Comparison of three qPCR-based commercial tests for detection of periodontal pathogens

AbstractIn periodontal practice microbial results of periodontal test kits for identification of key pathogens are an aid in the treatment planning. Information on the performance of commercially available test kits is therefore essential for the clinician. In this retrospective analysis three commercially available qPCR kits for detection and quantification of selected periodontal bacterial species were compared, using 100 clinical samples from patients with untreated periodontitis. The analysis involved two separate comparisons in which kit A (LabOral Diagnostics, The Netherlands) was compared with kit B (Advanced Dental Diagnostics, The Netherlands), and with kit C (OralDent diagnostics, The Netherlands). Analytic procedures for detection and quantification of selected periodontal bacterial species were carried out according to the instructions of the laboratories. Kit A detected target species more often, and absolute numbers of bacterial cells were higher than with kit B. A high degree of similarity was found between the test outcomes by kit A and kit C. All three kits performed satisfactory but small and significant differences exist between kits.

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Diagnosis of Mycobacterium microtiInfections among Humans by Using Novel Genetic Markers

Journal of Clinical Microbiology ◽

10.1128/jcm.36.7.1840-1845.1998 ◽

1998 ◽

Vol 36 (7) ◽

pp. 1840-1845 ◽

Cited By ~ 103

Author(s):

Dick van Soolingen ◽

Adri G. M. van der Zanden ◽

Petra E. W. de Haas ◽

Gerda T. Noordhoek ◽

Albert Kiers ◽

...

Keyword(s):

United Kingdom ◽

The Netherlands ◽

Dna Typing ◽

Direct Repeat ◽

Geographic Isolation ◽

X Ray ◽

The United Kingdom ◽

High Degree ◽

Mycobacterium Microti ◽

Degree Of Similarity

As a result of DNA typing of Mycobacterium microtiisolates from animals in the United Kingdom and The Netherlands, we diagnosed four human M. microti infections. These are the first M. microti infections among humans to be reported. Three of the patients were immunocompromised and suffered from generalized forms of tuberculosis. The fourth patient was a 34-year-old immunocompetent male with a persistent cough and undefined X-ray abnormalities. Two of the M. microti infections were recognized by their IS6110 restriction fragment length polymorphism (RFLP) patterns, which showed a high degree of similarity with those of M. microti strains isolated from a pig and a ferret in The Netherlands. The two other humanM. microti infections were recognized by using the recently developed DNA fingerprinting method, “spoligotyping,” directly on clinical material. All M. microti isolates from the United Kingdom and The Netherlands were found to contain an exceptionally short genomic direct repeat region, resulting in identical two-spacer sequence reactions in spoligotyping. In contrast, the highly similar IS6110 RFLP patterns of the vole strains from the United Kingdom differed considerably from the RFLPs of all M. microti strains isolated in The Netherlands, suggesting that geographic isolation led to divergent strains in the United Kingdom and on the continent.

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Implementation of a Pharmacogenomic Testing Service through Community Pharmacy in the Netherlands: Results from an Early Service Evaluation

Pharmacy ◽

10.3390/pharmacy9010038 ◽

2021 ◽

Vol 9 (1) ◽

pp. 38

Author(s):

Tracey Thornley ◽

Bernard Esquivel ◽

David J. Wright ◽

Hidde van den Dop ◽

Charlotte L. Kirkdale ◽

...

Keyword(s):

The Netherlands ◽

Community Pharmacy ◽

Service Evaluation ◽

Clinical Samples ◽

Potential Barriers ◽

Hospital Environments ◽

Medicines Use ◽

Test Outcomes ◽

Actionable Variants ◽

Selection Of

Community pharmacy services have evolved to include medical and pharmaceutical interventions alongside dispensing. While established pharmacogenomic (PGx) testing is available throughout the Netherlands, this is primarily based in hospital environments and for specialist medicines. The aim of this work was to describe how best to implement PGx services within community pharmacy, considering potential barriers and enablers to service delivery and how to address them. The service was implemented across a selection of community pharmacies in the Netherlands. Data were captured on test outcomes and through a pharmacist survey. Following testing, 17.8% of the clinical samples were recommended to avoid certain medication (based on their current medicines use), and 14.0% to have their dose adjusted. Pre-emptive analysis of genotyped patients showed that the majority (99.2%) had actionable variants. Pharmacists felt confident in their operational knowledge to deliver the service, but less so in applying that knowledge. Delivering the service was believed to improve relationships with other healthcare professionals. These results add to the evidence in understanding how PGx can be delivered effectively within the community pharmacy environment. Training pharmacists in how to respond to patient queries and make clinical recommendations may enhance service provision further.

