scholarly journals Performance of a new molecular assay for the detection of gastrointestinal pathogens

2020 ◽  
Vol 2 (10) ◽  
Author(s):  
Bruce A. Gingras ◽  
Jack A. Maggiore
Keyword(s):  
Negative Control ◽  
Nucleic Acid Amplification ◽  
Healthy Human ◽  
Diagnostic Laboratory ◽  
Content Type ◽  
Infectious Gastroenteritis ◽  
The Matrix ◽  
Spike Analysis ◽  
Parasitic Pathogens ◽  
Test Diagnostics

Introduction. Conventional diagnostic laboratory algorithms for determining the cause of infectious gastroenteritis include culture, biochemical identification and immunoassays. In addition, multiplex PCR-based testing has advanced into the gastroenterology diagnostic arena in recent years. Aim. The purpose of this study was to evaluate the performance of a new molecular test (Diagnostics Solutions Laboratory GI-MAP) for the detection of bacterial and parasitic pathogens in stool samples spiked with known organisms. Methodology. Faeces from a healthy human subject were pooled into a standard matrix and screened for the absence of bacteria, parasites and Helicobacter pylori antigen. Once confirmed negative single faecal aliquots from the matrix were spiked with solely one pathogen-type from a panel of 14 bacterial pathogens or one of 2 parasitic pathogens at a density of 5×106 organisms ml−1. Sixteen spiked samples in appropriate transport media were sent to two testing labs, specifically a reference site using the PCR-based BioFire FilmArray Gastrointestinal Panel, and a second lab using the GI-MAP assay. Seven negative control samples comprised solely of stool matrix were also submitted. Results. Significant variability was found when the GI-MAP assay was used to test normal stool matrix with and without known bacteria and parasites at densities well within the expected limits of detection. The GI-MAP assay displayed a sensitivity of 80 % and a specificity of only 26 % due to many false positive results. This assay also reported quantitative numbers for pathogens. The BioFire FilmArray Gastrointestinal Panel achieved a sensitivity and specificity of 100 %. Conclusion. The highly variable results for the GI-MAP assay were unexpected due to the precise pre-spike analysis and the overall maturation of nucleic acid amplification methods within the industry. Problematic to this assay is the poor level of specificity displayed by this assay reporting the presence of several pathogens, which could cause clinicians to treat with antibacterial and/or antiparasitic agents in the absence of any true pathogens.

scholarly journals Is Follow-Up Testing with the FilmArray Gastrointestinal Multiplex PCR Panel Necessary?

2017 ◽  
Vol 55 (4) ◽  
pp. 1154-1161 ◽  
Author(s):  
Sholhui Park ◽  
Matthew M. Hitchcock ◽  
Carlos A. Gomez ◽  
Niaz Banaei
Keyword(s):  
Positive Result ◽  
Salt Lake ◽  
Salt Lake City ◽  
Initial Result ◽  
Nucleic Acid Amplification ◽  
Content Type ◽  
E Coli ◽  
Infectious Gastroenteritis ◽  
Conversion Rates

ABSTRACT The FilmArray gastrointestinal (GI) panel (BioFire Diagnostics, Salt Lake City, UT) is a simple, sample-to-answer, on-demand, multiplex, nucleic acid amplification test for syndromic diagnosis of infectious gastroenteritis. The aim of this study was to measure the yield of follow-up testing with FilmArray GI panel within 4 weeks of an initial test. Consecutive adult and pediatric patients tested at an academic institution between August 2015 and June 2016 were included in this study. Of 145 follow-up tests in 106 unique patients with an initial negative result, 134 (92.4%) tests and 98 (92.5%) patients remained negative upon follow-up testing. Excluding targets that are not reported at this institution ( Clostridium difficile , enteroaggregative Escherichia coli , enteropathogenic E. coli , and enterotoxigenic E. coli ), 137 (94.5%) follow-up tests and 101 (95.3%) patients remained negative. Weekly conversion rates were not significantly different across the 4-week follow-up interval. No epidemiological or clinical factors were significantly associated with a negative to positive conversion. Of 80 follow-up tests in patients with an initial positive result, 43 (53.8%) remained positive for the same target, 34 (42.5%) were negative, and 3 were positive for a different target (3.8%). Follow-up testing with FilmArray GI panel within 4 weeks of a negative result rarely changed the initial result, and the follow-up test reverted to negative less than half the time after an initial positive result. In the absence of clinical or epidemiological evidence for a new infection, follow-up testing should be limited and FilmArray GI panel should not be used as a test of cure.

