120, Murcia, Spain
| | - J A Noguera
- Clinical Analysis Service, Hospital University "Virgen de la Arrixaca", Ctra. Madrid-Cartagena, s/n, El Palmar, 30120, Murcia, Spain
| | - J Mendiola
- Division of Preventive Medicine and Public Health, Department of Health and Social Sciences, University of Murcia, Murcia, Spain
| | - A M Torres
- Division of Preventive Medicine and Public Health, Department of Health and Social Sciences, University of Murcia, Murcia, Spain
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Ganuza M, Pastor N, Boccolini M, Erazo J, Palacios S, Oddino C, Reynoso MM, Rovera M, Torres AM. Evaluating the impact of the biocontrol agent Trichoderma harzianum ITEM 3636 on indigenous microbial communities from field soils. J Appl Microbiol 2018; 126:608-623. [PMID: 30382616 DOI: 10.1111/jam.14147] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Revised: 10/09/2018] [Accepted: 10/22/2018] [Indexed: 11/30/2022]
Abstract
AIM To investigate the impact of inoculating peanut seeds with the biocontrol agent Trichoderma harzianum ITEM 3636 on the structure of bacterial and fungal communities from agricultural soils. METHODS AND RESULTS Polymerase chain reaction (PCR)-denaturing gradient gel electrophoresis (PCR-DGGE) and next-generation sequencing (NGS) of amplicons (or marker gene amplification metagenomics) were performed to investigate potential changes in the structure of microbial communities from fields located in a peanut-producing area in the province of Córdoba, Argentina. Fields had history of peanut smut (caused by Thecaphora frezii) incidence. The Shannon indexes (H'), which estimate diversity, obtained from the PCR-DGGE assays did not show significant differences neither for bacterial nor for fungal communities between control and inoculation treatments. On the other hand, the number of operational taxonomic units obtained after NGS was similar between all the analysed samples. Moreover, results of alpha and beta diversity showed that there were no significant variations between the relative abundances of the most representative bacterial and fungal phyla and genera, in both fields. CONCLUSIONS Trichoderma harzianum ITEM 3636 decreases the incidence and severity of agriculturally relevant diseases without causing significant changes in the microbial communities of agricultural soils. SIGNIFICANCE AND IMPACT OF THE STUDY Our investigations provide information on the structure of bacterial and fungal communities in peanut-producing fields after inoculation of seeds with a biocontrol agent.
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Affiliation(s)
- M Ganuza
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.,UNRC-CONICET, Río Cuarto, Argentina
| | - N Pastor
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.,UNRC-CONICET, Río Cuarto, Argentina
| | - M Boccolini
- INTA EEA - Instituto Nacional de Tecnología Agropecuaria Estación Experimental Marcos Juárez, Marcos Juárez, Córdoba, Argentina
| | - J Erazo
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.,UNRC-CONICET, Río Cuarto, Argentina
| | - S Palacios
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.,UNRC-CONICET, Río Cuarto, Argentina
| | - C Oddino
- Facultad de Agronomía y Veterinaria, UNRC, Río Cuarto, Córdoba, Argentina
| | - M M Reynoso
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.,UNRC-CONICET, Río Cuarto, Argentina
| | - M Rovera
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina
| | - A M Torres
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.,UNRC-CONICET, Río Cuarto, Argentina
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Zambrano AR, Quesada JC, Torres AM, Escobar J, Prasad ML, Renjifo ME, Pabón LM. Diagnostically Challenging Case: Metastatic Hepatocellular Carcinoma With No Liver Lesion at Imaging. J Glob Oncol 2018; 4:1-5. [PMID: 30241223 PMCID: PMC6180752 DOI: 10.1200/jgo.17.00009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Affiliation(s)
- Angela R Zambrano
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
| | - Juan C Quesada
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
| | - Ana M Torres
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
| | - Juliana Escobar
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
| | - Manju L Prasad
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
| | - Martín E Renjifo
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
| | - Luz M Pabón
- Angela R. Zambrano, Juan C. Quesada, Ana M. Torres, Juliana Escobar, Martín E. Renjifo, and Luz M. Pabón, Fundación Valle del Lili, Cali, Colombia; and Manju L. Prasad, Yale University School of Medicine, New Haven, CT
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Palazzini JM, Torres AM, Chulze SN. Tolerance of triazole-based fungicides by biocontrol agents used to control Fusarium head blight in wheat in Argentina. Lett Appl Microbiol 2018; 66:434-438. [PMID: 29478269 DOI: 10.1111/lam.12869] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2017] [Revised: 02/16/2018] [Accepted: 02/17/2018] [Indexed: 10/17/2022]
Abstract
Fusarium head blight (FHB) caused by Fusarium graminearum species complex is a devastating disease that causes extensive yield and quality losses to wheat around the world. Fungicide application and breeding for resistance are among the most important tools to counteract FHB. Biological control is an additional tool that can be used as part of an integrated management of FHB. Bacillus velezensisRC 218, Brevibacillus sp. RC 263 and Streptomyces sp. RC 87B were selected by their potential to control FHB and deoxynivalenol production. The aim of this work was to test the tolerance of these biocontrol agents to triazole-based fungicides such as prothioconazole, tebuconazole and metconazole. Bacterial growth was evaluated in Petri dishes using the spread plating technique containing the different fungicides. Bacillus velezensisRC 218 and Streptomyces sp. RC 87B showed better tolerance to fungicides than Brevibacillus sp. RC 263. Complete growth inhibition was observed at concentrations of 20 μg ml-1 for metconazole, 40 μg ml-1 for tebuconazole and 80 μg ml-1 for prothioconazole. The results obtained indicate the possibility of using these biocontrol agents in combination with fungicides as part of an integrated management to control FHB of wheat. SIGNIFICANCE AND IMPACT OF THE STUDY This study evaluates the possibility to use biocontrol agents (Bacillus velezensisRC 218, Brevibacillus sp. RC 263 and Streptomyces sp. RC 87B) in combination with triazole-based fungicides to control Fusarium head blight in wheat. The evaluation of biocontrol agents' growth under in vitro conditions was carried out in Petri dishes containing either prothioconazole, tebuconazole or metconazole. Viability studies demonstrated that B. velezensisRC 218 and Streptomyces sp. RC 87B were more tolerant to the fungicides evaluated. Results obtained reflect the possibility to use fungicides at low doses combined with biocontrol agents.
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Affiliation(s)
- J M Palazzini
- Facultad de Ciencias Exactas Físico Químicas y Naturales, Departamento de Microbiología e Inmunología, Universidad Nacional de Río Cuarto, Córdoba, Argentina.,Miembro del Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
| | - A M Torres
- Facultad de Ciencias Exactas Físico Químicas y Naturales, Departamento de Microbiología e Inmunología, Universidad Nacional de Río Cuarto, Córdoba, Argentina.,Miembro del Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
| | - S N Chulze
- Facultad de Ciencias Exactas Físico Químicas y Naturales, Departamento de Microbiología e Inmunología, Universidad Nacional de Río Cuarto, Córdoba, Argentina.,Miembro del Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
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Eckhardt BL, Torres AM, Woodward WA, Krishnamurthy S, Meric-Bernstam F, Ueno NT. Abstract P3-07-04: EphA2: An emerging target in triple-negative breast cancer. Cancer Res 2018. [DOI: 10.1158/1538-7445.sabcs17-p3-07-04] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Abstract
Purpose: Breast tumors classified as 'triple negative' (TNBC) lack defining markers ER/PR/HER2 and do not have clinically-approved targeted therapy. This heterogeneous classification of breast cancers, while immediately responsive to standard chemotherapy, commonly develop resistance and have a poor five-year survival rate. As such, the identification of new therapeutic targets are warranted. As part of our drug discovery platform, we have identified EphA2, as a synthetic-lethal gene that enhances the therapeutic action of FDA-approved, anti-inflammatory compounds. Thus we sought to ascertain the relevance of EphA2-targeted therapy in TNBC, through the evaluation of the marker in preclinical and clinical specimens.