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Análisis del gen dhaT en cepas Colombianas de Clostridium sp. (Clostridia) productoras de 1,3-propanodiol.

Universitas Scientiarum ◽

10.11144/javeriana.sc15-1.atdg ◽

2010 ◽

Vol 15 (1) ◽

pp. 17 ◽

Cited By ~ 2

Author(s):

Diana Milena Quilaguy Ayure ◽

José David Montoya Solano ◽

Zulma Rocío Suárez Moreno ◽

José Mauricio Bernal Morales ◽

Dolly Montoya Castaño

Keyword(s):

Bioinformatics Analysis ◽

Bacterial Species ◽

Dna Amplification ◽

Physical Structure ◽

Clostridium Butyricum ◽

Chain Reaction ◽

Specific Primers ◽

Native Strains ◽

High Degree ◽

Degree Of Similarity

Objective: to analyze the dhaT gene, one of the genes responsible for the 1,3-propanediol (1,3-PD) production, in two native Clostridium strains. Materials and methods: The dhaT gene was amplified by Polimerase Chain Reaction with specific primers designed from Clostridium butyricum VPI1718 operon. Bioinformatics tools like BLASTN, ORF finder, BLASTP and ClustalW were used to determine the identity of the sequence and to assign a function. Results: DNA amplification products were obtained from Colombian Clostridium sp. native strains (IBUN 13A and IBUN 158B) and the Clostridium butyricum DSM 2478 strain, which were sequenced. According to the bioinformatics analysis of the above sequences, a high degree of similarity was found with the dhaT gene of different bacterial species. The highest percentage of identity was obtained with the Clostridium butyricum VPI 1718 strain. Conclusion: knowledge of the physical structure of the 1,3-PD operon in native strains opens the way for developing genetic and metabolic engineering strategies for improving processes productivity. Key words: 1,3-propanediol, 1,3-propanediol dehydrogenase, dhaT gene, 1,3-propanediol operon.

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Modulation of Gut Microbiota through Dietary Phytochemicals as a Novel Anti-infective Strategy

Current Drug Discovery Technologies ◽

10.2174/1570163816666191107124214 ◽

2020 ◽

Vol 17 (4) ◽

pp. 498-506 ◽

Cited By ~ 2

Author(s):

Pavan K. Mujawdiya ◽

Suman Kapur

Keyword(s):

Microbial Community ◽

Quorum Sensing ◽

Population Density ◽

Gut Microbiota ◽

Biofilm Formation ◽

Chemical Interaction ◽

Bacterial Species ◽

Critical Role ◽

Bacterial Cells ◽

Gut Microbes

: Quorum Sensing (QS) is a phenomenon in which bacterial cells communicate with each other with the help of several low molecular weight compounds. QS is largely dependent on population density, and it triggers when the concentration of quorum sensing molecules accumulate in the environment and crosses a particular threshold. Once a certain population density is achieved and the concentration of molecules crosses a threshold, the bacterial cells show a collective behavior in response to various chemical stimuli referred to as “auto-inducers”. The QS signaling is crucial for several phenotypic characteristics responsible for bacterial survival such as motility, virulence, and biofilm formation. Biofilm formation is also responsible for making bacterial cells resistant to antibiotics. : The human gut is home to trillions of bacterial cells collectively called “gut microbiota” or “gut microbes”. Gut microbes are a consortium of more than 15,000 bacterial species and play a very crucial role in several body functions such as metabolism, development and maturation of the immune system, and the synthesis of several essential vitamins. Due to its critical role in shaping human survival and its modulating impact on body metabolisms, the gut microbial community has been referred to as “the forgotten organ” by O`Hara et al. (2006) [1]. Several studies have demonstrated that chemical interaction between the members of bacterial cells in the gut is responsible for shaping the overall microbial community. : Recent advances in phytochemical research have generated a lot of interest in finding new, effective, and safer alternatives to modern chemical-based medicines. In the context of antimicrobial research various plant extracts have been identified with Quorum Sensing Inhibitory (QSI) activities among bacterial cells. This review focuses on the mechanism of quorum sensing and quorum sensing inhibitors isolated from natural sources.