scholarly journals Successful Combination of Nucleic Acid Amplification Test Diagnostics and Targeted Deferred Neisseria gonorrhoeae Culture

2015 ◽  
Vol 53 (6) ◽  
pp. 1884-1890 ◽  
Author(s):  
Carolien M. Wind ◽  
Henry J. C. de Vries ◽  
Maarten F. Schim van der Loeff ◽  
Magnus Unemo ◽  
Alje P. van Dam
Keyword(s):  
Nucleic Acid ◽  
Antimicrobial Resistance ◽  
Confidence Interval ◽  
Sampling Site ◽  
Patient Characteristics ◽  
Nucleic Acid Amplification Test ◽  
Nucleic Acid Amplification ◽  
Content Type ◽  
Test Diagnostics ◽  
Storage Times

Nucleic acid amplification tests (NAATs) are recommended for the diagnosis ofN. gonorrhoeaeinfections because of their superior sensitivity. Increasing NAAT use causes a decline in crucial antimicrobial resistance (AMR) surveillance data, which rely on culture. We analyzed the suitability of the ESwab system for NAAT diagnostics and deferred targetedN. gonorrhoeaeculture to allow selective and efficient culture based on NAAT results. We included patients visiting the STI Clinic Amsterdam, The Netherlands, in 2013. Patient characteristics and urogenital and rectal samples for directN. gonorrhoeaeculture, standard NAAT, and ESwab were collected. Standard NAAT and NAAT on ESwab samples were performed using the Aptima Combo 2 assay forN. gonorrhoeaeandC. trachomatis. Two deferredN. gonorrhoeaecultures were performed on NAAT-positive ESwab samples after storage at 4°C for 1 to 3 days. We included 2,452 samples from 1,893 patients. In the standard NAAT, 107 samples wereN. gonorrhoeaepositive and 284 wereC. trachomatispositive. The sensitivities of NAAT on ESwab samples were 83% (95% confidence interval [CI], 75 to 90%) and 87% (95% CI, 82 to 90%), respectively. ESwab samples were available for 98 of the gonorrhea-positive samples. Of these, 82% were positive in direct culture and 69% and 56% were positive in the 1st and 2nd deferred cultures, respectively (median storage times, 27 and 48 h, respectively). Deferred culture was more often successful in urogenital samples or when the patient had symptoms at the sampling site. DeferredN. gonorrhoeaeculture of stored ESwab samples is feasible and enables AMR surveillance. To limit the loss in NAAT sensitivity, we recommend obtaining separate samples for NAAT and deferred culture.

Study on high-temperature wear and mechanism of Al-Si/graphite composites prepared by the die-casting process

2020 ◽  
Vol 72 (10) ◽  
pp. 1153-1158 ◽  
Author(s):  
Yafei Deng ◽  
Xiaotao Pan ◽  
Guoxun Zeng ◽  
Jie Liu ◽  
Sinong Xiao ◽  
...  
Keyword(s):  
Friction Coefficient ◽  
Wear Rate ◽  
Peer Review ◽  
Die Casting ◽  
Casting Machine ◽  
Injection Pressure ◽  
Casting Process ◽  
Matrix Alloy ◽  
Content Type ◽  
The Matrix