Methods: Sixty-one human and murine breast cancer cell lines or patient-derived xenografts were collated. Protein lysates were created from cells in vitro or from respective tumors established from cells implanted into NSG mice. Forty-nine tumors established (minimum 500mm3) and were surgically removed, fixed in formalin and paraffin embedded. A TMA was constructed with tumor specimens represented twice on the array and reflected all molecular subtypes including; ER-positive (n=5), PR-positive (n=3), HER2-positive (n=9) and TNBC (n=31). Immunostaining for EphA2 was performed with the rabbit monoclonal antibody EphA2 (D4A2) XP (Cell Signaling, #6997) using manufacturer's instructions. Immunostaining was evaluated using the H-score method (score between 0-300), with positive staining for EphA2 reflecting a score of 100 or greater. Analysis of breast cancer lysates by western blot was analyzed by absolute and relative quantitation methods; gene expression data was assessed through Oncomine or using the BreastMark algorithm (http://glados.ucd.ie/BreastMark/). This algorithm integrates gene expression and survival data from 26 datasets on 12 different microarray platforms corresponding to ˜17,000 genes in up to 4,738 samples.
Results: In an integrated gene expression platform (BreastMark), we observed that elevated EphA2 expression was associated with poor prognosis in a cohort of TNBC patient tumor samples. Western blot analysis of EphA2 protein on breast cancer cell lines, identified a greater percentage of TNBC cells expressing EphA2 compared to non-TNBC cell lines. EphA2 immunostaining was observed in the majority of tumor tissues. When present on cancer cells, EphA2 localized to the cell surface; while displaying ubiquitous localization within stromal populations. Cell surface expression of EphA2 on cancer cells was largely restricted to TNBC tumors (11/31 tumors, 35.5%) compared to other molecular subtypes (1/13 non-TNBC tumors, 7.7%; p = 0.0294). Expression of EphA2 in stromal cell populations was similar between groups (TNBC = 22/31, non-TNBC = 11/13; p = 0.1711).
Conclusions: Our analysis determined that EphA2 was specifically expressed on cancer cells derived from tumors with a 'triple-negative' molecular subtype. Collectively our data suggests that EphA2 is an emerging target in TNBC and that therapies directed against EphA2 may provide a significant benefit for a majority of patients that express this marker.
Citation Format: Eckhardt BL, Torres AM, Woodward WA, Krishnamurthy S, Meric-Bernstam F, Ueno NT. EphA2: An emerging target in triple-negative breast cancer [abstract]. In: Proceedings of the 2017 San Antonio Breast Cancer Symposium; 2017 Dec 5-9; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2018;78(4 Suppl):Abstract nr P3-07-04.
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Affiliation(s)
- BL Eckhardt
- The University of Texas MD Anderson Cancer Center, Houston, TX
| | - AM Torres
- The University of Texas MD Anderson Cancer Center, Houston, TX
| | - WA Woodward
- The University of Texas MD Anderson Cancer Center, Houston, TX
| | - S Krishnamurthy
- The University of Texas MD Anderson Cancer Center, Houston, TX
| | | | - NT Ueno
- The University of Texas MD Anderson Cancer Center, Houston, TX
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Ocaña-Moral S, Gutiérrez N, Torres AM, Madrid E. Saturation mapping of regions determining resistance to Ascochyta blight and broomrape in faba bean using transcriptome-based SNP genotyping. Theor Appl Genet 2017; 130:2271-2282. [PMID: 28791437 DOI: 10.1007/s00122-017-2958-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2017] [Accepted: 07/26/2017] [Indexed: 05/16/2023]
Abstract
Transcriptome-based SNP markers were genotyped in a faba bean map to saturate regions bearing QTL for Ascochyta fabae and broomrape and distinguish positional and functional candidates underlying both resistances. Faba bean is an important food crop worldwide. Marker-assisted selection for disease resistance is a top priority in current faba bean research programs, with pathogens such as Ascochyta fabae and broomrape (Orobanche crenata) being among the major constraints in global faba bean production. However, progress in genetics and genomics in this species has lagged behind that of other grain legumes. Although genetic maps are available, most markers are not in or are too distant from target genes to enable an accurate prediction of the desired phenotypes. In this study, a set of SNP markers located in gene coding regions was selected using transcriptomic data. Ninety-two new SNP markers were genotyped to obtain the most complete map reported so far in the 29H × Vf136 faba bean population. Most of the QTL regions previously described in this cross were enriched with SNP markers. Two QTLs for O. crenata resistance (Oc7 and Oc8) were confirmed. Oc7 and Oc10 located nearby a QTL for A. fabae resistance suggested that these genomic regions might encode common resistance mechanisms and could be targets for selection strategies against both pathogens. We also confirmed three regions in chromosomes II (Af2), III (Af3) and VI associated with Ascochyta blight resistance. The QTLs ratified in the present study are now flanked by or include reliable SNP markers in their intervals. This new information provides a valuable starting point in the search for relevant positional and functional candidates underlying both types of resistance.
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Affiliation(s)
- S Ocaña-Moral
- Área de Genómica y Biotecnología, IFAPA Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain
| | - N Gutiérrez
- Área de Genómica y Biotecnología, IFAPA Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain
- ZAYINTEC, edificio PITA, Universidad de Almería, 04120, Almería, Spain
| | - A M Torres
- Área de Genómica y Biotecnología, IFAPA Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain.
| | - E Madrid
- Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linne Weg 10, 50829, Cologne, Germany
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Chaves A, Aguirre AA, Blanco-Peña K, Moreira-Soto A, Monge O, Torres AM, Soto-Rivas JL, Lu Y, Chacón D, Fonseca L, Jiménez M, Gutiérrez-Espeleta G, Lierz M. Examining the Role of Transmission of Chelonid Alphaherpesvirus 5. Ecohealth 2017; 14:530-541. [PMID: 28512730 DOI: 10.1007/s10393-017-1248-7] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2016] [Revised: 04/14/2017] [Accepted: 05/01/2017] [Indexed: 06/07/2023]
Abstract
Marine turtle fibropapillomatosis (FP) is a devastating neoplastic disease characterized by single or multiple cutaneous and visceral fibrovascular tumors. Chelonid alphaherpesvirus 5 (ChHV5) has been identified as the most likely etiologic agent. From 2010 to 2013, the presence of ChHV5 DNA was determined in apparently normal skin, tumors and swab samples (ocular, nasal and cloacal) collected from 114 olive ridley (Lepidochelys olivacea) and 101 green (Chelonia mydas) turtles, with and without FP tumors, on the Pacific coasts of Costa Rica and Nicaragua. For nesting olive ridley turtles from Costa Rica without FP, 13.5% were found to be positive for ChHV5 DNA in at least one sample, while in Nicaragua, all olive ridley turtles had FP tumors, and 77.5% tested positive for ChHV5 DNA. For green turtles without FP, 19.8% were found to be positive for ChHV5 DNA in at least one of the samples. In turtles without FP tumors, ChHV5 DNA was detected more readily in skin biopsies than swabs. Juvenile green turtles caught at the foraging site had a higher prevalence of ChHV5 DNA than adults. The presence of ChHV5 DNA in swabs suggests a possible route of viral transmission through viral secretion and excretion via corporal fluids.
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Affiliation(s)
- Andrea Chaves
- Clinic for Birds, Reptiles, Amphibians and Fish, Justus-Liebig-University Giessen, Frankfurte Str. 91-93, 35392, Giessen, Germany.
