CRITICISM OF THE GROUNDS FOR ADOPTING INDEPENDENT EXPERIMENT MODELS BASEDON INTUITIVE ARGUMENTS

2021 ◽  
pp. 70-81
Author(s):  
Vladimir Moiseevich Reznikov
2006 ◽  
Vol 26 (1) ◽  
pp. 15-34 ◽  
Author(s):  
Richard N. Morrison ◽  
Glenn A. Cooper ◽  
Ben F. Koop ◽  
Matthew L. Rise ◽  
Andrew R. Bridle ◽  
...  

Neoparamoeba spp. are amphizoic amoebae with the capacity to colonize the gills of some marine fish, causing AGD. Here, the gill tissue transcriptome response of Atlantic salmon ( Salmo salar L.) to AGD is described. Tanks housing Atlantic salmon were inoculated with Neoparamoeba spp. and fish sampled at time points up to 8 days postinoculation (pi.). Gill tissues were taken from AGD-affected fish, and a DNA microarray was used to compare global gene expression against tissues from AGD-unaffected fish. A total of 206 genes, representing 190 unique transcripts, were reproducibly identified as up- or downregulated in response to Neoparamoeba spp. infection. Informative transcripts having GO biological process identifiers were grouped according to function. Although a number of genes were placed into each category, no distinct patterns were observed. One Atlantic salmon cDNA that was upregulated in infected gill relative to noninfected gill at 114 and 189 h pi. showed significant identity with the Xenopus, mouse, and human anterior gradient-2 (AG-2) homologs. Two Atlantic salmon AG-2 mRNA transcripts, designated asAG-2/1 and asAG-2/2, were cloned, sequenced, and shown to be predominantly expressed in the gill, intestine, and brain of a healthy fish. In AGD-affected fish, differential asAG-2 expression was confirmed in samples used for microarray analyses as well as in AGD-affected gill tissue taken from fish in an independent experiment. The asAG-2 upregulation was restricted to AGD lesions relative to unaffected tissue from the same gill arch, while p53 tumor suppressor protein mRNA was concurrently downregulated in AGD lesions. Differential expression of p53-regulated transcripts, proliferating cell nuclear antigen and growth arrest and DNA damage-inducible gene-45β (GADD45β) in AGD lesions, suggests a role for p53 in AGD pathogenesis. Thus AGD may represent a novel model for comparative analysis of p53 and p53-regulated pathways.


2002 ◽  
Vol 2 (1) ◽  
pp. 103-108 ◽  
Author(s):  
S.G.J. Heijman ◽  
W. Siegers ◽  
R. Sterk ◽  
R. Hopman

Adsorption columns are widely used in drinking water treatment to improve a number of water quality parameters. Granular activated carbon filtration (GAC) can be used to decrease the concentration of DOC, colour, taste, odour and pesticides. Columns filled with ion-exchange resins are used to remove colour, nitrate and DOC. The regeneration frequency of these types of filters depends strongly on the natural water quality. Especially the DOC-concentration and DOC-composition determines the efficiency of the processes. Because pilot-plant experiments with realistic contact-times will last for more than a year (for GAC) there is a need for a prediction of breakthrough based on shorter and less expensive laboratory experiments. The available models are not accurate enough because the exact parameters are not available. In batch experiments with natural water, with realistic (low) pesticide concentrations and the full grain size of the adsorbent the adsorption parameters are measured in an independent experiment. With the parameters obtained with these experiments an accurate prediction of the breakthrough curve is possible. With the same parameters predictions of breakthrough curves are calculated under different process conditions. The possibilities of process optimisation can reduce the investment costs for new full-scale plants.


2015 ◽  
Vol 22 (3) ◽  
pp. 634-643 ◽  
Author(s):  
Sébastien Boutet ◽  
Lutz Foucar ◽  
Thomas R. M. Barends ◽  
Sabine Botha ◽  
R. Bruce Doak ◽  
...  