Purpose This paper aims to improve the tribological properties of aluminum alloys and reduce their wear rate. Design/methodology/approach Carbon is placed in the model at room temperature, pour 680°C of molten aluminum into the pressure chamber, and then pressed it into the mold containing carbon felt through a die casting machine, and waited for it to cool, which used an injection pressure of 52.8 MPa and held the same pressure for 15 s. Findings The result indicated that the mechanical properties of matrix and composite are similar, and the compressive strength of the composite is only 95% of the matrix alloy. However, the composite showed a low friction coefficient, the friction coefficient of Gr/Al composite is only 0.15, which just is two-third than that of the matrix alloy. Similarly, the wear rate of the composite is less than 4% of the matrix. In addition, the composite can avoid severe wear before 200°C, but the matrix alloy only 100°C. Originality/value This material has excellent friction properties and is able to maintain this excellent performance at high temperatures. Peer review The peer review history for this article is available at: https://publons.com/publon/10.1108/ILT-10-2019-0454/

Fatigue behavior of precipitation strengthened Cu–Ni–Si alloy modified by Cr and Zr addition

2020 ◽  
Vol 11 (6) ◽  
pp. 861-873
Author(s):  
Ş. Hakan Atapek ◽  
Spiros Pantelakis ◽  
Şeyda Polat ◽  
Apostolos Chamos ◽  
Gülşah Aktaş Çelik
Keyword(s):  
Design Methodology ◽  
Fatigue Behavior ◽  
Fatigue Tests ◽  
Lower Stress ◽  
Content Type ◽  
Hardened Alloy ◽  
Zr Addition ◽  
Nucleation Sites ◽  
The Matrix ◽  
Lower Stress Level

Purpose The purpose of this paper is to investigate the fatigue behavior of precipitation-strengthened Cu‒2.55Ni‒0.55Si alloy, modified by the addition of 0.25 Cr and 0.25 Zr (wt%), using mechanical and fractographical studies to reveal the effect of microstructural features on the fracture. Design/methodology/approach For strengthening, cast and hot forged alloy was subjected to solution annealing at 900°C for 60 min, followed by quenching in water and then aging at 490°C for 180 min. Precipitation-hardened alloy was exposed to fatigue tests at R=−1 and different stress levels. All fracture surfaces were examined within the frame of fractographical analysis. Findings Fine Ni-rich silicides responsible for the precipitation strengthening were observed within the matrix and their interactions with the dislocations at lower stress level resulted in localized shearing and fine striations. Although, by the addition of Cr and Zr, the matrix consisted of hard Ni, Zr-rich and Cr-rich silicides, these precipitates adversely affected the fatigue behavior acting as nucleation sites for cracks. Originality/value These findings contribute to the present knowledge by revealing the effect of microstructural features on the mechanical behavior of precipitation-hardened Cu‒Ni‒Si alloy modified by Cr and Zr addition.

A study on tribological behaviour and analysis of ZnO reinforced AA6061 matrix composites fabricated by stir casting route

2021 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
Sakthi Sadhasivam RM ◽  
Ramanathan K. ◽  
Bhuvaneswari B.V. ◽  
Raja R.
Keyword(s):  
Wear Rate ◽  
Sliding Wear ◽  
Stir Casting ◽  
Industrial Applications ◽  
Wear Behaviour ◽  
Matrix Composites ◽  
Tribological Behaviour ◽  
Content Type ◽  
Zno Particles ◽  
The Matrix