- Escuela de Biología, Universidad de Costa Rica, San Jose, 11501-2060, Costa Rica.
| | - A Alonso Aguirre
- Department of Environmental Science and Policy, George Mason University, 4400 University Dr, Fairfax, VA, USA
| | - Kinndle Blanco-Peña
- Escuela de Ciencias Biológicas, Universidad Nacional, Heredia, 86-3000, Costa Rica
| | - Andrés Moreira-Soto
- Centro de Investigación en Enfermedades Tropicales, Facultad de Microbiología, Universidad de Costa Rica, San Jose, 2060-1000, Costa Rica
| | - Otto Monge
- Escuela de Biología, Universidad de Costa Rica, San Jose, 11501-2060, Costa Rica
| | - Ana M Torres
- Escuela de Medicina Veterinaria, Universidad Nacional, Heredia, 86-3000, Costa Rica
| | - José L Soto-Rivas
- Facultad de Ciencias Agrarias, Universidad de Ciencias Comerciales, P-84, Managua, Nicaragua
| | - Yuanan Lu
- Environmental Health, Department of Public Health Sciences, University of Hawaii at Mānoa, 1960 East-West Road, Biomed D105, Honolulu, HI, USA
| | | | - Luis Fonseca
- WIDECAST Costa Rica, San Jose, 496-1100, Costa Rica
| | - Mauricio Jiménez
- Centro de Investigación en Enfermedades Tropicales, Facultad de Microbiología, Universidad de Costa Rica, San Jose, 2060-1000, Costa Rica
| | | | - Michael Lierz
- Clinic for Birds, Reptiles, Amphibians and Fish, Justus-Liebig-University Giessen, Frankfurte Str. 91-93, 35392, Giessen, Germany
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Seoane P, Ocaña S, Carmona R, Bautista R, Madrid E, M. Torres A, Gonzalo Claros M. AutoFlow, a Versatile Workflow Engine Illustrated by Assembling an Optimised de novo Transcriptome for a Non-Model Species, such as Faba Bean (Vicia faba). Curr Bioinform 2016. [DOI: 10.2174/1574893611666160212235117] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Torres AM, Scheiner S, Roy AK, Garay-Tapia AM, Bustamante J, Kar T. Segmentation and additive approach: A reliable technique to study noncovalent interactions of large molecules at the surface of single-wall carbon nanotubes. J Comput Chem 2016; 37:1953-61. [PMID: 27241227 DOI: 10.1002/jcc.24414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2016] [Revised: 04/29/2016] [Accepted: 05/07/2016] [Indexed: 11/05/2022]
Abstract
This investigation explores a new protocol, named Segmentation and Additive approach (SAA), to study exohedral noncovalent functionalization of single-walled carbon nanotubes with large molecules, such as polymers and biomolecules, by segmenting the entire system into smaller units to reduce computational cost. A key criterion of the segmentation process is the preservation of the molecular structure responsible for stabilization of the entire system in smaller segments. Noncovalent interaction of linoleic acid (LA, C18 H32 O2 ), a fatty acid, at the surface of a (10,0) zigzag nanotube is considered for test purposes. Three smaller segmented models have been created from the full (10,0)-LA system and interaction energies were calculated for these models and compared with the full system at different levels of theory, namely ωB97XD, LDA. The success of this SAA is confirmed as the sum of the interaction energies is in very good agreement with the total interaction energy. Besides reducing computational cost, another merit of SAA is an estimation of the contributions from different sections of the large system to the total interaction energy which can be studied in-depth using a higher level of theory to estimate several properties of each segment. On the negative side, bulk properties, such as HOMO-LUMO (highest occupied molecular orbital - lowest occupied molecular orbital) gap, of the entire system cannot be estimated by adding results from segment models. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Ana M Torres
- Grupo de Dinámica Cardiovascular, Centro de Bioingeniería, Universidad Pontificia Bolivariana, Bloque 22C, Planta 2a Circular 1a No 73-76, Medellín, Colombia.,Grupo de Termodinámica Computacional, Centro de Investigaciû°n en Materiales Avanzados (CIMAV), Unidad Monterrey, Alianza Norte 202. Parque PIIT, Apodaca, Nuevo León, México
| | - Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah, 84322-0300, USA
| | - Ajit K Roy
- Materials and Manufacturing Directorate, Air Force Research Laboratory, Wright-Patterson Air Force Base, Dayton, Ohio, 45433, USA
| | - Andrés M Garay-Tapia
- Grupo de Termodinámica Computacional, Centro de Investigaciû°n en Materiales Avanzados (CIMAV), Unidad Monterrey, Alianza Norte 202. Parque PIIT, Apodaca, Nuevo León, México
| | - John Bustamante
- Grupo de Dinámica Cardiovascular, Centro de Bioingeniería, Universidad Pontificia Bolivariana, Bloque 22C, Planta 2a Circular 1a No 73-76, Medellín, Colombia
| | - Tapas Kar
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah, 84322-0300, USA
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Ocaña S, Seoane P, Bautista R, Palomino C, Claros GM, Torres AM, Madrid E. Large-Scale Transcriptome Analysis in Faba Bean (Vicia faba L.) under Ascochyta fabae Infection. PLoS One 2015; 10:e0135143. [PMID: 26267359 PMCID: PMC4534337 DOI: 10.1371/journal.pone.0135143] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2015] [Accepted: 07/17/2015] [Indexed: 12/21/2022] Open
Abstract
Faba bean is an important food crop worldwide. However, progress in faba bean genomics lags far behind that of model systems due to limited availability of genetic and genomic information. Using the Illumina platform the faba bean transcriptome from leaves of two lines (29H and Vf136) subjected to Ascochyta fabae infection have been characterized. De novo transcriptome assembly provided a total of 39,185 different transcripts that were functionally annotated, and among these, 13,266 were assigned to gene ontology against Arabidopsis. Quality of the assembly was validated by RT-qPCR amplification of selected transcripts differentially expressed. Comparison of faba bean transcripts with those of better-characterized plant genomes such as Arabidopsis thaliana, Medicago truncatula and Cicer arietinum revealed a sequence similarity of 68.3%, 72.8% and 81.27%, respectively. Moreover, 39,060 single nucleotide polymorphism (SNP) and 3,669 InDels were identified for genotyping applications. Mapping of the sequence reads generated onto the assembled transcripts showed that 393 and 457 transcripts were overexpressed in the resistant (29H) and susceptible genotype (Vf136), respectively. Transcripts involved in plant-pathogen interactions such as leucine rich proteins (LRR) or plant growth regulators involved in plant adaptation to abiotic and biotic stresses were found to be differently expressed in the resistant line. The results reported here represent the most comprehensive transcript database developed so far in faba bean, providing valuable information that could be used to gain insight into the pathways involved in the resistance mechanism against A. fabae and to identify potential resistance genes to be further used in marker assisted selection.
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Affiliation(s)
- Sara Ocaña
- Área de Mejora y Biotecnología, IFAPA Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain
| | - Pedro Seoane
- Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, E-29071, Málaga, Spain
| | - Rocio Bautista
- Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071, Málaga, Spain
| | - Carmen Palomino
- Área de Mejora y Biotecnología, IFAPA Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain
| | - Gonzalo M. Claros
- Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, E-29071, Málaga, Spain
- Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071, Málaga, Spain
| | - Ana M. Torres
- Área de Mejora y Biotecnología, IFAPA Centro Alameda del Obispo, Apdo 3092, E-14080, Córdoba, Spain
| | - Eva Madrid
- Institute for Sustainable Agriculture, CSIC, Apdo 4084, E-14080, Córdoba, Spain
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Giaj Merlera G, Muñoz S, Coelho I, Cavaglieri LR, Torres AM, Reynoso MM. Diversity of black Aspergilli isolated from raisins in Argentina: Polyphasic approach to species identification and development of SCAR markers for Aspergillus ibericus. Int J Food Microbiol 2015; 210:92-101. [PMID: 26114593 DOI: 10.1016/j.ijfoodmicro.2015.05.025] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2015] [Revised: 05/19/2015] [Accepted: 05/29/2015] [Indexed: 11/27/2022]
Abstract
Aspergillus section Nigri is a heterogeneous fungal group including some ochratoxin A producer species that usually contaminate raisins. The section contains the Series Carbonaria which includes the toxigenic species Aspergillus carbonarius and nontoxigenic Aspergillus ibericus that are phenotypically undistinguishable. The aim of this study was to examine the diversity of black aspergilli isolated from raisins and to develop a specific genetic marker to distinguish A. ibericus from A. carbonarius. The species most frequently found in raisins in this study were Aspergillus tubingensis (35.4%) and A. carbonarius (32.3%), followed by Aspergillus luchuensis (10.7%), Aspergillus japonicus (7.7%), Aspergillus niger (6.2%), Aspergillus welwitschiae (4.6%) and A. ibericus (3.1%). Based on inter-simple sequence repeat (ISSR) fingerprinting profiles of major Aspergillus section Nigri members, a sequence-characterized amplified region (SCAR) marker was identified. Primers were designed based on the conserved regions of the SCAR marker and were utilized in a PCR for simultaneous identification of A. carbonarius and A. ibericus. The detection level of the SCAR-PCR was found to be 0.01 ng of purified DNA. The present SCAR-PCR is rapid and less cumbersome than conventional identification techniques and could be a supplementary strategy and a reliable tool for high-throughput sample analysis.
