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  1 / 1477 MEDLINE  
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[PMID]:28453669
[Au] Autor:Hanslovsky P; Bogovic JA; Saalfeld S
[Ad] Dirección:HHMI Janelia Research Campus, Ashburn, VA 20147, USA.
[Ti] Título:Image-based correction of continuous and discontinuous non-planar axial distortion in serial section microscopy.
[So] Fuente:Bioinformatics;33(9):1379-1386, 2017 05 01.
[Is] ISSN:1367-4811
[Cp] País de publicación:England
[La] Idioma:eng
[Ab] Resumen:Motivation: Serial section microscopy is an established method for detailed anatomy reconstruction of biological specimen. During the last decade, high resolution electron microscopy (EM) of serial sections has become the de-facto standard for reconstruction of neural connectivity at ever increasing scales (EM connectomics). In serial section microscopy, the axial dimension of the volume is sampled by physically removing thin sections from the embedded specimen and subsequently imaging either the block-face or the section series. This process has limited precision leading to inhomogeneous non-planar sampling of the axial dimension of the volume which, in turn, results in distorted image volumes. This includes that section series may be collected and imaged in unknown order. Results: We developed methods to identify and correct these distortions through image-based signal analysis without any additional physical apparatus or measurements. We demonstrate the efficacy of our methods in proof of principle experiments and application to real world problems. Availability and Implementation: We made our work available as libraries for the ImageJ distribution Fiji and for deployment in a high performance parallel computing environment. Our sources are open and available at http://github.com/saalfeldlab/section-sort, http://github.com/saalfeldlab/z-spacing and http://github.com/saalfeldlab/z-spacing-spark. Contact: saalfelds@janelia.hhmi.org. Supplementary information: Supplementary data are available at Bioinformatics online.
[Mh] Términos MeSH primario: Algoritmos
Metodologias Computacionales
Interpretación de Imagen Asistida por Computador/métodos
Microscopía Electrónica/métodos
[Mh] Términos MeSH secundario: Animales
Sistema Nervioso Central/anatomía & histología
Drosophila melanogaster/anatomía & histología
Microtomía
[Pt] Tipo de publicación:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Em] Mes de ingreso:1801
[Cu] Fecha actualización por clase:180308
[Lr] Fecha última revisión:180308
[Sb] Subgrupo de revista:IM
[Da] Fecha de ingreso para procesamiento:170429
[St] Status:MEDLINE
[do] DOI:10.1093/bioinformatics/btw794


  2 / 1477 MEDLINE  
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[PMID]:29244174
[Au] Autor:Harwood JF; Rama V; Hash JM; Gordon SW
[Ad] Dirección:Navy Environmental and Preventive Medicine Unit 6, Honolulu, HI.
[Ti] Título:The Attractiveness of the Gravid Aedes Trap to Dengue Vectors in Fiji.
[So] Fuente:J Med Entomol;55(2):481-484, 2018 Feb 28.
[Is] ISSN:1938-2928
[Cp] País de publicación:England
[La] Idioma:eng
[Ab] Resumen:The Gravid Aedes Trap (GAT) is a passive trap that relies on visual and olfactory cues to lure and capture gravid mosquitoes. The GAT was designed as a dengue vector surveillance tool for use in conditions where power sources are not readily available. Experiments were conducted over a 10-d period in Fiji to determine which species of mosquitoes the GAT would collect, how different infusion types affect the attractiveness of the trap, how long each infusion type took to begin attracting mosquitoes, and how long the infusion was attractive to container breeding Aedes mosquitoes. Infusions were created by adding 10 g of organic material to 2 liters of water. Infusions were made using chicken feed pellets, dried mango leaves (Mangifera indica), and dried lawn grasses (primarily Axonopus spp.). The GAT collected four different vectors Aedes aegypti (Linnaeus) (Diptera: Culicidae), Aedes albopictus (Skuse) (Diptera: Culicidae), Aedes polynesiensis Mark (Diptera: Culicidae), and Culex quinquefasciatus Say (Diptera: Culicidae). As observed in previous studies, using some type of organic infusion improved the attractiveness of the trap. Of the three different infusion components tested, chicken feed was most attractive followed by lawn grasses and mango leaves. All infusions performed better than plain water. Chicken feed was found to be most attractive for Ae. aegypti and Ae. albopictus during the first 6 d after placing the traps and for Cx. quinquifasciatus in days 7-9. The mango and grass infusions took longer to attract mosquitoes but were most attractive during days 7-10 for all species.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1712
[Cu] Fecha actualización por clase:180305
[Lr] Fecha última revisión:180305
[St] Status:In-Data-Review
[do] DOI:10.1093/jme/tjx221


  3 / 1477 MEDLINE  
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[PMID]:29323728
[Au] Autor:Tolkach Y; Thomann S; Kristiansen G
[Ad] Dirección:Institute of Pathology, University Hospital Bonn, Bonn, Germany.