Purpose The most promising replacements for the industrial applications are particle reinforced metal matrix composites because of their good and combined mechanical properties. Currently, the need of matrix materials for industrial applications is widely satisfied by aluminium alloys. The purpose of this paper is to evaluate the tribological behaviour of the zinc oxide (ZnO) particles reinforced AA6061 composites prepared by stir casting route. Design/methodology/approach In this study, AA6061 aluminium alloy matrix reinforced with varying weight percentages (3%, 4.5% and 6%) of ZnO particles, including monolithic AA6061 alloy samples, is cast by the most economical fabrication method, called stir casting. The prepared sample was subjected to X-ray photoelectron spectroscopy (XPS) analysis, experimental density measurement by Archimedian principle and theoretical density by rule of mixture and hardness test to investigate mechanical property. The dry sliding wear behaviour of the composites was investigated using pin-on-disc tribometer with various applied loads of 15 and 20 N, with constant sliding velocity and distance. The wear rate, coefficient of friction (COF) and worn surfaces of the composite specimens and their effects were also investigated in this work. Findings XPS results confirm the homogeneous distribution of ZnO microparticles in the Al matrix. The Vickers hardness result reveals that higher ZnO reinforced (6%) sample have 34.4% higher values of HV than the monolithic aluminium sample. The sliding wear tests similarly show that increasing the weight percentage of ZnO particles leads to a reduced wear rate and COF of 30.01% and 26.32% lower than unreinforced alloy for 15 N and 36.35% and 25% for 20 N applied load. From the worn surface morphological studies, it was evidently noticed that ZnO particles dispersed throughout the matrix and it had strong bonding between the reinforcement and the matrix, which significantly reduced the plastic deformation of the surfaces. Originality/value The uniqueness of this work is to use the reinforcement of ZnO particles with AA6061 matrix and preparing by stir casting route and to study and analyse the physical, hardness and tribological behaviour of the composite materials.

Enhancing the tensile strength of SiC reinforced aluminium- based functionally graded structure through the mixture design approach

2021 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
M. Poornesh ◽  
Shreeranga Bhat ◽  
E.V. Gijo ◽  
Pavana Kumara Bellairu
Keyword(s):  
Tensile Strength ◽  
Composite Structure ◽  
Centrifugal Casting ◽  
Matrix Material ◽  
Stir Casting ◽  
Mixture Design ◽  
Functionally Graded ◽  
Content Type ◽  
Functionally Graded Composite ◽  
The Matrix

PurposeThis article aims to study the tensile properties of a functionally graded composite structure with Al–18wt%Si alloy as the matrix material and silicon carbide (SiC) particles as the reinforcing element. More specifically, the study's primary objective is to optimize the composition of the material elements using a robust statistical approach.Design/methodology/approachIn this research, the composite material is fabricated using a combination of stir casting and the centrifugal casting technique. Moreover, the test specimen required to study the tensile strength are prepared according to the ASTM (American Society for Testing and Materials) standards. Eventually, optimal composition to maximize the tensile property of the material is determined using the mixture design approach.FindingsThe investigation results imply that the addition of the SiC plays a crucial role in increasing the tensile strength of the composite. The optical microstructural images of the composite show the adequate distribution of the reinforcing particles with the matrix. The proposed regression model shows better predictability of tensile strength. In addition, the methodology aids in optimizing the mixture component values to maximize the tensile strength of the produced functionally graded composite structure.Originality/valueLittle work has been reported so far where a hypereutectic Al–Si alloy is considered the matrix material to produce the composite structure. The article attempts to make a composite structure by using a combination of stir casting and centrifugal casting. Furthermore, it employs the mixture design to optimize the composition and predict the model of the study, which is one of a kind in the field of material science.

Service quality function deployment by the C-shaped QFD 3D matrix

2018 ◽  
Vol 25 (9) ◽  
pp. 3386-3405 ◽  
Author(s):  
Maryam Hassani ◽  
Arash Shahin ◽  
Manouchehr Kheradmandnia
Keyword(s):  
Quality Function Deployment ◽  
Design Methodology ◽  
Three Dimensional ◽  
Two Dimensional ◽  
Customer Requirements ◽  
Content Type ◽  
Process Characteristics ◽  
The Matrix ◽  
3D Matrix ◽  
Simultaneous Comparison