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Affiliation(s)
- G Giaj Merlera
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, 5800 Río Cuarto, Córdoba, Argentina; CONICET, Argentina
| | - S Muñoz
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, 5800 Río Cuarto, Córdoba, Argentina
| | - I Coelho
- Laboratório de Bacteriologia Veterinária, IV-UFRRJ, Seropédica, RJ, Brazil
| | - L R Cavaglieri
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, 5800 Río Cuarto, Córdoba, Argentina; The Research Career of CONICET, Argentina
| | - A M Torres
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, 5800 Río Cuarto, Córdoba, Argentina; The Research Career of CONICET, Argentina.
| | - M M Reynoso
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, 5800 Río Cuarto, Córdoba, Argentina; The Research Career of CONICET, Argentina
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Torres AM, Nardis AC, da Silva RA, Savioli C. Myositis ossificans traumatica of the medial pterygoid muscle following a third molar extraction. Int J Oral Maxillofac Surg 2014; 44:488-90. [PMID: 25487562 DOI: 10.1016/j.ijom.2014.11.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2014] [Revised: 09/18/2014] [Accepted: 11/06/2014] [Indexed: 10/24/2022]
Abstract
Myositis ossificans (MO) is a rare disease involving heterotopic ossification in the muscle or soft tissue. Myositis ossificans traumatica (MOT) disease presents as a calcification within the injured muscle, resulting from a single or repetitive injury. There are few reports of MOT in the masticatory muscles. The case of a patient with MOT in the medial pterygoid muscle caused by a complication related to the extraction of an erupted upper third molar is reported. The major symptom was severe trismus. Despite surgical treatment, the disease relapsed. MOT can lead to serious consequences for the patient. Its aetiopathogenesis needs to be better understood, so that the most appropriate treatment is established and relapses are minimized. This will improve the quality of life of these patients.
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Affiliation(s)
- A M Torres
- Department of Oral and Maxillofacial Surgery, Vila Penteado General Hospital, São Paulo, Brazil; Dental Centre, Polícia Militar de São Paulo, São Paulo, Brazil
| | - A C Nardis
- Department of Oral and Maxillofacial Surgery, Vila Penteado General Hospital, São Paulo, Brazil.
| | - R A da Silva
- Department of Oral and Maxillofacial Surgery, Vila Penteado General Hospital, São Paulo, Brazil
| | - C Savioli
- Dental Centre, Polícia Militar de São Paulo, São Paulo, Brazil; Dentistry Division, Hospital das Clinicas da Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil
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Ariza F, Montilla-Coral D, Franco O, González LF, Lozano LC, Torres AM, Jordán J, Blanco LF, Suárez L, Cruz G, Cepeda M. Adverse events related to gastrointestinal endoscopic procedures in pediatric patients under anesthesia care and a predictive risk model (AEGEP Study). ACTA ACUST UNITED AC 2014; 61:362-8. [PMID: 24661725 DOI: 10.1016/j.redar.2014.01.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2013] [Revised: 12/20/2013] [Accepted: 01/20/2014] [Indexed: 11/30/2022]
Abstract
BACKGROUND Multiple studies have analyzed perioperative factors related to adverse events (AEs) in children who require gastrointestinal endoscopic procedures (GEP) in settings where deep sedation is the preferred anesthetic technique over general anesthesia (GA) but not for the opposite case. METHODS We reviewed our anesthesia institutional database, seeking children less than 12 years who underwent GEP over a 5-year period. A logistic regression was used to determine significant associations between preoperative conditions, characteristics of the procedure, airway management, anesthetic approaches and the presence of serious and non-serious AEs. RESULTS GA was preferred over deep sedation [77.8% vs. 22.2% in 2178 GEP under anesthesia care (n=1742)]. We found 96 AEs reported in 77 patients, including hypoxemia (1.82%), bronchospasm (1.14%) and laryngospasm (0.91%) as the most frequent. There were 2 cases of severe bradycardia related to laryngospasm/hypoxemia and a case of aspiration resulting in unplanned hospitalization, but there were no cases of intra- or postoperative deaths. Final predictive model for perioperative AEs included age <1 year, upper respiratory tract infections (URTI) <1 week prior to the procedure and low weight for the age (LWA) as independent risk factors and ventilation by facial mask as a protector against these events (p<0.05). CONCLUSIONS AEs are infrequent and severe ones are remote in a setting where AG is preferred over deep sedation. Ventilatory AEs are the most frequent and depend on biometrical and comorbid conditions more than anesthetic drugs chosen. Age <1 year, history of URTI in the week prior to the procedure and LWA work as independent risk factors for AEs in these patients.
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Affiliation(s)
- F Ariza
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia.
| | - D Montilla-Coral
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - O Franco
- Department of Pediatric Surgery, Fundación Valle del Lili, Cali, Colombia
| | - L F González
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - L C Lozano
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - A M Torres
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - J Jordán
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - L F Blanco
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - L Suárez
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - G Cruz
- Department of Anesthesia and Perioperative Medicine, Fundación Valle del Lili, Cali, Colombia
| | - M Cepeda
- Clinical Research Unit, Fundación Valle del Lili, Cali, Colombia
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Satovic Z, Avila CM, Cruz-Izquierdo S, Díaz-Ruíz R, García-Ruíz GM, Palomino C, Gutiérrez N, Vitale S, Ocaña-Moral S, Gutiérrez MV, Cubero JI, Torres AM. A reference consensus genetic map for molecular markers and economically important traits in faba bean (Vicia faba L.). BMC Genomics 2013; 14:932. [PMID: 24377374 PMCID: PMC3880837 DOI: 10.1186/1471-2164-14-932] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2013] [Accepted: 12/12/2013] [Indexed: 01/09/2023] Open
Abstract
BACKGROUND Faba bean (Vicia faba L.) is among the earliest domesticated crops from the Near East. Today this legume is a key protein feed and food worldwide and continues to serve an important role in culinary traditions throughout Middle East, Mediterranean region, China and Ethiopia. Adapted to a wide range of soil types, the main faba bean breeding objectives are to improve yield, resistance to biotic and abiotic stresses, seed quality and other agronomic traits. Genomic approaches aimed at enhancing faba bean breeding programs require high-quality genetic linkage maps to facilitate quantitative trait locus analysis and gene tagging for use in a marker-assisted selection. The objective of this study was to construct a reference consensus map in faba bean by joining the information from the most relevant maps reported so far in this crop. RESULTS A combination of two approaches, increasing the number of anchor loci in diverse mapping populations and joining the corresponding genetic maps, was used to develop a reference consensus map in faba bean. The map was constructed from three main recombinant inbreed populations derived from four parental lines, incorporates 729 markers and is based on 69 common loci. It spans 4,602 cM with a range from 323 to 1041 loci in six main linkage groups or chromosomes, and an average marker density of one locus every 6 cM. Locus order is generally well maintained between the consensus map and the individual maps. CONCLUSION We have constructed a reliable and fairly dense consensus genetic linkage map that will serve as a basis for genomic approaches in faba bean research and breeding. The core map contains a larger number of markers than any previous individual map, covers existing gaps and achieves a wider coverage of the large faba bean genome as a whole. This tool can be used as a reference resource for studies in different genetic backgrounds, and provides a framework for transferring genetic information when using different marker technologies. Combined with syntenic approaches, the consensus map will increase marker density in selected genomic regions and will be useful for future faba bean molecular breeding applications.