X-ray free-electron laser sources such as the Linac Coherent Light Source offer very exciting possibilities for unique research. However, beam time at such facilities is very limited and in high demand. This has led to significant efforts towards beam multiplexing of various forms. One such effort involves re-using the so-called spent beam that passes through the hole in an area detector after a weak interaction with a primary sample. This beam can be refocused into a secondary interaction region and used for a second, independent experiment operating in series. The beam profile of this refocused beam was characterized for a particular experimental geometry at the Coherent X-ray Imaging instrument at LCLS. A demonstration of this multiplexing capability was performed with two simultaneous serial femtosecond crystallography experiments, both yielding interpretable data of sufficient quality to produce electron density maps.


2014 ◽  
Vol 14 (6) ◽  
pp. 2987-3015 ◽  
Author(s):  
C. S. Zerefos ◽  
P. Tetsis ◽  
A. Kazantzidis ◽  
V. Amiridis ◽  
S. C. Zerefos ◽  
...  

Abstract. We examine sunsets painted by famous artists as proxy information for the aerosol optical depth after major volcanic eruptions. Images derived from precision colour protocols applied to the paintings were compared to online images, and found that the latter, previously analysed, provide accurate information. Aerosol optical depths (AODs) at 550 nm, corresponding to Northern Hemisphere middle latitudes, calculated by introducing red-to-green (R / G) ratios from a large number of paintings to a radiative transfer model, were significantly correlated with independent proxies from stratospheric AOD and optical extinction data, the dust veil index, and ice core volcanic indices. AODs calculated from paintings were grouped into 50-year intervals from 1500 to 2000. The year of each eruption and the 3 following years were defined as "volcanic". The remaining "non-volcanic" years were used to provide additional evidence of a multidecadal increase in the atmospheric optical depths during the industrial "revolution". The increase of AOD at 550 nm calculated from the paintings grows from 0.15 in the middle 19th century to about 0.20 by the end of the 20th century. To corroborate our findings, an experiment was designed in which a master painter/colourist painted successive sunsets during and after the passage of Saharan aerosols over the island of Hydra in Greece. Independent solar radiometric measurements confirmed that the master colourist's R / G ratios which were used to model his AODs, matched the AOD values measured in situ by co-located sun photometers during the declining phase of the Saharan aerosol. An independent experiment was performed to understand the difference between R / G ratios calculated from a typical volcanic aerosol and those measured from the mineral aerosol during the Hydra experiment. It was found that the differences in terms of R / G ratios were small, ranging between −2.6% and +1.6%. Also, when analysing different parts of cloudless skies of paintings following major volcanic eruptions, any structural differences seen in the paintings had not altered the results discussed above. However, a detailed study on all possible sources of uncertainties involved (such as the impact of clouds on R / G ratios) still needs to be studied. Because of the large number of paintings studied, we tentatively propose the conclusion that regardless of the school, red-to-green ratios from great masters can provide independent proxy AODs that correlate with widely accepted proxies and with independent measurements.


2002 ◽  
Vol 744 ◽  
Author(s):  
Tino Hofmann ◽  
Marius Grundmann ◽  
Craig M. Herzinger ◽  
Mathias Schubert ◽  
Wolfgang Grill