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Introduction

10.1093/oso/9780198801665.003.0005 ◽

2017 ◽

Author(s):

Detlef Pollack ◽

Gergely Rosta

Keyword(s):

The Netherlands ◽

Western Europe ◽

West Germany ◽

World Today ◽

The World ◽

Degree Of Stability ◽

Important Exception ◽

High Degree ◽

Religious Landscape

In recantation of his earlier approach, Peter L. Berger now claims: ‘The world today, with some exceptions […], is as furiously religious as it ever was, and in some places more so than ever.’ The most important exception that Berger refers to is Western Europe. The introduction to Part II provides an overview of the religious landscape in Western Europe. The data show that the current religious situation in the countries of Western Europe is in fact subject to considerable variation. It would therefore be erroneous to describe Western Europe as secularized. At the same time, the data reveal that there have been clear secularization tendencies over the last few decades. To grasp the diversity of religious tendencies, Part II deals with three cases: West Germany with moderate downward tendencies, Italy with a considerably high degree of stability, and the Netherlands displaying disproportionately strong secularizing tendencies.

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Phenotypic Detection of Carbapenemase Production in Carbapenem-Resistant Enterobacteriaceae by Modified Hodge Test and Modified Strip Carba NP Test

Journal of Laboratory Physicians ◽

10.1055/s-0041-1723859 ◽

2021 ◽

Author(s):

Nisha Patidar ◽

Nitya Vyas ◽

Shanoo Sharma ◽

Babita Sharma

Keyword(s):

Carbapenem Resistance ◽

Nonparametric Test ◽

Multidrug Resistant ◽

Clinical Samples ◽

Chi Square ◽

Carbapenem Resistant ◽

The Social ◽

Significant Difference ◽

High Degree ◽

Carbapenem Resistant Enterobacteriaceae

Abstract Objective Carbapenems are last resort antibiotics for multidrug-resistant Enterobacteriaceae. However, resistance to carbapenem is increasing at an alarming rate worldwide leading to major therapeutic failures and increased mortality rate. Early and effective detection of carbapenemase producing carbapenem-resistant Enterobacteriaceae (CRE) is therefore key to control dissemination of carbapenem resistance in nosocomial as well as community-acquired infection. The aim of present study was to evaluate efficacy of Modified strip Carba NP (CNP) test against Modified Hodge test (MHT) for early detection of carbapenemase producing Enterobacteriaceae (CPE). Material and Methods Enterobacteriaceae isolated from various clinical samples were screened for carbapenem resistance. A total of 107 CRE were subjected to MHT and Modified strip CNP test for the detection of CPE. Statistical Analysis It was done on Statistical Package for the Social Sciences (SPSS) software, IBM India; version V26. Nonparametric test chi-square and Z-test were used to analyze the results within a 95% level of confidence. Results Out of 107 CRE, 94 (88%) were phenotypically confirmed as carbapenemase producer by Modified strip CNP test and 46 (43%) were confirmed by Modified Hodge Test (MHT). Thirty-eight (36%) isolates showed carbapenemase production by both MHT and CNP test, 56 isolates (52%) were CNP test positive but MHT negative, eight (7%) isolates were MHT positive but CNP test negative and five (5%) isolates were both MHT and CNP test negative. There is statistically significant difference in efficiency of Modified CNP test and MHT (p < 0.05). Conclusion Modified strip CNP test is simple and inexpensive test which is easy to perform and interpret and gives rapid results in less than 5 minutes. It has high degree of sensitivity and specificity. Modified strip CNP test shows significantly higher detection capacity for carbapenemase producers as compared with MHT.

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Clinical and Microbiological Evaluation of Local Doxycycline and Antimicrobial Photodynamic Therapy during Supportive Periodontal Therapy: A Randomized Clinical Trial

Antibiotics ◽

10.3390/antibiotics10030277 ◽

2021 ◽

Vol 10 (3) ◽

pp. 277

Author(s):

Raluca Cosgarea ◽

Sigrun Eick ◽

Ionela Batori-Andronescu ◽

Søren Jepsen ◽

Nicole B. Arweiler ◽

...