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Affiliation(s)
- Zlatko Satovic
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
- Present addresses: Department of Seed Science and Technology, Faculty of Agriculture, University of Zagreb, Zagreb, Croatia
| | - Carmen M Avila
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - Serafin Cruz-Izquierdo
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
- Colegio de Postgraduados, Recursos Genéticos y Productividad – Genética, Campus Montecillo, Km 36.5 Carretera México-Texcoco, C.P., Texcoco, Edo. de México 56230, México
| | - Ramón Díaz-Ruíz
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
- Colegio de Postgraduados, Campus Puebla, Km 125.5 Carretera México-Puebla, C.P., Puebla, Pue 72760, México
| | - Gloria M García-Ruíz
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - Carmen Palomino
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - Natalia Gutiérrez
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - Stefania Vitale
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - Sara Ocaña-Moral
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - María Victoria Gutiérrez
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
| | - José I Cubero
- Departamento de Mejora Genética, IAS-CSIC, Apdo. 4084, Córdoba 14080, Spain
| | - Ana M Torres
- IFAPA, Centro Alameda del Obispo, Área de Mejora y Biotecnología, Avda. Menéndez Pidal s/n, Apdo. 3092, Córdoba 14080, Spain
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Torres AM, Lopez JJ, Pueo B, Cobos M. Room acoustics analysis using circular arrays: an experimental study based on sound field plane-wave decomposition. J Acoust Soc Am 2013; 133:2146-2156. [PMID: 23556584 DOI: 10.1121/1.4792938] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Plane-wave decomposition (PWD) methods using microphone arrays have been shown to be a very useful tool within the applied acoustics community for their multiple applications in room acoustics analysis and synthesis. While many theoretical aspects of PWD have been previously addressed in the literature, the practical advantages of the PWD method to assess the acoustic behavior of real rooms have been barely explored so far. In this paper, the PWD method is employed to analyze the sound field inside a selected set of real rooms having a well-defined purpose. To this end, a circular microphone array is used to capture and process a number of impulse responses at different spatial positions, providing angle-dependent data for both direct and reflected wavefronts. The detection of reflected plane waves is performed by means of image processing techniques applied over the raw array response data and over the PWD data, showing the usefulness of image-processing-based methods for room acoustics analysis.
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Affiliation(s)
- Ana M Torres
- I.E.E.A.C. Department, Universidad Castilla-La Mancha, 16071, Cuenca, Spain.
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Casasnovas F, Fantini EN, Palazzini JM, Giaj-Merlera G, Chulze SN, Reynoso MM, Torres AM. Development of amplified fragment length polymorphism (AFLP)-derived specific primer for the detection of Fusarium solani aetiological agent of peanut brown root rot. J Appl Microbiol 2013; 114:1782-92. [PMID: 23472596 DOI: 10.1111/jam.12183] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2012] [Revised: 02/15/2013] [Accepted: 02/27/2013] [Indexed: 11/30/2022]
Abstract
AIMS The objective of this work was to design an amplified fragment length polymorphism (AFLP)-derived specific primer for the detection of Fusarium solani aetiological agent of peanut brown root rot (PBRR) in plant material and soil. METHODS AND RESULTS Specific primers for the detection of the pathogen were designed based on an amplified region using AFLPs. The banding patterns by AFLPs showed that isolates from diseased roots were clearly distinguishable from others members of the F. solani species complex. Many bands were specific to F. solani PBRR, one of these fragments was selected and sequenced. Sequence obtained was used to develop specific PCR primers for the identification of pathogen in pure culture and in plant material and soil. Primer pair FS1/FS2 amplified a single DNA product of 175 bp. Other fungal isolates occurring in soil, included F. solani non-PBRR, were not detected by these specific primers. The assay was effective for the detection of pathogen from diseased root and infected soils. CONCLUSIONS The designed primers for F. solani causing PBRR can be used in a PCR diagnostic protocol to rapidly and reliably detect and identify this pathogen. SIGNIFICANCE AND IMPACT OF THE STUDY These diagnostic PCR primers will aid the detection of F. solani causing PBRR in diseased root and natural infected soils. The method developed could be a helpful tool for epidemiological studies and to avoid the spread of this serious disease in new areas.
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Cruz-Izquierdo S, Avila CM, Satovic Z, Palomino C, Gutierrez N, Ellwood SR, Phan HTT, Cubero JI, Torres AM. Comparative genomics to bridge Vicia faba with model and closely-related legume species: stability of QTLs for flowering and yield-related traits. Theor Appl Genet 2012; 125:1767-82. [PMID: 22864387 DOI: 10.1007/s00122-012-1952-1] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2012] [Accepted: 07/21/2012] [Indexed: 05/20/2023]
Abstract
This study presents the development of an enhanced map in faba bean. The map contains 258 loci, mostly gene-based markers, organized in 16 linkage groups that expand 1,875 cM, with an average inter-marker distance of 7.26 cM. The combination of EST-derived markers with a number of markers physically located or previously ascribed to chromosomes by trisomic segregation, allowed the allocation of eight linkage groups (229 markers), to specific chromosomes. Moreover, this approach provided anchor points to establish a global homology among the faba bean chromosomes and those of closely-related legumes species. The map was used to identify and validate, for the first time, QTLs controlling five flowering and reproductive traits: days to flowering, flowering length, pod length, number of seeds per pod and number of ovules per pod. Twelve QTLs stable in the 2 years of evaluation were identified in chromosomes II, V and VI. Comparative mapping suggested the conservation of one of the faba bean genomic regions controlling the character days to flowering in other five legume species (Medicago, Lotus, pea, lupine, chickpea). Additional syntenic co-localizations of QTLs controlling pod length and number of seeds per pod between faba bean and Lotus japonicus are likely. The new genetic map opens the way for further translational studies between faba bean and related legume species, and provides an efficient tool for breeding applications such as QTL analysis and marker-assisted selection.
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Affiliation(s)
- S Cruz-Izquierdo
- Área de Mejora y Biotecnología, IFAPA, Centro Alameda del Obispo, Apdo. 3092, 14080 Córdoba, Spain
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Torres AM, Cobos M, Pueo B, Lopez JJ. Robust acoustic source localization based on modal beamforming and time-frequency processing using circular microphone arrays. J Acoust Soc Am 2012; 132:1511-1520. [PMID: 22978880 DOI: 10.1121/1.4740503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Uniform circular array processing has been shown to be a very useful tool for broadband acoustic source localization over 360°. Specifically, beamforming methods based on circular harmonics have attracted a lot of research attention in the last several years, as modal array signal processing is a very active research topic. On the other hand, due to the sparsity properties of speech, source localization methods in the time-frequency (T-F) domain have also demonstrated their capability to locate several simultaneous sources with high accuracy. In this paper, a localization framework based on circular harmonics beamforming and T-F processing that provides accurate localization performance under very adverse acoustic conditions is presented. Modal processing and sparsity-based localization are jointly addressed to estimate the direction-of-arrival of multiple concurrent speech sources. Experiments in real and simulated environments with different microphone setups are discussed, showing the validity of the proposed approach and comparing its performance with other state-of-the-art methods.
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Affiliation(s)
- Ana M Torres
- I.E.E.A.C. Department, Universidad Castilla-La Mancha, 16071, Cuenca, Spain.
