26
|
Sorzano COS, Fernández-Giménez E, Peredo-Robinson V, Vargas J, Majtner T, Caffarena G, Otón J, Vilas JL, de la Rosa-Trevín JM, Melero R, Gómez-Blanco J, Cuenca J, Del Cano L, Conesa P, Marabini R, Carazo JM. Blind estimation of DED camera gain in Electron Microscopy. J Struct Biol 2018; 203:90-93. [PMID: 29551714 DOI: 10.1016/j.jsb.2018.03.007] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2017] [Revised: 03/13/2018] [Accepted: 03/14/2018] [Indexed: 12/17/2022]
Abstract
The introduction of Direct Electron Detector (DED) videos in the Electron Microscope field has boosted Single Particle Analysis to a point in which it is currently considered to be a key technique in Structural Biology. In this article we introduce an approach to estimate the DED camera gain at each pixel from the movies themselves. This gain is needed to have the set of recorded frames into a coherent gray level range, homogeneous over the whole image. The algorithm does not need any other input than the DED movie itself, being capable of providing an estimate of the camera gain image, helping to identify dead pixels and cases of incorrectly calibrated cameras. We propose the algorithm to be used either to validate the experimentally acquired gain image (for instance, to follow its possible change over time) or to verify that there is no residual gain image after experimentally correcting for the camera gain. We show results for a number of DED camera models currently in use (DE, Falcon II, Falcon 3, and K2).
Collapse
|
27
|
Brea R, Motiño O, Francés D, García-Monzón C, Vargas J, Fernández-Velasco M, Boscá L, Casado M, Martín-Sanz P, Agra N. PGE 2 induces apoptosis of hepatic stellate cells and attenuates liver fibrosis in mice by downregulating miR-23a-5p and miR-28a-5p. Biochim Biophys Acta Mol Basis Dis 2018; 1864:325-337. [PMID: 29109031 DOI: 10.1016/j.bbadis.2017.11.001] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2017] [Revised: 10/30/2017] [Accepted: 11/01/2017] [Indexed: 02/07/2023]
Abstract
MicroRNAs (miRNAs), small noncoding RNAs modulating messenger RNA (mRNA) and protein expression, have emerged as key regulatory molecules in chronic liver diseases, whose end stage is hepatic fibrosis, a major global health burden. Pharmacological strategies for prevention or treatment of hepatic fibrosis are still limited, what makes it necessary to establish a better understanding of the molecular mechanisms underlying its pathogenesis. In this context, we have recently shown that cyclooxygenase-2 (COX-2) expression in hepatocytes restricts activation of hepatic stellate cells (HSCs), a pivotal event in the initiation and progression of hepatic fibrosis. Here, we evaluated the role of COX-2 in the regulation of a specific set of miRNAs on a mouse model of CCl4 and bile duct ligation (BDL)-induced liver fibrosis. Our results provide evidence that COX-2 represses miR-23a-5p and miR-28-5p expression in HSC. The decrease of miR-23a-5p and miR-28-5p expression promotes protection against fibrosis by decreasing the levels of pro-fibrogenic markers α-SMA and COL1A1 and increasing apoptosis of HSC. Moreover, we demonstrate that serum levels of miR-28-5p are decreased in patients with chronic liver disease. These results suggest a protective effect exerted by COX-2-derived prostanoids in the process of hepatofibrogenesis.