[Ti] Título:Three-dimensional reconstruction of prostate cancer architecture with serial immunohistochemical sections: hallmarks of tumour growth, tumour compartmentalisation, and implications for grading and heterogeneity.
[So] Fuente:Histopathology;, 2018 Jan 11.
[Is] ISSN:1365-2559
[Cp] País de publicación:England
[La] Idioma:eng
[Ab] Resumen:AIMS: Conventional morphology of prostate cancer considers only the two-dimensional (2D) architecture of the tumour. Our aim was to examine the feasibility of three-dimensional (3D) reconstruction of tumour morphology based on multiple consecutive histological sections and to decipher relevant features of prostate cancer architecture. METHODS AND RESULTS: Seventy-five consecutive histological sections (5 µm) of a typical prostate adenocarcinoma (Gleason score of 3 + 4 = 7) were immunostained (pan-cytokeratin) and scanned for further 3D reconstructions with fiji/imagej software. The main findings related to the prostate cancer architecture in this case were: (i) continuity of all glands, with the tumour being an integrated system, even in Gleason pattern 4 with poorly formed glands-no short-range migration of cells by Gleason pattern 4 (poorly formed glands); (ii) no repeated interconnections between the glands, with a tumour building a tree-like branched structure with very 'plastic' branches (maximal depth of investigation 375 µm); (iii) very stark compartmentalisation of the tumour related to extensive branching, the coexistence of independent terminal units of such branches in one 2D slice explaining intratumoral heterogeneity; (iv) evidence of a craniocaudal growth direction in interglandular regions of the prostate and for a lateromedial growth direction in subcapsular posterolateral regions; and (v) a 3D architecture-based description of Gleason pattern 4 with poorly formed glands, and its continuum with Gleason pattern 3. CONCLUSIONS: Consecutive histological sections provide high-quality material for 3D reconstructions of the tumour architecture, with excellent resolution. The reconstruction of multiple regions in this typical case of a Gleason score 3 + 4 = 7 tumour provides insights into relevant aspects of tumour growth, the continuity of Gleason patterns 3 and 4, and tumour heterogeneity.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1801
[Cu] Fecha actualización por clase:180301
[Lr] Fecha última revisión:180301
[St] Status:Publisher
[do] DOI:10.1111/his.13467


  4 / 1477 MEDLINE  
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[PMID]:29359469
[Au] Autor:Laird CT; Hassanein W; O'Neill NA; French BM; Cheng X; Fogler WE; Magnani JL; Parsell D; Cimeno A; Phelps CJ; Ayares D; Burdorf L; Azimzadeh AM; Pierson RN
[Ad] Dirección:University of Maryland SOM, Baltimore, MD, USA.
[Ti] Título:P- and E-selectin receptor antagonism prevents human leukocyte adhesion to activated porcine endothelial monolayers and attenuates porcine endothelial damage.
[So] Fuente:Xenotransplantation;, 2018 Jan 23.