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Lorenzo N, Barberá A, Domínguez MC, Torres AM, Hernandez MV, Hernandez I, Gil R, Ancizar J, Garay H, Reyes O, Altruda F, Silengo L, Padrón G. Therapeutic effect of an altered peptide ligand derived from heat-shock protein 60 by suppressing of inflammatory cytokines secretion in two animal models of rheumatoid arthritis. Autoimmunity 2012; 45:449-59. [PMID: 22686732 DOI: 10.3109/08916934.2012.697592] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Rheumatoid arthritis is a systemic autoimmune disease mediated by T cells. Productive engagement of T cell receptors by major histocompatibility complex-peptide leads to proliferation, differentiation and the definition of effector functions. Altered peptide ligands (APL) generated by amino acid substitutions in the antigenic peptide have diverse effects on T cell response. We predicted a novel T cell epitope from human heat-shock protein 60, an autoantigen involved in the pathogenesis of rheumatoid arthritis. Three APLs were designed from this epitope and it was demonstrated that these peptides induce the activation of T cells through their ability to modify cell cycle phase's distribution of CD4+T cells from RA patients. Also, IL-17, TNF-α and IL-10 levels were determined in PBMC from these patients. Unlike the wild-type peptide and the other two APLs, APL2 increased the IL-10 level and suppressed IL-17 secretion in these assays. Therapeutic effect of this APL in adjuvant arthritis (AA) and collagen-induced arthritis (CIA) models was also evaluated. Clinical score, histopathology, inflammatory and regulatory cytokine concentration were monitored in the animals. APL2 efficiently inhibited the progression of AA and CIA with a significant reduction of the clinical and histopathologic score. Therapeutic effect of APL2 on CIA was similar to that obtained with MTX; the standard treatment for RA. This effect was associated with a decrease of TNF-α and IL-17 levels. These results suggest that the therapeutic effect of APL2 is mediated in part by down-regulation of inflammatory cytokines and support the potential use of APL2 as a therapeutic drug in RA patients.
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Affiliation(s)
- N Lorenzo
- Biomedical Research Department, Center for Genetic Engineering and Biotechnology, Havana, Cuba.
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Torres AM, Camargo FJ, Ricciardi GAL, Ricciardi AIA, Dellacassa E. Neutralizing Effects of Nectandra angustifolia Extracts against Bothrops neuwiedi Snake Venom. Nat Prod Commun 2011. [DOI: 10.1177/1934578x1100600942] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Leaves extracts and essential oil of Nectandra angustifolia were explored for the first time for neutralization of Bothrops neuwiedi diporus snake venom. The ethanol extract was the most active and inhibited both venom activities (hemolytic and coagulant), while the oil was only active on the coagulant activity. These observations confirmed that certain medicinal plants from Corrientes and Chaco Provinces possess significant snake venom neutralizing capacity and need further examination for their active constituents. Analysis by GC and GC-MS of the essential oil and the enantiomeric excess found for α-pinene, β-pinene and limonene allowed a better characterization of this species.
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Affiliation(s)
- Ana M. Torres
- Laboratorio Dr. Gustavo A. Fester, Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Av. Libertad 5470, (3400), Corrientes, Argentina
| | - Francisco J. Camargo
- Laboratorio Dr. Gustavo A. Fester, Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Av. Libertad 5470, (3400), Corrientes, Argentina
| | - Gabriela A. L. Ricciardi
- Laboratorio Dr. Gustavo A. Fester, Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Av. Libertad 5470, (3400), Corrientes, Argentina
| | - Armando I. A. Ricciardi
- Laboratorio Dr. Gustavo A. Fester, Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Av. Libertad 5470, (3400), Corrientes, Argentina
| | - Eduardo Dellacassa
- Cátedra de Farmacognosia y Productos Naturales, Facultad de Química, Universidad de la República, Avda. General Flores 2124, CP-11800 Montevideo, Uruguay
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Torres AM, Camargo FJ, Ricciardi GAL, Ricciardi AIA, Dellacassa E. Neutralizing effects of Nectandra angustifolia extracts against Bothrops neuwiedi snake venom. Nat Prod Commun 2011; 6:1393-1396. [PMID: 21941922] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2023] Open
Abstract
Leaves extracts and essential oil of Nectandra angustifolia were explored for the first time for neutralization of Bothrops neuwiedi diporus snake venom. The ethanol extract was the most active and inhibited both venom activities (hemolytic and coagulant), while the oil was only active on the coagulant activity. These observations confirmed that certain medicinal plants from Corrientes and Chaco Provinces possess significant snake venom neutralizing capacity and need further examination for their active constituents. Analysis by GC and GC-MS of the essential oil and the enantiomeric excess found for alpha-pinene, beta-pinene and limonene allowed a better characterization of this species.
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Affiliation(s)
- Ana M Torres
- Laboratorio Dr. Gustavo A. Fester, Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Av. Libertad 5470, (3400), Corrientes, Argentina
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Chiotta ML, Ponsone ML, Torres AM, Combina M, Chulze SN. Influence of Planococcus ficus on Aspergillus section Nigri and ochratoxin A incidence in vineyards from Argentina. Lett Appl Microbiol 2010; 51:212-8. [PMID: 20672440 DOI: 10.1111/j.1472-765x.2010.02884.x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
AIM The aim of this work was to evaluate the effect of Planococcus ficus infection in red wine grapes on Aspergillus section Nigri and ochratoxin A (OTA) contamination. METHODS AND RESULTS During 2006/2007 and 2008/2009 vintages, Merlot, Malbec and Cabernet Sauvignon varieties divided into two categories of grape samples (undamaged and damaged by P. ficus) were evaluated. Regardless of the grape variety and the harvest season evaluated, Aspergillus section Nigri incidence and the mean OTA concentration in damaged berries were significantly higher than that in the undamaged ones (P < 0.05; P < 0.001). The Merlot variety showed the highest level of black aspergilli contamination in damaged grapes during the 2006/2007 vintage (53.5% of infection), whereas Malbec presented the highest incidence during the 2008/2009 vintage (57.6% of infection). The Cabernet Sauvignon variety showed the highest OTA levels, ranging from 0.1 to 140 microg kg(-1). CONCLUSIONS The presence of P. ficus in vineyards increased the risk of OTA occurrence in grapes, suggesting the need to implement insect control at preharvest stage to reduce the entry of OTA in the wine production chain. SIGNIFICANCE AND IMPACT OF THE STUDY This study is the first report on the influence of P. ficus on the potential risk of OTA contamination in grapes.
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Affiliation(s)
- M L Chiotta
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina
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Camano S, Lazaro A, Moreno-Gordaliza E, Torres AM, de Lucas C, Humanes B, Lazaro JA, Milagros Gomez-Gomez M, Bosca L, Tejedor A. Cilastatin attenuates cisplatin-induced proximal tubular cell damage. J Pharmacol Exp Ther 2010; 334:419-29. [PMID: 20435919 DOI: 10.1124/jpet.110.165779] [Citation(s) in RCA: 54] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
A major area in cancer therapy is the search for protective strategies against cisplatin-induced nephrotoxicity. We investigated the protective effect of cilastatin on cisplatin-induced injury to renal proximal tubular cells. Cilastatin is a specific inhibitor of renal dehydrodipeptidase I (DHP-I), which prevents hydrolysis of imipenem and its accumulation in the proximal tubule. Primary cultures of proximal cells were treated with cisplatin (1-30 microM) in the presence or absence of cilastatin (200 microg/ml). Apoptosis and mitochondrial injury were assessed by different techniques. Cisplatin uptake and DNA binding were measured by inductively coupled plasma spectrometry. HeLa cells were used to control the effect of cilastatin on the tumoricidal activity of cisplatin. Cisplatin increased cell death, apoptotic-like morphology, caspase activation, and mitochondrial injury in proximal tubular cells in a dose- and time-dependent way. Concomitant treatment with cilastatin reduced cisplatin-induced changes. Cilastatin also reduced the DNA-bound platinum but did not modify cisplatin-dependent up-regulation of death receptors (Fas) or ligands (tumor necrosis factor alpha, Fas ligand). In contrast, cilastatin did not show any effects on cisplatin-treated HeLa cells. Renal DHP-I was virtually absent in HeLa cells. Cilastatin attenuates cisplatin-induced cell death in proximal tubular cells without reducing the cytotoxic activity of cisplatin in tumor cells. Our findings suggest that the affinity of cilastatin for renal dipeptidase makes this effect specific for proximal tubular cells and may be related to a reduction in intracellular drug accumulation. Therefore, cilastatin administration might represent a novel strategy in the prevention of cisplatin-induced acute renal injury.