ABSTRACTIn accord with the Drude model, the free-carrier contribution to the dielectric function at infrared wavelengths is proportional to the ratio of the free-carrier concentration N and the effective mass m*, and the product of the optical mobility μ and m*. Typical infrared optical experiments are therefore sensitive to the free-carrier mass, but determination of m* from the measured dielectric function requires an independent experiment, such as an electrical Hall-effect measurement, which provides either N or μ. Highly-doped zincblende III-V-semiconductors exposed to a strong external magnetic field exhibit non-symmetric magnetooptical birefringence, which is inversely proportional to m*. If the spectral dependence of the magnetooptical dielectric function tensor is known, the parameters N, m* and μ can be determined independently from optical measurements alone. Generalized ellipsometry measures three complex-valued ratios of normalized Jones matrix elements, from which the individual tensor elements of the dielectric function of arbitrarily anisotropic materials in layered samples can be reconstructed. We present the application of generalized ellipsometry to semiconductor layer structures at far-infrared wavelengths, and determine the magnetooptical dielectric function for n-GaAs and n-AlGaInP for wavelengths from 100 μm to 15 μm. We obtain the effective electron mass and mobility results of GaAs in excellent agreement with results obtained from Hall-effect and Shubnikov-de-Haas experiments. The effective electron mass in disordered n-AlGaInP obtained here is in very good agreement with previous k·p calculations. (Far)-infrared magnetooptic generalized ellipsometry may open up new avenues for non-destructive characterization of free-carrier properties in complex semiconductor heterostructures.


2016 ◽  
Vol 6 (1) ◽  
Author(s):  
Yasmín Zorrilla-Fontanesi ◽  
Mathieu Rouard ◽  
Alberto Cenci ◽  
Ewaut Kissel ◽  
Hien Do ◽  
...  

Abstract To explore the transcriptomic global response to osmotic stress in roots, 18 mRNA-seq libraries were generated from three triploid banana genotypes grown under mild osmotic stress (5% PEG) and control conditions. Illumina sequencing produced 568 million high quality reads, of which 70–84% were mapped to the banana diploid reference genome. Using different uni- and multivariate statistics, 92 genes were commonly identified as differentially expressed in the three genotypes. Using our in house workflow to analyze GO enriched and underlying biochemical pathways, we present the general processes affected by mild osmotic stress in the root and focus subsequently on the most significantly overrepresented classes associated with: respiration, glycolysis and fermentation. We hypothesize that in fast growing and oxygen demanding tissues, mild osmotic stress leads to a lower energy level, which induces a metabolic shift towards (i) a higher oxidative respiration, (ii) alternative respiration and (iii) fermentation. To confirm the mRNA-seq results, a subset of twenty up-regulated transcripts were further analysed by RT-qPCR in an independent experiment at three different time points. The identification and annotation of this set of genes provides a valuable resource to understand the importance of energy sensing during mild osmotic stress.


2015 ◽  
Vol 90 (5) ◽  
pp. 2264-2272 ◽  
Author(s):  
Christina Schröter ◽  
Melina Vallbracht ◽  
Jan Altenschmidt ◽  
Sabrina Kargoll ◽  
Walter Fuchs ◽  
...  

ABSTRACTEntry of herpesviruses depends on the combined action of viral glycoprotein B (gB) and the heterodimeric gH/gL complex, which are activated by binding of the virion to specific cellular receptors. While gB carries signatures of a bona fide fusion protein, efficient membrane fusion requires gH/gL. However, although gB and gH/gL are essential for entry, the alphaherpesvirus pseudorabies virus (PrV) is capable of limited cell-to-cell spread in the absence of gL. To understand gH/gL function in more detail, the limited spread of PrV-ΔgL was used for reversion analyses by serial cell culture passages. In a first experiment, an infectious gL-negative mutant in which gL function was replaced by generation of a gD-gH hybrid protein was isolated (B. G. Klupp and T. C. Mettenleiter, J Virol 73:3014–3022, 1999). In a second, independent experiment PrV-ΔgLPassB4.1, which also replicated productively without gL, was isolated. Sequence analysis revealed mutations in gH but also in gB and gD. In a transfection-based fusion assay, two amino acid substitutions in the N-terminal part of gHB4.1(L70P and W103R) were found to be sufficient to compensate for lack of gL, while mutations present in gBB4.1enhanced fusogenicity. Coexpression of gBB4.1with the homologous gHB4.1resulted in strongly increased syncytium formation, which was further augmented by truncation of the gBB4.1C-terminal 29 amino acids. Nevertheless, gH was still required for membrane fusion. Surprisingly, coexpression of gDB4.1blocked syncytium formation in the fusion assays, which could be attributed to a V106A substitution within the ectodomain of gDB4.1.IMPORTANCEIn contrast to many other enveloped viruses, herpesviruses rely on the concerted action of four viral glycoproteins for membrane fusion during infectious entry. Although the highly conserved gB shows signatures of a fusion protein, for fusion induction it requires the gH/gL complex, whose role is still elusive. Here we demonstrated fusion activation by gH in the absence of gL after reversion analysis of gL-deleted pseudorabies virus. This gL-independent fusion activity depended on single amino acid exchanges affecting the gL-binding domain in gH, increasing fusogenicity in gB and allowing negative fusion regulation by gD. Thus, our results provide novel information on the interplay in the fusion machinery of herpesviruses.