Collapse
|
28
|
González R, Pintos S, Brítez C, Vargas J. COMPARATIVE STUDY OF THE HEALING TIME OF THE TECHNIQUES OF NEW PREPUCIAL OSTIO AND PEXIA OF THE PENIS TO THE ABDOMINAL WALL IN TEASER BULLS. COMPENDIO DE CIENCIAS VETERINARIAS 2017. [DOI: 10.18004/compend.cienc.vet.2017.07.02.12-16] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022] Open
|
29
|
Gianoncelli L, Nava V, Mazza L, Bonomi M, Cerchiaro E, Zanello A, De Filippis C, Mazzoleni M, Vernile L, Ruello A, Vargas J, Beretta G, Bortolotti L, Vavassori V, Maggioni P, Ceresoli G. Malignant pleural mesothelioma multidisciplinary team unit: experience of one high-volume center in Italy. Ann Oncol 2017. [DOI: 10.1093/annonc/mdx426.029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
|
30
|
Sorzano C, Vargas J, Otón J, Abrishami V, de la Rosa-Trevín J, Gómez-Blanco J, Vilas J, Marabini R, Carazo J. A review of resolution measures and related aspects in 3D Electron Microscopy. PROGRESS IN BIOPHYSICS AND MOLECULAR BIOLOGY 2017; 124:1-30. [DOI: 10.1016/j.pbiomolbio.2016.09.005] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2016] [Revised: 08/22/2016] [Accepted: 09/18/2016] [Indexed: 12/21/2022]
|
31
|
Rodríguez-Sánchez J, Benlliure J, Taïeb J, Ramos D, Álvarez-Pol H, Audouin L, Ayyad Y, Bélier G, Boutoux G, Casarejos E, Chatillon A, Cortina-Gil D, Gorbinet T, Heinz A, Kelić-Heil A, Laurent B, Martin JF, Paradela C, Pellereau E, Pietras B, Rodríguez-Tajes C, Rossi D, Simon H, Vargas J, Voss B. Dissipative effects in fission investigated in complete kinematics measurements. EPJ WEB OF CONFERENCES 2017. [DOI: 10.1051/epjconf/201714604053] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
32
|
Vilas J, Navas J, Gómez-Blanco J, de la Rosa-Trevín J, Melero R, Peschiera I, Ferlenghi I, Cuenca J, Marabini R, Carazo J, Vargas J, Sorzano C. Fast and automatic identification of particle tilt pairs based on Delaunay triangulation. J Struct Biol 2016; 196:525-533. [DOI: 10.1016/j.jsb.2016.10.007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2016] [Revised: 10/14/2016] [Accepted: 10/16/2016] [Indexed: 11/26/2022]
|
33
|
Vargas J, Franken E, Sorzano COS, Gomez-Blanco J, Schoenmakers R, Koster AJ, Carazo JM. Foil-hole and data image quality assessment in 3DEM: Towards high-throughput image acquisition in the electron microscope. J Struct Biol 2016; 196:515-524. [PMID: 27725258 DOI: 10.1016/j.jsb.2016.10.006] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2016] [Revised: 10/06/2016] [Accepted: 10/06/2016] [Indexed: 11/19/2022]
Abstract
Automatic or semiautomatic data collection approaches on a transmission electron microscope (TEM) for Single Particle Analysis, capable of acquiring large datasets composed of only high quality images, are of great importance to obtain 3D density maps with the highest resolution possible. Typically, this task is performed by an experienced microscopist, who manually decides to keep or discard images according to subjective criteria. Therefore, this methodology is slow, intensive in human work and subjective. In this work, we propose a method to automatically or semiautomatically perform this image selection task. The approach is based on some simple, fast and effective image quality descriptors, which can be computed during acquisition, to characterize foil-hole and data images. The proposed approach has been used to evaluate the quality of different datasets consisting of foil-hole and data images obtained with a FEI Titan Krios electron microscope. The results show that the proposed method is very effective evaluating the quality of foil-hole and data images, as well as predicting the quality of the data images from the foil-hole images.
Collapse
|
34
|
Kanungo R, Horiuchi W, Hagen G, Jansen GR, Navratil P, Ameil F, Atkinson J, Ayyad Y, Cortina-Gil D, Dillmann I, Estradé A, Evdokimov A, Farinon F, Geissel H, Guastalla G, Janik R, Kimura M, Knöbel R, Kurcewicz J, Litvinov YA, Marta M, Mostazo M, Mukha I, Nociforo C, Ong HJ, Pietri S, Prochazka A, Scheidenberger C, Sitar B, Strmen P, Suzuki Y, Takechi M, Tanaka J, Tanihata I, Terashima S, Vargas J, Weick H, Winfield JS. Proton Distribution Radii of ^{12-19}C Illuminate Features of Neutron Halos. PHYSICAL REVIEW LETTERS 2016; 117:102501. [PMID: 27636470 DOI: 10.1103/physrevlett.117.102501] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2016] [Indexed: 06/06/2023]
Abstract
Proton radii of ^{12-19}C densities derived from first accurate charge changing cross section measurements at 900A MeV with a carbon target are reported. A thick neutron surface evolves from ∼0.5 fm in ^{15}C to ∼1 fm in ^{19}C. The halo radius in ^{19}C is found to be 6.4±0.7 fm as large as ^{11}Li. Ab initio calculations based on chiral nucleon-nucleon and three-nucleon forces reproduce the radii well.