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Affiliation(s)
- Sonia Camano
- Renal Physiopathology Laboratory, Department of Nephrology, Hospital General Universitario Gregorio Maranon, 28007 Madrid, Spain
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Díaz-Ruiz R, Torres AM, Satovic Z, Gutierrez MV, Cubero JI, Román B. Validation of QTLs for Orobanche crenata resistance in faba bean (Vicia faba L.) across environments and generations. Theor Appl Genet 2010; 120:909-19. [PMID: 19956921 DOI: 10.1007/s00122-009-1220-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2009] [Accepted: 11/12/2009] [Indexed: 05/20/2023]
Abstract
Broomrape (Orobanche crenata Forsk.) is a major root-parasite of faba bean (Vicia faba L.), that seriously limits crop cultivation in the whole Mediterranean area. This parasitic weed is difficult to control, difficult to evaluate and the resistance identified so far is of polygenic nature. This study was conducted to identify genetic regions associated with broomrape resistance in recombinant inbred lines (RILs) and to validate their previous location in the original F(2) population derived from the cross between lines Vf6 and Vf136. A progeny consisting of 165 F(6) RILs was evaluated in three environments across two locations in 2003 and 2004. Two hundred seventy seven molecular markers were assigned to 21 linkage groups (9 of them assigned to specific chromosomes) that covered 2,856.7 cM of the V. faba genome. The composite interval mapping on the F(6) map detected more quantitative trait loci (QTL) than in the F(2) analysis. In this sense, four QTLs controlling O. crenata resistance (Oc2-Oc5) were identified in the RI segregant population in three different environments. Only Oc1, previously reported in the F(2) population, was not significant in the advanced lines. Oc2 and Oc3 were found to be associated with O. crenata resistance in at least two of the three environments, while the remaining two, Oc4 and Oc5, were only detected in Córdoba-04 and Mengíbar-04 and seemed to be environment dependent.
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Affiliation(s)
- Ramón Díaz-Ruiz
- Colegio de Postgraduados, Campus Puebla, Santiago Momoxpanm, C.P. 72760, Municipio de San Pedro Cholula, Puebla, Mexico
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Torres AM, Bubb WA, Philp DJ, Kuchel PW. Improved J-compensated sequences based on short composite pulses. J Magn Reson 2008; 194:81-88. [PMID: 18585942 DOI: 10.1016/j.jmr.2008.06.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2008] [Revised: 05/30/2008] [Accepted: 06/02/2008] [Indexed: 05/26/2023]
Abstract
Efficient J-compensated sequences that are shorter in duration and use less RF pulses have been created from short but very efficient composite 90 degrees RF pulses. The improved J-compensation transforms in-phase into antiphase magnetization and can be incorporated in any pulse sequence that involves evolution of heteronuclear J-couplings. The compensated sequences were tested and incorporated into an HMBC sequence. J-compensated experiments referred to as HMBC-J45 + 90A and HMBC-J45 + 90B, were found to be effective over a wide range of J values.
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Affiliation(s)
- A M Torres
- Nanoscale Organisation and Dynamics Group, College of Health and Science, University of Western Sydney, Penrith South DC, NSW 1797, Australia.
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Barros GG, Chiotta ML, Reynoso MM, Torres AM, Chulze SN. Molecular characterization of Aspergillus section Flavi isolates collected from peanut fields in Argentina using AFLPs. J Appl Microbiol 2008; 103:900-9. [PMID: 17897192 DOI: 10.1111/j.1365-2672.2007.03312.x] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
AIMS The objectives of this study were: (i) to evaluate genetic relatedness among Aspergillus section Flavi strains isolated from soil and peanut seeds in Argentina; (ii) to determine if AFLP molecular markers could be useful to identify isolates up to species level, and to correlate these markers with the isolates' toxigenic potentials and/or vegetative compatibility group (VCG) affiliations. METHODS AND RESULTS Amplified fragment length polymorphism (AFLPs) analysis was applied to compare 82 isolates of Aspergillus section Flavi. Cluster analysis showed a clear separation of A. flavus and A. parasiticus, and comparison of fingerprints revealed several specific markers for each group of isolates. AFLP analysis indicates that no genotypical differences can be established between aflatoxigenic and nonaflatoxigenic producers in both species analysed. In addition, candidate AFLP markers associated with a particular VCG were not found. CONCLUSIONS There was a concordance between morphological identification and separation up to species level using molecular markers. The findings of specific bands for A. flavus and A. parasiticus may be useful for the design of specific PCR primers in order to differentiate these species and detect them in food. SIGNIFICANCE AND IMPACT OF THE STUDY The present study provides new data on molecular characterization of Aspergillus section Flavi in Argentina.
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Affiliation(s)
- G G Barros
- Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas Físico Químicas y Naturales, Universidad Nacional de Río Cuarto, Río Cuarto, Córdoba, Argentina.
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Avila CM, Atienza SG, Moreno MT, Torres AM. Development of a new diagnostic marker for growth habit selection in faba bean (Vicia faba L.) breeding. Theor Appl Genet 2007; 115:1075-82. [PMID: 17828523 DOI: 10.1007/s00122-007-0633-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2007] [Accepted: 08/10/2007] [Indexed: 05/17/2023]
Abstract
Faba bean varieties with determinacy of the apical meristem are relevant to green production. A diagnostic CAPS (cleavage amplification polymorphic sequence) marker for determinate growth habit (ti) in faba bean was previously developed by Avila et al. (Mol Breed 17:185-190, 2006) but was effective only on a limited range of cultivars or genotypes. In this study, we studied the reasons for this limited application and developed a new marker useful for most faba bean-breeding programs. By designing a new set of primers, the complete genomic Vf_TFL1 sequences from different genotypes contrasting for the character were obtained and additional base changes associated with the ti phenotype were identified. The comparison among faba bean sequences showed that the previous CAPS marker was based on a SNP (single nucleotide polymorphism) at position 469 in the intron 2-3, a silent mutation. On the contrary, a SNP at position 26 that distinguishes determinate and indeterminate growth habit genotypes lead to an amino acid change (Leu-9 to Arg) in the determinate growth habit genotypes that could account for the ti phenotype. A dCAPS marker based on this SNP that creates a TaqI site in the ti allele was developed. The marker was 100% successful in predicting ti phenotypes in a broad range of faba bean germplasm representing all major cultivars historically grown in Europe. The outcome confirms the utility of the new dCAPS in worldwide marker-assisted selection programs.
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Affiliation(s)
- C M Avila
- Departamento de Genética-ETSIAM, Universidad de Córdoba, Edificio Mendel, Campus de Rabanales, 14071 Córdoba, Spain.
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Ramirez ML, Reynoso MM, Farnochi MC, Torres AM, Leslie JF, Chulze SN. Population genetic structure ofGibberella zeaeisolated from wheat in Argentina. ACTA ACUST UNITED AC 2007; 24:1115-20. [PMID: 17886183 DOI: 10.1080/02652030701546487] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Gibberella zeae (anamorph Fusarium graminearum) causes Fusarium head blight of wheat. The authors used amplified fragment length polymorphisms (AFLPs) to characterize the genetic structure of two G. zeae populations from commercial wheat fields. The working hypothesis was that sufficient genetic exchange occurs between local populations to prevent significant partitioning of allelic variation. We analysed 216 AFLP loci for 113 isolates collected during the 2002 harvest season. All strains had AFLP profiles typical of G. zeae lineage 7. Both populations were genotypically diverse but genetically similar and potentially part of a larger, randomly mating population, with significant genetic exchange probably occurring between the two subpopulations. Linkage disequilibrium was low, but higher than reported for many other populations of G. zeae, and about 20% of the alleles detected were specific to one of the two subpopulations - results consistent with limited gene exchange between the two subpopulations. This study extends previous work with populations of G. zeae to include those found in Argentina, one of the world's largest wheat growing countries.