[Is] ISSN:1399-3089
[Cp] País de publicación:Denmark
[La] Idioma:eng
[Ab] Resumen:BACKGROUND: Alongside the need to develop more effective and less toxic immunosuppression, the shortage of human organs available for organ transplantation is one of the major hurdles facing the field. Research into xenotransplantation, as an alternative source of organs, has unveiled formidable challenges. Porcine lungs perfused with human blood rapidly sequester the majority of circulating neutrophils and platelets, which leads to inflammation and organ failure within hours, and is not significantly attenuated by genetic modifications to the pig targeted to diminish antibody binding and complement and coagulation cascade activation. METHODS: Here, we model the interaction of freshly isolated human leukocytes with xenotransplanted vasculature under physiologic flow conditions using microfluidic channels coated with porcine endothelial cells. Both isolated human neutrophils and whole human blood were perfused over transgenic pig aortic endothelial cells that had been activated with rhTNF-α or rhIL-4 using the BioFlux system. Novel compounds GMI-1271 and rPSGL1.Fc were tested as E- and P- selectin antagonists, respectively. Cellular adhesion and rolling events were tracked using FIJI (imageJ). RESULTS: Porcine endothelium activated with either rhTNF-α or rhIL-4 expressed high amounts of selectins, to which isolated human neutrophils readily rolled and tethered. Both E-and P-selectin antagonism significantly reduced the number of neutrophils rolling and rolling distance in a dose-dependent manner, with near total inhibition at higher doses (P < .001). Similarly, with whole human blood, selectin blocking compounds exhibited dose-dependent inhibition of prevalent leukocyte adhesion and severe endothelial injury (Untreated: 394 ± 97 PMNs/hpf, 57 ± 6% loss EC; GMI1271+rPSGL1.Fc: 23 ± 9 PMNs/hpf, 8 ± 6% loss EC P < .01). CONCLUSIONS: Selectin blockade may be useful as part of an integrated strategy to prevent neutrophil-mediated organ xenograft injury, especially during the early time points following reperfusion.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1801
[Cu] Fecha actualización por clase:180227
[Lr] Fecha última revisión:180227
[St] Status:Publisher
[do] DOI:10.1111/xen.12381


  5 / 1477 MEDLINE  
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[PMID]:29199105
[Au] Autor:Jønsson KA; Blom MPK; Päckert M; Ericson PGP; Irestedt M
[Ad] Dirección:Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen Ø, Denmark. Electronic address: kajonsson@snm.ku.dk.
[Ti] Título:Relicts of the lost arc: High-throughput sequencing of the Eutrichomyias rowleyi (Aves: Passeriformes) holotype uncovers an ancient biogeographic link between the Philippines and Fiji.
[So] Fuente:Mol Phylogenet Evol;120:28-32, 2018 Mar.
[Is] ISSN:1095-9513
[Cp] País de publicación:United States
[La] Idioma:eng
[Ab] Resumen:Molecular studies have revealed a number of cases in which traditional assessments of evolutionary relationships have been incorrect. This has implications not only for systematics and taxonomy but also for our understanding of how diversity patterns on Earth have been formed. Here, we use high-throughput sequencing technology to obtain molecular data from the holotype specimen of the elusive Eutrichomyias rowleyi, which is endemic to the Indonesian island of Sangihe. We show that E. rowleyi unexpectedly is a member of the family Lamproliidae, which dates back some 20 Million years and only include two other species, Lamprolia victoriae from Fiji and Chaetorhynchus papuensis from New Guinea. Tectonic reconstructions suggest that the Melanesian island arc, which included land masses on the northern edge of the Australian plate (present day New Guinea) stretched as a string of islands from the Philippines (including proto-Sangihe) to Fiji from 25 to 20 My. Consequently, our results are indicative of an ancient distribution along the Melanesian island arc followed by relictualization, which led to members of the Lamproliidae to be distributed on widely separated islands across the Indo-Pacific.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1712
[Cu] Fecha actualización por clase:180227
[Lr] Fecha última revisión:180227
[St] Status:In-Data-Review


  6 / 1477 MEDLINE  
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[PMID]:29474147
[Au] Autor:Adams F; Nolte F; Colton J; De Beer J; Weddig L
[Ad] Dirección:1 28 Langdale Court, Huntington, Hamilton 3210 New Zealand.