Blood ◽  
2019 ◽  
Vol 134 (Supplement_1) ◽  
pp. 1920-1920
Author(s):  
Casey O. Lightbourn ◽  
Clarisel Lozano ◽  
Cameron S. Bader ◽  
Sabrina N. Copsel ◽  
Dietlinde Wolf ◽  
...  

Regulatory T cells (Tregs) are critical to maintaining immune homeostasis and generating tolerance in the gastrointestinal (GI) tract. GI complications play a prominent role following allogeneic HSCT (aHSCT) and we are interested in manipulating GI Tregs to regulate GVHD. Previously our lab has shown that using a two-pathway strategy of stimulating the TNFRSF25 and CD25 receptors with a TL1A-Ig fusion protein (FP) and IL-2low dose, Treg frequency and numbers in the lymphohematopoietic (LHC) compartment can be markedly increased (Wolf, BBMT 2017; Copsel, BBMT 2018). As a consequence of microbes and food antigens, Treg populations in the GI have a relative highly diverse composition compared to the lymphohematopoietic Treg compartment. This includes, but is not limited to, the presence of a stable and suppressive FoxP3+RORyt+ Treg population. Additionally, the GI tract contains various populations of innate lymphoid cells (ILCs) that interact with Tregs. ILCs express CD25 as well as TNFRSF25, and respond individually to IL-2 and TL1A administration respectively (Danny, JCI 2017; Verneris, Blood 2013). Based on the extensive differences between the lymphohematopoietic and GI Treg compartments, we evaluated how our two-pathway strategy may be differentially affecting the levels and activation status of Tregs in the GI tract. To address this question, we initially utilized B6-Nur77GFP mice, where GFP expression occurs with activation of the Nur77 promoter. However, since Nur77 is only produced following TcR engagement and not inflammatory signals, the strength of TcR stimulation in all T cell populations can be monitored by GFP levels. We first examined Tregs from 2-pathway treated B6-Nur77GFP mice and subsequently generated B6-Nur77GFPFoxP3RFP mice to readily assess the TcR signaling status of Tregs in different compartments. Mice were systemically administered FP, IL-2, or FP + IL-2 over a 1 wk period. The frequency of Tregs (FoxP3+CD4+) / Tcon (CD4+FoxP3-) in the lamina propria (LP) of the large intestine (LI) reached levels >60%. (1A). This elevation of Treg / Tcon frequency included FoxP3+RORyt- Tregs as well as FoxP3+RORyt+ double positive Treg populations. In contrast to our previous findings in the LHC, treatment with TL1A-Ig FP alone elevated levels to the same extent as the combination of FP + IL-2 (1A). Importantly, IL-2 treatment alone - as reported in the LHC - again had only a modest effect on elevating the frequency of Tregs in the LI/LP (1A). These observations suggest that the activation status of Tregs may differ based on the compartmental location. To asses activation status, we evaluated 2-pathway treated B6-Nur77GFP mice. Tregs in the LN/spleen had elevated frequency of GFP+ Tregs and higher GFP MFI than untreated mice. This elevated TcR stimulation was present in peripheral Tregs - but not CD8 - T cells (1B). Without exogenous stimulation, Tregs exhibited higher baseline TcR activation levels vs. Tcon cells (1B). The frequency of GFP+ Tregs and the GFP MFI was clearly highest (>45%) in the SI and LI LP vs. LN/spleen (<35%) (1C). In an independent experiment, we verified these findings and learned that only conjunctival Tregs demonstrated similarly increased frequency of GFP+ Tregs with elevated GFP MFI (1D). We also found that TL1A-Ig + IL-2 treatment in vivo increases the relative frequency of both innate ILC2 and ILC3 lymphoid populations (2A). The combination also increased the frequency of ILC2 cells greater than either reagent alone in the GI tract (2B). In total, our results objectively validate selective Treg vs. Tcon targeting via TNFRSF25. These findings also demonstrate that basal Treg activation status differs depending on the compartment. Notably, Tregs in mucosal vs. LHC tissue expressed higher TcR activation levels. Such Tregs have the potential for co-stimulation via TNFRSF25. Moreover, since IL-2 is required to maintain Tregs under both basal and activated conditions, our findings suggest a local source of IL-2 is present to maintain GI Tregs. ILC3 cells are recently reported to generate IL-2 (Zhou L, Nature 2019). We hypothesize that TNFRSF25 stimulation in ILC3 cells results in a local source of IL-2 which can account for our finding that TL1A-Ig alone vs. TL1A-Ig + IL-2 stimulation results in equivalent levels of GI Tregs. Ongoing experiments are examining how GI GVHD in aHSCT recipients are affected by TNFRSF25 +/- CD25 Treg/ILC stimulation. Disclosures Levy: Heat Biologics: Consultancy, Equity Ownership, Membership on an entity's Board of Directors or advisory committees, Research Funding; Pelican Therapeutics: Consultancy, Research Funding.