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Affiliation(s)
- M L Ramirez
- Departamento de Microbiología e Immunología, Facultad de Ciencias Exactas, Físico -- Químicas y Naturales, Universidad Nacional de Río Cuarto, 5800 Río Cuarto, Córdoba, Argentina.
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Palomino C, Satovic Z, Cubero JI, Torres AM. Identification and characterization of NBS-LRR class resistance gene analogs in faba bean (Vicia faba L.) and chickpea (Cicer arietinum L.). Genome 2007; 49:1227-37. [PMID: 17213904 DOI: 10.1139/g06-071] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
A PCR approach with degenerate primers designed from conserved NBS-LRR (nucleotide binding site-leucine-rich repeat) regions of known disease-resistance (R) genes was used to amplify and clone homologous sequences from 5 faba bean (Vicia faba) lines and 2 chickpea (Cicer arietinum) accessions. Sixty-nine sequenced clones showed homologies to various R genes deposited in the GenBank database. The presence of internal kinase-2 and kinase-3a motifs in all the sequences isolated confirm that these clones correspond to NBS-containing genes. Using an amino-acid sequence identity of 70% as a threshold value, the clones were grouped into 10 classes of resistance-gene analogs (RGA01 to RGA10). The number of clones per class varied from 1 to 30. RGA classes 1, 6, 8, and 9 were comprised solely of clones isolated from faba bean, whereas classes 2, 3, 4, 5, and 7 included only chickpea clones. RGA10, showing a within-class identity of 99%, was the only class consisting of both faba bean and chickpea clones. A phylogenetic tree, based on the deduced amino-acid sequences of 12 representative clones from the 10 RGA classes and the NBS domains of 6 known R genes (I2 and Prf from tomato, RPP13 from Arabidopsis, Gro1-4 from potato, N from tobacco, L6 from flax), clearly indicated the separation between TIR (Toll/interleukin-1 receptor homology: Gro1-4, L6, N, RGA05 to RGA10)- and non-TIR (I2, Prf, RPP13, RGA01 to RGA04)-type NBS-LRR sequences. The development of suitable polymorphic markers based on cloned RGA sequences to be used in genetic mapping will facilitate the assessment of their potential linkage relationships with disease-resistance genes in faba bean and chickpea. This work is the first to report on faba bean RGAs.
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Affiliation(s)
- C Palomino
- Departamento de Genética, E.T.S.I.A.M, Universidad de Córdoba, 14071 Córdoba, Spain.
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Abstract
BACKGROUND Several studies have documented the nephroprotective effect of cilastatin co-administered with imipenem in subjects treated with cyclosporin A. However, no large clinical studies are available to confirm this observation. Here the quality of the evidence on cilastatin nephroprotection against cyclosporin-induced nephrotoxicity is evaluated. METHODS The results of all studies where cyclosporin was used alone or combined with imipenem/cilastatin (Tienam) on the same clinical setting were systematically reviewed. Primary outcome was the reduction in serum creatinine concentration. Secondary outcome included development of acute renal failure. Medline was searched using three different retrieval systems (Pubmed, Silver Platter, Knowledge Finder) from January 1966 to February 2006. Attempts were made to contact authors of relevant studies to obtain additional data. Five clinical studies were found, including 125 patients under cyclosporin plus imipenem/cilastatin and 104 under cyclosporin alone. RESULTS Cyclosporin increased serum creatinine in all the studies. Average reduction of serum creatinine in cilastatin-treated versus untreated patients was Delta = -0.53 mg/dL (95%CI: -0.90 to -0.17) (Z = 2.84, p = 0.004). Variability between studies was large (from Delta = -0.21 to Delta= -1.59 mg/dL) and heterogeneity pronounced (chi(2) = 8.760, df = 4; p = 0.067). Meta-regression of serum creatinine reduction versus baseline serum creatinine explained 84% of this variability, by the variation in basal serum creatinine. When randomized and observational clinical studies were analyzed separately, conclusions were the same: serum creatinine in cilastatin treated patients was reduced by Delta = -0.98 mg/dL (95%CI: -1.57 to -0.38) in randomized studies (Z = 3.213, p = 0.001) and Delta= -0.32 mg/dL (95%CI: -0.63 to -0.01) in observational studies (Z = 2.013, p = 0.044). Odds Ratio for developing acute renal failure was 0.24 (95% CI: 0.11-0.53, p < 0.0001) on patients simultaneously treated with cyclosporin plus imipenem/cilastatin compared to patients treated with cyclosporin alone. CONCLUSIONS Administration of cilastatin may reduce acute cyclosporin nephrotoxicity.
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Affiliation(s)
- A Tejedor
- Department of Nephrology, Laboratory of Renal Physiopathology, Hospital General Universitario Gregorio Marañón, Madrid, Spain.
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Gutierrez N, Avila CM, Duc G, Marget P, Suso MJ, Moreno MT, Torres AM. CAPs markers to assist selection for low vicine and convicine contents in faba bean (Vicia faba L.). Theor Appl Genet 2006; 114:59-66. [PMID: 17013617 DOI: 10.1007/s00122-006-0410-3] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2006] [Accepted: 09/06/2006] [Indexed: 05/12/2023]
Abstract
The antinutritional factors (ANFs) present in Vicia spp. seeds are a major constraint to the wider utilization of these crops as grain legumes. In the case of faba bean (Vicia faba L.), a breeding priority is the absence vicine and convicine (v-c); responsible for favism in humans and for the reduced animal performance or low egg production in laying hens. The discovery of a spontaneous mutant allele named vc-, which induces a 10-20 fold reduction of v-c contents, may facilitate the process. However, the high cost and difficulty of the chemical detection of v-c seriously restricts the advances in breeding-selection. To identify random amplified polymorphic DNA (RAPD) markers linked to this gene, we have analysed an F(2 )population derived from a cross between a line with high v-c content (Vf6) and the vc- genotype (line 1268). Quantification of v-c was done by spectrophotometry on the parents and the F(2 )population (n = 136). By using bulked segregant analysis (BSA), two RAPD markers linked in coupling and repulsion phase to the allele vc- were identified and further converted into sequence characterized amplified regions (SCARs). Amplification of SCARS was more consistent, although the initial polymorphism between pools was lost. To recover the polymorphisms several approaches were explored. Restriction digestion with HhaI (for SCAR SCH01(620)) and RsaI (for SCAR SCAB12(850)) revealed clear differences between the parental lines. The simultaneous use of the two cleavage amplified polymorphism (CAP) markers will allow the correct fingerprinting of faba bean plants and can be efficiently used in breeding selection to track the introgression of the vc- allele to develop cultivars with low v-c content and improved nutritional value.
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Affiliation(s)
- N Gutierrez
- Instituto de Agricultura Sostenible-CSIC, Apdo. 4084, 14080, Córdoba, Spain.
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Torres AM, Tsampazi M, Kennett EC, Belov K, Geraghty DP, Bansal PS, Alewood PF, Kuchel PW. Characterization and isolation of L-to-D-amino-acid-residue isomerase from platypus venom. Amino Acids 2006; 32:63-8. [PMID: 16729187 DOI: 10.1007/s00726-006-0346-6] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2006] [Accepted: 03/15/2006] [Indexed: 10/24/2022]
Abstract
Platypus venom contains an isomerase that reversibly interconverts the second amino-acid residue in some peptides between the L-form and the D-form. The enzyme acts on the natriuretic peptides OvCNPa and OvCNPb, and on the defensin-like peptides DLP-2 and DLP-4, but it does not act on DLP-1. While the isomerization of DLP-2 to DLP-4 is inhibited by the amino-peptidase inhibitor amastatin, it is not affected by the leucine amino-peptidase inhibitor bestatin. The enzyme, that is only present in minute quantities in an extract of the venom gland, is thermally stable up to 55 degrees C, and it was found by anion-exchange chromatography to be acidic. Isolation of the isomerase was carried out by combined ion-exchange chromatography and reverse-phase high performance liquid chromatography (HPLC).
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Affiliation(s)
- A M Torres
- School of Molecular and Microbial Biosciences, University of Sydney, Sydney, Australia
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