[Ti] Título:Precooking as a Control for Histamine Formation during the Processing of Tuna: An Industrial Process Validation.
[So] Fuente:J Food Prot;:444-455, 2018 Feb 23.
[Is] ISSN:1944-9097
[Cp] País de publicación:United States
[La] Idioma:eng
[Ab] Resumen:An experiment to validate the precooking of tuna as a control for histamine formation was carried out at a commercial tuna factory in Fiji. Albacore tuna ( Thunnus alalunga) were brought on board long-line catcher vessels alive, immediately chilled but never frozen, and delivered to an on-shore facility within 3 to 13 days. These fish were then allowed to spoil at 25 to 30°C for 21 to 25 h to induce high levels of histamine (>50 ppm), as a simulation of "worst-case" postharvest conditions, and subsequently frozen. These spoiled fish later were thawed normally and then precooked at a commercial tuna processing facility to a target maximum core temperature of 60°C. These tuna were then held at ambient temperatures of 19 to 37°C for up to 30 h, and samples were collected every 6 h for histamine analysis. After precooking, no further histamine formation was observed for 12 to 18 h, indicating that a conservative minimum core temperature of 60°C pauses subsequent histamine formation for 12 to 18 h. Using the maximum core temperature of 60°C provided a challenge study to validate a recommended minimum core temperature of 60°C, and 12 to 18 h was sufficient to convert precooked tuna into frozen loins or canned tuna. This industrial-scale process validation study provides support at a high confidence level for the preventive histamine control associated with precooking. This study was conducted with tuna deliberately allowed to spoil to induce high concentrations of histamine and histamine-forming capacity and to fail standard organoleptic evaluations, and the critical limits for precooking were validated. Thus, these limits can be used in a hazard analysis critical control point plan in which precooking is identified as a critical control point.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1802
[Cu] Fecha actualización por clase:180223
[Lr] Fecha última revisión:180223
[St] Status:Publisher
[do] DOI:10.4315/0362-028X.JFP-17-276


  7 / 1477 MEDLINE  
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[PMID]:29466096
[Au] Autor:Sprunt B; Marella M
[Ad] Dirección:a Nossal Institute for Global Health, Melbourne School of Population and Global Health , The University of Melbourne , Melbourne , Australia.
[Ti] Título:Measurement accuracy: Enabling human rights for Fijian students with speech difficulties.
[So] Fuente:Int J Speech Lang Pathol;20(1):89-97, 2018 Feb.
[Is] ISSN:1754-9515
[Cp] País de publicación:England
[La] Idioma:eng
[Ab] Resumen:PURPOSE: The Universal Declaration of Human Rights enshrines the rights to communication and education and measuring access to these rights for children with disabilities is fundamental. The UNICEF/Washington Group Child Functioning Module (CFM) is being promoted to measure progress against the Sustainable Development Goals for children with disabilities. This cross-sectional diagnostic accuracy study in Fiji compares parent and teacher CFM responses to the Intelligibility in Context Scale for 463 primary-aged students with and without speech difficulties. METHOD: Receiver operating characteristic curves were constructed to analyse CFM accuracy and determine optimal cut-off points; inter-rater reliability between teachers and parents was calculated. RESULT: Parent responses to the CFM speech questions achieved an area under the curve of 0.98, indicating "excellent" diagnostic accuracy. Teachers achieved 0.92 ("very good"). The Youden Index identified the optimal cut-off as "some difficulty". CONCLUSION: The CFM appears effective when used by parents or teachers for distinguishing between children with and without speech difficulties. While identified as the optimal cut-off statistically, the "some difficulty" category identifies too many children without speech difficulties to be simplistically applied to funding eligibility. The CFM should be used as a screening tool, followed by further assessment to confirm eligibility.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1802
[Cu] Fecha actualización por clase:180221
[Lr] Fecha última revisión:180221
[St] Status:In-Data-Review
[do] DOI:10.1080/17549507.2018.1428685


  8 / 1477 MEDLINE  
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[PMID]:29464320
[Au] Autor:Steiner C; Gevaert T; Ganzer R; De Ridder D; Neuhaus J
[Ad] Dirección:Department of Urology, Research Laboratories, University of Leipzig, Liebigstraße 19, Building C., 04103, Leipzig, Germany.