Collapse
|
35
|
de la Rosa-Trevín J, Quintana A, del Cano L, Zaldívar A, Foche I, Gutiérrez J, Gómez-Blanco J, Burguet-Castell J, Cuenca-Alba J, Abrishami V, Vargas J, Otón J, Sharov G, Vilas J, Navas J, Conesa P, Kazemi M, Marabini R, Sorzano C, Carazo J. Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy. J Struct Biol 2016; 195:93-9. [DOI: 10.1016/j.jsb.2016.04.010] [Citation(s) in RCA: 356] [Impact Index Per Article: 44.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2016] [Revised: 04/18/2016] [Accepted: 04/19/2016] [Indexed: 12/13/2022]
|
36
|
Grente L, Taïeb J, Chatillon A, Martin JF, Pellereau É, Boutoux G, Gorbinet T, Bélier G, Laurent B, Alvarez-Pol H, Ayyad Y, Benlliure J, Caamaño M, Audouin L, Casarejos E, Cortina-Gil D, Farget F, Fernández-Domínguez B, Heinz A, Jurado B, Kelić-Heil A, Kurz N, Lindberg S, Löher B, Nociforo C, Paradela C, Pietri S, Ramos D, Rodriguez-Sanchez JL, Rodríguez-Tajes C, Rossi D, Schmidt KH, Simon H, Tassan-Got L, Törnqvist H, Vargas J, Voss B, Weick H, Yan Y. The SOFIA experiment: Measurement of236U fission fragment yields in inverse kinematics. EPJ WEB OF CONFERENCES 2016. [DOI: 10.1051/epjconf/201612201006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
37
|
Sorzano COS, Martín-Ramos A, Prieto F, Melero R, Martín-Benito J, Jonic S, Navas-Calvente J, Vargas J, Otón J, Abrishami V, de la Rosa-Trevín JM, Gómez-Blanco J, Vilas JL, Marabini R, Carazo JM. Local analysis of strains and rotations for macromolecular electron microscopy maps. J Struct Biol 2016; 195:123-8. [PMID: 27102900 DOI: 10.1016/j.jsb.2016.04.001] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2016] [Revised: 04/01/2016] [Accepted: 04/06/2016] [Indexed: 01/23/2023]
Abstract
Macromolecular complexes perform their physiological functions by local rearrangements of their constituents and biochemically interacting with their reaction partners. These rearrangements may involve local rotations and the induction of local strains causing different mechanical efforts and stretches at the different areas of the protein. The analysis of these local deformations may reveal important insight into the way proteins perform their tasks. In this paper we introduce a method to perform this kind of local analysis using Electron Microscopy volumes in a fully objective and automatic manner. For doing so, we exploit the continuous nature of the result of an elastic image registration using B-splines as its basis functions. We show that the results obtained by the new automatic method are consistent with previous observations on these macromolecules.
Collapse
|
38
|
Jonić S, Vargas J, Melero R, Gómez-Blanco J, Carazo JM, Sorzano COS. Denoising of high-resolution single-particle electron-microscopy density maps by their approximation using three-dimensional Gaussian functions. J Struct Biol 2016; 194:423-33. [PMID: 27085420 DOI: 10.1016/j.jsb.2016.04.007] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2016] [Revised: 04/12/2016] [Accepted: 04/12/2016] [Indexed: 12/22/2022]
Abstract
Cryo-electron microscopy (cryo-EM) of frozen-hydrated preparations of isolated macromolecular complexes is the method of choice to obtain the structure of complexes that cannot be easily studied by other experimental methods due to their flexibility or large size. An increasing number of macromolecular structures are currently being obtained at subnanometer resolution but the interpretation of structural details in such EM-derived maps is often difficult because of noise at these high-frequency signal components that reduces their contrast. In this paper, we show that the method for EM density-map approximation using Gaussian functions can be used for denoising of single-particle EM maps of high (typically subnanometer) resolution. We show its denoising performance using simulated and experimental EM density maps of several complexes.