Author(s):  
I. I. Ibatullin ◽  
M. I. Holubiev

In the article, results of researches on an establishment of an optimum source of Manganese are resulted. Manganese was additionally added mixed fodder for quails grown for meat. Experimental studies conducted in terms of problem research laboratory of feed additives National University of Life and Environmental Sciences of Ukraine. Independent experiment was conducted with growing Pharaoh Coturnix quails. We conducted a randomized block experiment with 3 treatments, each with 4 replicates of 25 growing birds (1 to 35 d of age). A diet consisting of corn, soybean and sunflower meal, wheat, fish meal, sunflower oil, premix (28% CP, 2.88 kcal of ME/g on 1 to 21d of age, 20.5% CP, 2.97 kcal of ME/g on 22 to 35 d of age) having severally Manganese sulphate, Manganese glycinate and Manganese citrate. Diets and water were offered ad libitum. After 5 weeks of dietary treatments the carcass composition (breast muscles, leg muscles, skin, subcutaneous fat, liver, kidneys, lungs, heart, gizzard) were affected by dietary treatments. Carcass weight and breast muscles was increased (P < 0.05) with organic sources of manganese in the diet. It found little effect (P = 0.053) sources of manganese in the fodder for eviscerated yield. Therefore, Manganese glycinate could be used as a good tool for improving carcass yield of quails.


2018 ◽  
Vol 2 (1) ◽  
pp. 14-20
Author(s):  
Ike Festiana

Scientific knowledge as well as experiment keeps on growing every day.  Experiments flourished in the seventeenth century. Previously, information about world development was obtained by connecting the roles of prominent epistemology. Experimentation is defined as a planned program for restoring hypotheses by providing empirical evidence to people. Science is a process of seeking the truth. Activities in finding the truth involves a series of scientific method including experiment. The development of physics history is divided into five periods. Period one is indicated by the absence of systematic and independent experiment. In period two, experimental methods had been accountable, and well accepted as a scientific issue. In period three, (investigations developed more rapidly when classical physics development began to be foundation of current famous quantum physics). Period four which is called The Old Quantum Mechanics is indicated by the invention of microscopic phenomena. Period five is well known by the emergence of new quantum mechanics theory.


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