Purpose The purpose of this paper is to examine the application of C-shaped QFD 3D Matrix in comparing process characteristics (PC), performance aspects (PA) and customer requirements, simultaneously and to prioritize the first two sets, respectively. Design/methodology/approach A three dimensional matrix has been developed with three sets of PC, PA and customers’ requirements and C-shaped matrix has been applied for simultaneous comparison of the dimensions and prioritization of the subsets of PC and PA. The proposed approach has been examined in a post bank. Findings Findings confirm the possibility of simultaneous comparison and prioritization of the three sets of dimensions of this study in post bank services. In addition, “growth and learning” and “bilateral relationship with suppliers” had the first priorities among PA and PC, respectively. Research limitations/implications While the proposed approach has many advantages, filling the matrixes is time-consuming. Since illustrating the 3D matrix was not possible, the matrix was separated into five two-dimensional matrixes. Originality/value Compared to the studied literature, the proposed approach is practically new in the post bank services.

Equidistance returns

2018 ◽  
Vol 35 (3) ◽  
pp. 413-461 ◽  
Author(s):  
Nicholas Longenbaugh ◽  
Maria Polinsky
Keyword(s):  
Subject Position ◽  
Matrix Clause ◽  
Content Type ◽  
Object Shift ◽  
Case System ◽  
The Matrix ◽  
Case Licensing ◽  
Embedded Clause ◽  
Text Content ◽  
Semantic Object

Abstract Modern generative linguistic theory furnishes a variety of general principles that appear to be at work in the grammar of all the world’s languages. One of the most basic and uncontroversial of these principles is that Agree/Move operates according to the constraint Attract Closest, which dictates that the closest suitable goal must be the target for the relevant operation (Rizzi 1990; Chomsky 1995, 2000; Richards 1998). The Polynesian language Niuean (Tongic subgroup, predicate initial word order, ergative-absolutive case system) presents a well known challenge to the universality of {Attract Closest}. The challenge manifests in a variety of distinct constructions in Niuean, but the best known case involves an operation first documented by Seiter (1980), which he terms “raising.” Specifically, Niuean raising appears to license an A-type dependency between the subject position of the matrix clause and the object position of an immediately embedded clause. This is illustrated in (1), where the semantic object of the embedded subjunctive clause, Sione, appears as the syntactic subject of the matrix predicate maeke. (1) To maeke a Sione$_{1}$ [ke lagomatai he ekekafo $t_{1}$]. fut possible abs Sione sbj help erg doctor ‘It’s possible the doctor can help Sione.’ (lit.: Sione is possible that the doctor help [him]) Granting that the filler-gap dependency in (1) is A-type, this is both a clear violation of {Attract closest} (Rizzi 1992; Chomsky 1995; Richards 1998) and a typological anomaly. Our aim in this paper is to argue that such apparent violations of {Attract Closest} are only that. Specifically, we show first that the challenge inherent in Seiter’s raising construction is pervasive throughout the language: in general, objects are accessible to syntactic operations even if the intervening clause-mate subject is also a licit target. In other words, Niuean clause-mate subjects and objects are equally accessible to syntactic operations. Then, we argue that this typologically uncommon equal-accessibility follows from the convergence of several otherwise independently attested operations: (i) a configurational system of case licensing, with a $v$P as the case computation domain; (ii) obligatory object shift to Spec($v$P); (iii) an EPP on T triggering V/VP-raising rather than DP externalization. The resulting basic clause structure is then as below, so that Niuean adheres to standard locality constraints. (2)

scholarly journals Nucleic Acid Amplification Test Quantitation as Predictor of Toxin Presence in Clostridium difficile Infection

2017 ◽  
Vol 56 (3) ◽  
Author(s):  
M. J. T. Crobach ◽  
N. Duszenko ◽  
E. M. Terveer ◽  
C. M. Verduin ◽  
E. J. Kuijper
Keyword(s):  
Nucleic Acid ◽  
Clostridium Difficile ◽  
Characteristic Curve ◽  
Nucleic Acid Amplification Test ◽  
Nucleic Acid Amplification ◽  
Toxin A ◽  
Toxin B ◽  
Content Type ◽  
Quantitative Results ◽  
Testing Algorithm