Collapse
|
39
|
Chatillon A, Taïeb J, Martin JF, Pellereau E, Boutoux G, Gorbinet T, Grente L, Bélier G, Laurent B, Alvarez-Pol H, Ayyad Y, Benlliure J, Caamaño M, Audouin L, Casarejos E, Cortina-Gil D, Farget F, Fernández-Domínguez B, Heinz A, Jurado B, Kelić-Heil A, Kurz N, Lindberg S, Löher B, Nociforo C, Paradela C, Pietri S, Ramos D, Rodriguez-Sanchez JL, Rodrìguez-Tajes C, Rossi D, Schmidt KH, Simon H, Tassan-Got L, Törnqvist H, Vargas J, Voss B, Weick H, Yan Y. Accurate measurements of fission-fragment yields in234,235,236,238U(γ,f) with the SOFIA set-up. EPJ WEB OF CONFERENCES 2016. [DOI: 10.1051/epjconf/201611108001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
40
|
Vargas J, Otón J, Marabini R, Carazo JM, Sorzano COS. Particle alignment reliability in single particle electron cryomicroscopy: a general approach. Sci Rep 2016; 6:21626. [PMID: 26899789 PMCID: PMC4761946 DOI: 10.1038/srep21626] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2015] [Accepted: 01/27/2016] [Indexed: 11/09/2022] Open
Abstract
Electron Microscopy is reaching new capabilities thanks to the combined effect of new technologies and new image processing methods. However, the reconstruction process is still complex, requiring many steps and elaborated optimization procedures. Therefore, the possibility to reach a wrong structure exists, justifying the need of robust statistical tests. In this work, we present a conceptually simple alignment test, which does not require tilt-pair images, to evaluate the alignment consistency between a set of projection images with respect to a given 3D density map. We test the approach on a number of problems in 3DEM, especially the ranking and evaluation of initial 3D volumes and high resolution 3D maps, where we show its usefulness in providing an objective evaluation for maps that have recently been subject to a strong controversy in the field. Additionally, this alignment statistical test can be linked to the early stages of structure solving of new complexes, streamlining the whole process.
Collapse
|
41
|
Vidaña I, Benlliure J, Geissel H, Lenske H, Scheidenberger C, Vargas J. Excitation of Δ andN*resonances in isobaric charge-exchange reactions of heavy nuclei. EPJ WEB OF CONFERENCES 2016. [DOI: 10.1051/epjconf/201610710003] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
42
|
Rodríguez-Sánchez JL, Benlliure J, Taïeb J, Álvarez-Pol H, Audouin L, Ayyad Y, Bélier G, Boutoux G, Casarejos E, Chatillon A, Cortina-Gil D, Gorbinet T, Heinz A, Kelić-Heil A, Laurent B, Martin JF, Paradela C, Pellereau E, Pietras B, Ramos D, Rodríguez-Tajes C, Rossi DM, Simon H, Vargas J, Voss B. Dissipative effects in fission investigated with proton-on-lead reactions. EPJ WEB OF CONFERENCES 2016. [DOI: 10.1051/epjconf/201611708017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
43
|
Gómez de Travecedo MT, Almendral A, Gavira R, Vargas J, Reinado M, De Tena S, Parra A, Fernandez M, Gómez F, Gázquez R. PS-068 Utility of root cause analysis to improve safety in the use of iodinated contrast agents. Eur J Hosp Pharm 2015. [DOI: 10.1136/ejhpharm-2015-000639.393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
|
44
|
Sorzano C, Vargas J, de la Rosa-Trevín J, Otón J, Álvarez-Cabrera A, Abrishami V, Sesmero E, Marabini R, Carazo J. A statistical approach to the initial volume problem in Single Particle Analysis by Electron Microscopy. J Struct Biol 2015; 189:213-9. [DOI: 10.1016/j.jsb.2015.01.009] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2014] [Revised: 12/30/2014] [Accepted: 01/17/2015] [Indexed: 10/24/2022]
|
45
|