[Ti] Título:Comparative immunohistochemical characterization of interstitial cells in the urinary bladder of human, guinea pig and pig.
[So] Fuente:Histochem Cell Biol;, 2018 Feb 20.
[Is] ISSN:1432-119X
[Cp] País de publicación:Germany
[La] Idioma:eng
[Ab] Resumen:Interstitial cells (ICs) are thought to play a functional role in urinary bladder. Animal models are commonly used to elucidate bladder physiology and pathophysiology. However, inter-species comparative studies on ICs are rare. We therefore analyzed ICs and their distribution in the upper lamina propria (ULP), the deeper lamina propria (DLP) and the detrusor muscular layer (DET) of human, guinea pig (GP) and pig. Paraffin slices were examined by immunohistochemistry and 3D confocal immunofluorescence of the mesenchymal intermediate filament vimentin (VIM), alpha-smooth muscle actin (αSMA), platelet-derived growth factor receptor alpha (PDGFRα) and transient receptor potential cation channel A1 (TRPA1). Image stacks were processed for analysis using Huygens software; quantitative analysis was performed with Fiji macros. ICs were identified by immunoreactivity for VIM (excluding blood vessels). In all species ≥ 75% of ULP ICs were VIM /PDGFRα and ≥ 90% were VIM /TRPA1 . In human and pig ≥ 74% of ULP ICs were VIM /αSMA , while in GP the percentage differed significantly with only 37% VIM /αSMA ICs. Additionally, over 90% of αSMA ICs were also TRPA1 and PDGFRα in human, GP and pig. In all three species, TRPA1 and PDGFRα ICs point to an active role for these cells in bladder physiology, regarding afferent signaling processes and signal modification. We hypothesize that decline in αSMA-positivity in GP reflects adaptation of bladder histology to smaller bladder size. In our experiments, pig bladder proved to be highly comparable to human urinary bladder and seems to provide safer interpretation of experimental findings than GP.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1802
[Cu] Fecha actualización por clase:180221
[Lr] Fecha última revisión:180221
[St] Status:Publisher
[do] DOI:10.1007/s00418-018-1655-z


  9 / 1477 MEDLINE  
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[PMID]:28470516
[Au] Autor:Ivanov DP; Grabowska AM; Garnett MC
[Ad] Dirección:Cancer Biology, Division of Cancer and Stem Cells, School of Medicine, Queen's Medical Centre, University of Nottingham, Nottingham, NG7 2UH, UK. delyan.ivanov@nottingham.ac.uk.
[Ti] Título:High-Throughput Spheroid Screens Using Volume, Resazurin Reduction, and Acid Phosphatase Activity.
[So] Fuente:Methods Mol Biol;1601:43-59, 2017.
[Is] ISSN:1940-6029
[Cp] País de publicación:United States
[La] Idioma:eng
[Ab] Resumen:Mainstream adoption of physiologically relevant three-dimensional models has been slow in the last 50 years due to long, manual protocols with poor reproducibility, high price, and closed commercial platforms. This chapter describes high-throughput, low-cost, open methods for spheroid viability assessment which use readily available reagents and open-source software to analyze spheroid volume, metabolism, and enzymatic activity. We provide two ImageJ macros for automated spheroid size determination-for both single images and images in stacks. We also share an Excel template spreadsheet allowing users to rapidly process spheroid size data, analyze plate uniformity (such as edge effects and systematic seeding errors), detect outliers, and calculate dose-response. The methods would be useful to researchers in preclinical and translational research planning to move away from simplistic monolayer studies and explore 3D spheroid screens for drug safety and efficacy without substantial investment in money or time.