ABSTRACT Multistep algorithmic testing in which a sensitive nucleic acid amplification test (NAAT) is followed by a specific toxin A and toxin B enzyme immunoassay (EIA) is among the most accurate methods for Clostridium difficile infection (CDI) diagnosis. The obvious shortcoming of this approach is that multiple tests must be performed to establish a CDI diagnosis, which may delay treatment. Therefore, we sought to determine whether a preliminary diagnosis could be made on the basis of the quantitative results of the first test in algorithmic testing, which provide a measure of organism burden. To do so, we retrospectively analyzed two large collections of samples ( n = 2,669 and n = 1,718) that were submitted to the laboratories of two Dutch hospitals for CDI testing. Both hospitals apply a two-step testing algorithm in which a NAAT is followed by a toxin A/B EIA. Of all samples, 208 and 113 samples, respectively, tested positive by NAAT. Among these NAAT-positive samples, significantly lower mean quantification cycle ( C q ) values were found for patients whose stool eventually tested positive for toxin, compared with patients who tested negative for toxin (mean C q values of 24.4 versus 30.4 and 26.8 versus 32.2; P < 0.001 for both cohorts). Receiver operating characteristic curve analysis was performed to investigate the ability of C q values to predict toxin status and yielded areas under the curve of 0.826 and 0.854. Using the optimal C q cutoff values, prediction of the eventual toxin A/B EIA results was accurate for 78.9% and 80.5% of samples, respectively. In conclusion, C q values can serve as predictors of toxin status but, due to the suboptimal correlation between the two tests, additional toxin testing is still needed.

scholarly journals Genotypic and Phenotypic Traits That Distinguish Neonatal Meningitis-Associated Escherichia coli from Fecal E. coli Isolates of Healthy Human Hosts

2012 ◽  
Vol 78 (16) ◽  
pp. 5824-5830 ◽  
Author(s):  
Catherine M. Logue ◽  
Curt Doetkott ◽  
Paul Mangiamele ◽  
Yvonne M. Wannemuehler ◽  
Timothy J. Johnson ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Phylogenetic Group ◽  
Neonatal Meningitis ◽  
Phenotypic Traits ◽  
Healthy Human ◽  
Content Type ◽  
Plasmid Content ◽  
E Coli ◽  
Healthy Humans ◽  
Definition Of

ABSTRACTNeonatal meningitisEscherichia coli(NMEC) is one of the top causes of neonatal meningitis worldwide. Here, 85 NMEC and 204 fecalE. coliisolates from healthy humans (HFEC) were compared for possession of traits related to virulence, antimicrobial resistance, and plasmid content. This comparison was done to identify traits that typify NMEC and distinguish it from commensal strains to refine the definition of the NMEC subpathotype, identify traits that might contribute to NMEC pathogenesis, and facilitate choices of NMEC strains for future study. A large number ofE. colistrains from both groups were untypeable, with the most common serogroups occurring among NMEC being O18, followed by O83, O7, O12, and O1. NMEC strains were more likely than HFEC strains to be assigned to the B2 phylogenetic group. Few NMEC or HFEC strains were resistant to antimicrobials. Genes that best discriminated between NMEC and HFEC strains and that were present in more than 50% of NMEC isolates were mainly from extraintestinal pathogenicE. coligenomic and plasmid pathogenicity islands. Several of these defining traits had not previously been associated with NMEC pathogenesis, are of unknown function, and are plasmid located. Several genes that had been previously associated with NMEC virulence did not dominate among the NMEC isolates. These data suggest that there is much about NMEC virulence that is unknown and that there are pitfalls to studying single NMEC isolates to represent the entire subpathotype.

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