Riera-Ruiz C, Vargas J, Cevallos-Cevallos JM, Ratti M, Peralta EL. First Report of Bacterial Panicle Blight of Rice Caused by Burkholderia gladioli in Ecuador. PLANT DISEASE 2014; 98:1577. [PMID: 30699826 DOI: 10.1094/pdis-03-14-0222-pdn] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Burkholderia gladioli is one of the causal agents of bacterial panicle blight of rice (BPB). Although B. glumae is considered the main pathogen responsible of BPB, B. gladioli can also cause this disease in rice (3). B. gladioli is also of clinical importance because of the ability of some strains to cause respiratory infections in humans (2). Symptoms in rice plantations of Palestina city, like upright panicles with grayish-straw color, grain rot, and vain grains were observed in July 2013, although similar symptoms were first noticed as early as 2012 in other regions of Ecuador. Since then, similar symptomatology has been reported by farmers in coastal provinces, possibly affecting 75% of the crops. One of the causal agents was recently identified as B. glumae but other bacteria were observed in infected rice (1). Plants showing BPB symptoms were collected from Palestina and bacteria were isolated from panicle twigs using the semi selective SPG agar (KH2PO4 1.3 g, Na2HPO4 1.2 g, (NH4)2SO4 5 g, MgSO4·7H2O 0.25 g, Na2MoO4·2H2O 24 mg, EDTA-Fe 10 mg, L-cystine 10 μg, D-sorbitol 10 g, pheneticillin potassium 50 mg, ampicillin sodium 10 mg, cetrimide 10 mg, methyl violet 1 mg, phenol red 20 mg, agar 15 g/liter distilled water). Colonies were then transferred to PDA. Presumptive B. gladioli colonies were classified into two groups according to their color on PDA. Colonies from group one (six strains) were dull yellow, whereas those from group two (two strains) were olive colored. Both groups produced fluorescent colonies with smooth, shiny surfaces on PDA. All cells were gram-negative rods with the following dimensions: 0.8 to 2.0 × 0.4 to 0.6 μm (group one) or 1.5 to 2.5 × 0.4 to 0.7 μm (group two). All colonies were subjected to biochemical tests (API 20NE) and shared a 99% or higher similarity (APIWEB) with B. gladioli. To confirm identity, genomic DNA was extracted (gDNA extraction kit from Invitrogen) and a portion of the 16s rDNA was amplified by PCR using the primers 536F: 5'-GTGCCAGCMGCCGCGGTAATAC-3' and 1492R: 5'-GGTTACCTTGTTACGACTT-3' followed by sequencing. Sequences of group one strains shared 100% similarity with B. gladioli strain OM1 (GenBank Accession No. EU678361) while the sequences from group two strains were 100% similar to B. gladioli strain BgHL-01 (JX566503). Sequences of the Ecuadorian strains were deposited into NCBI GenBank (group one: KF669879 to KF669882, KF669884, and KF669885; group two: KF669883 and KF669886). Pathogenicity was confirmed by submerging rice seeds in a cell suspension with 108 CFU of the pathogen for 24 h. Seeds were germinated at 28°C and about 70% RH on autoclaved peat. Inoculated seeds yielded plants with BPB symptoms 6 days after planting. Re-isolated strains shared a 99.9% similarity with B. gladioli by APIWEB. To the best of our knowledge, this is the first report of B. gladioli as a rice pathogen in Ecuador. References: (1) C. Riera-Ruiz et al. Plant Dis. 98:988, 2014. (2) C. Segonds et al. J. Clin. Microbiol. 47:1510, 2009. (3) H. Ura et al. J. Gen. Plant Pathol. 72:98, 2006.
Collapse
|
46
|
Estradé A, Kanungo R, Horiuchi W, Ameil F, Atkinson J, Ayyad Y, Cortina-Gil D, Dillmann I, Evdokimov A, Farinon F, Geissel H, Guastalla G, Janik R, Kimura M, Knöbel R, Kurcewicz J, Litvinov YA, Marta M, Mostazo M, Mukha I, Nociforo C, Ong HJ, Pietri S, Prochazka A, Scheidenberger C, Sitar B, Strmen P, Suzuki Y, Takechi M, Tanaka J, Tanihata I, Terashima S, Vargas J, Weick H, Winfield JS. Proton radii of (12-17)B define a thick neutron surface in ¹⁷B. PHYSICAL REVIEW LETTERS 2014; 113:132501. [PMID: 25302882 DOI: 10.1103/physrevlett.113.132501] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2014] [Indexed: 06/04/2023]
Abstract
The first determination of radii of point proton distribution (proton radii) of (12-17)B from charge-changing cross sections (σ(CC)) measurements at the FRS, GSI, Darmstadt is reported. The proton radii are deduced from a finite-range Glauber model analysis of the σ(CC). The radii show an increase from ¹³B to ¹⁷B and are consistent with predictions from the antisymmetrized molecular dynamics model for the neutron-rich nuclei. The measurements show the existence of a thick neutron surface with neutron-proton radius difference of 0.51(0.11) fm in ¹⁷B.