[Mh] Términos MeSH primario: Supervivencia Celular
Ensayos Analíticos de Alto Rendimiento/métodos
Indicadores y Reactivos/metabolismo
Esferoides Celulares/fisiología
[Mh] Términos MeSH secundario: Fosfatasa Ácida/metabolismo
Encéfalo/citología
Línea Celular Tumoral
Relación Dosis-Respuesta a Droga
Evaluación Preclínica de Medicamentos
Ensayos Analíticos de Alto Rendimiento/economía
Seres Humanos
Procesamiento de Imagen Asistida por Computador
Oxazinas/química
Reproducibilidad de los Resultados
Sensibilidad y Especificidad
Programas Informáticos
Esferoides Celulares/citología
Esferoides Celulares/metabolismo
Factores de Tiempo
Xantenos/química
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Nm] Nombre de substancia:
0 (Indicators and Reagents); 0 (Oxazines); 0 (Xanthenes); 1FN9YD6968 (resazurin); EC 3.1.3.2 (Acid Phosphatase)
[Em] Mes de ingreso:1802
[Cu] Fecha actualización por clase:180219
[Lr] Fecha última revisión:180219
[Sb] Subgrupo de revista:IM
[Da] Fecha de ingreso para procesamiento:170505
[St] Status:MEDLINE
[do] DOI:10.1007/978-1-4939-6960-9_4


  10 / 1477 MEDLINE  
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[PMID]:29343593
[Au] Autor:Oliver PM; Brown RM; Kraus F; Rittmeyer E; Travers SL; Siler CD
[Ad] Dirección:Ecology, Evolution and Genetics, Australian National University, Canberra, Australian Capital Territory 2601, Australia paul.oliver@anu.edu.au.
[Ti] Título:Lizards of the lost arcs: mid-Cenozoic diversification, persistence and ecological marginalization in the West Pacific.
[So] Fuente:Proc Biol Sci;285(1871), 2018 Jan 31.
[Is] ISSN:1471-2954
[Cp] País de publicación:England
[La] Idioma:eng
[Ab] Resumen:Regions with complex geological histories often have diverse and highly endemic biotas, yet inferring the ecological and historical processes shaping this relationship remains challenging. Here, in the context of the taxon cycle model of insular community assembly, we investigate patterns of lineage diversity and habitat usage in a newly characterized vertebrate radiation centred upon the world's most geologically complex insular region: island arcs spanning from the Philippines to Fiji. On island arcs taxa are ecologically widespread, and provide evidence to support one key prediction of the taxon cycle, specifically that interior habitats (lowland rainforests, montane habitats) are home to a greater number of older or relictual lineages than are peripheral habitats (coastal and open forests). On continental fringes, however, the clade shows a disjunct distribution away from lowland rainforest, occurring in coastal, open or montane habitats. These results are consistent with a role for biotic interactions in shaping disjunct distributions (a central tenant of the taxon cycle), but we find this pattern most strongly on continental fringes not islands. Our results also suggest that peripheral habitats on islands, and especially island arcs, may be important for persistence and diversification, not just dispersal and colonization. Finally, new phylogenetic evidence for subaerial island archipelagos (with an associated biota) east of present-day Wallace's Line since the Oligocene has important implications for understanding long-term biotic interchange and assembly across Asia and Australia.
[Pt] Tipo de publicación:JOURNAL ARTICLE
[Em] Mes de ingreso:1801
[Cu] Fecha actualización por clase:180214
[Lr] Fecha última revisión:180214
[St] Status:In-Data-Review



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