Collapse
|
47
|
Vargas J, Pabón M, Carulla J. Producción de metano in vitro en mezcla de gramíneas-leguminosas del trópico alto colombiano. ARCHIVOS DE ZOOTECNIA 2014. [DOI: 10.4321/s0004-05922014000300001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022] Open
|
48
|
Sorzano COS, Vargas J, Caffarena-Fernández G, Iriarte A. Comparing scientific performance among equals. Scientometrics 2014. [DOI: 10.1007/s11192-014-1368-6] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
|
49
|
Vargas J, Zuckerman S, Chaudry I, Turner R, Turk A, Spiotta A. P-020 Emergent Carotid Artery Stenting with or without Intracranial Tandem Occlusion Lesions Following Carotid Endarterectomy. J Neurointerv Surg 2014. [DOI: 10.1136/neurintsurg-2014-011343.56] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
|
50
|
Riera-Ruiz C, Vargas J, Cedeño C, Quirola P, Escobar M, Cevallos-Cevallos JM, Ratti M, Peralta EL. First Report of Burkholderia glumae Causing Bacterial Panicle Blight on Rice in Ecuador. PLANT DISEASE 2014; 98:988. [PMID: 30708859 DOI: 10.1094/pdis-10-13-1024-pdn] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Rice (Oryza sativa L.) is one of the leading crops and the basis of most diets in Ecuador and other countries. Diseases such as bacterial panicle blight (BPB), also known as seedling rot or grain rot, have the potential to threaten rice production worldwide. Burkholderia glumae, a causal agent of BPB, has severely affected the rice industry in many countries of Africa, Asia, and the Americas (1,2,4), but no report of this bacteria in Ecuador can be found in the literature. Rice plantations showing BPB-like symptoms including upright panicles with stained and vain grains were spotted in Palestina city, one of Ecuador's most extensive rice areas, in July 2013, but similar symptoms have been observed in the region since early 2012. Six symptomatic plants from two different groves were collected. Samples were plated on the semi-selective medium S-PG (KH2PO4 1.3 g, Na2HPO4 1.2 g, (NH4)2SO4 5 g, MgSO4·7H2O 0.25 g, Na2MoO4·2H2O 24 mg, EDTA-Fe 10 mg, L-cystine 10 μg, D-sorbitol 10 g, pheneticillin potassium 50 mg, ampicillin sodium 10 mg, cetrimide 10 mg, methyl violet 1 mg, phenol red 20 mg, agar 15 g/liter distilled water) and axenic colonies were transferred to potato dextrose agar (PDA) to test for fluorescence (3). Colonies of the potential pathogen were 1 mm, circular, entire margin, with a smooth and shiny surface. When cultured in PDA, isolates showed a moist texture, dull yellow color, and displayed fluorescence with exposure to UV light. Cells were bacterial gram-negative rods of 1 to 2 × 0.5 μm. Twelve presumptive isolates were submitted to biochemical tests (API 20NE). The biochemical profile (APIWEB) showed that all the isolates belonged to the Burkholderia genus with a 99.9% similarity. To determine the bacterial species, colonies were submitted to ELISA tests using specific antibodies for B. glumae from Agdia, Inc. The two isolates that were positive for B. glumae were sequenced using a part of the 16s rDNA amplified by the primers 536F: 5'-GTGCCAGCMGCCGCGGTAATAC-3' and 1492R: 5'-GGTTACCTTGTTACGACTT-3'. The obtained sequences (deposited into GenBank as KF601202) shared 100% similarity with several B. glumae strains after a BLAST query. Isolates were then diluted to 108 UFC/ml and used to inoculate healthy rice plants. Inoculated plants produced BPB-like symptoms including upright panicles with stained vain grains and the bacterium was re-isolated from symptomatic plants. To the best of our knowledge, this is the first report of B. glumae in Ecuador. Further research is ongoing to identify and determine the pathogenicity of the remaining Burkholderia strains that tested negative for B. glumae. References: (1) J. Luo et al. Plant Dis. 91:1363, 2007. (2) R. Nandakumar et al. Plant Dis. 93:896, 2009. (3) T. Urakami et al. Int. J. Syst. Bacteriol. 44:235, 1994. (4) X.-G. Zhou. Plant Dis. 98:566, 2014.
Collapse
|