Keyword(s):

Photodynamic Therapy ◽

Bacterial Species ◽

Periodontal Therapy ◽

Local Drug Delivery ◽

Control Group ◽

Periodontal Pathogens ◽

Supportive Periodontal Therapy ◽

Group A ◽

Group B ◽

Attachment Level

The aim of this study was to evaluate the clinical and microbiological effects of subgingival instrumentation (SI) alone or combined with either local drug delivery (LDD) or photodynamic therapy (PDT) in persistent/recurrent pockets in patients enrolled in supportive periodontal therapy (SPT). A total of 105 patients enrolled in SPT were randomly treated as follows: group A (n = 35): SI +PDT and 7 days later 2nd PDT; group B (n = 35): SI+LDD; group C (n = 35): SI (control). Prior intervention, at 3 and 6 months after therapy, probing pocket depths, clinical attachment level, number of treated sites with bleeding on probing (n BOP), full mouth plaque and bleeding scores (gingival bleeding index, %BOP) were recorded. At the same time points, 8 periodontopathogens were quantitatively determined. All three treatments resulted in statistically significant improvements (p < 0.05) of all clinical parameters without statistically significant intergroup differences (p > 0.05). Several bacterial species were reduced in both test groups, with statistically significantly higher reductions for LDD compared to PDT and the control group. In conclusion, the present data indicate that: (a) In periodontal patients enrolled in SPT, treatment of persistent/recurrent pockets with SI alone or combined with either PDT or LDD may lead to comparable clinical improvements and (b) the adjunctive use of LDD appears to provide better microbiological improvements for some periodontal pathogens than SI alone or combined with PDT.

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Rapid identification of health care–associated infections with an integrated fluorescence anisotropy system

Science Advances ◽

10.1126/sciadv.1600300 ◽

2016 ◽

Vol 2 (5) ◽

pp. e1600300 ◽

Cited By ~ 26

Author(s):

Ki Soo Park ◽

Chen-Han Huang ◽

Kyungheon Lee ◽

Yeong-Eun Yoo ◽

Cesar M. Castro ◽

...

Keyword(s):

Health Care ◽

Fluorescence Anisotropy ◽

Bacterial Species ◽

Rapid Identification ◽

Integrated System ◽

Clinical Samples ◽

Drug Resistant ◽

Polarization Anisotropy ◽

Major Health ◽

Health Care Associated Infections

Health care–associated infections (HAIs) and drug-resistant pathogens have become a major health care issue with millions of reported cases every year. Advanced diagnostics would allow clinicians to more quickly determine the most effective treatment, reduce the nonspecific use of broad-spectrum antimicrobials, and facilitate enrollment in new antibiotic treatments. We present a new integrated system, polarization anisotropy diagnostics (PAD), for rapid detection of HAI pathogens. The PAD uses changes of fluorescence anisotropy when detection probes recognize target bacterial nucleic acids. The technology is inherently robust against environmental noise and economically scalable for parallel measurements. The assay is fast (2 hours) and performed on-site in a single-tube format. When applied to clinical samples obtained from interventional procedures, the PAD determined the overall bacterial burden, differentiated HAI bacterial species, and identified drug resistance and virulence status. The PAD system holds promise as a powerful tool for near-patient, rapid HAI testing.

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Using Cluster Analysis to Improve Marketing Experiments

Journal of Marketing Research ◽

10.1177/002224377100800310 ◽

1971 ◽

Vol 8 (3) ◽

pp. 340-347 ◽

Cited By ~ 11

Author(s):

George S. Day ◽

Roger M. Heeler

Keyword(s):

Cluster Analysis ◽

Space Representation ◽

Reduced Space ◽

High Degree ◽

Degree Of Similarity ◽

Sensitive Experiment ◽

Selection Of

When the selection of a sample of stores or cities requires a high degree of similarity among the test units in order to ensure a sensitive experiment, the sample may no longer represent the market. These conflicting requirements can be satisfied by choosing the sample from clusters displayed in a reduced space representation of the market.

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Are Tetranychus macfarlanei Baker & Pritchard and Tetranychus malaysiensis Ehara (Acari: Tetranychidae) one species? Morphological and molecular evidences for synonymy between these two spider mite species and a note on invasiveness of T. macfarlanei on okra and eggplant in India

Systematic and Applied Acarology ◽

10.11158/saa.22.4.3 ◽

2017 ◽

Vol 22 (4) ◽

pp. 467

Author(s):

Mahran Zeity ◽

Nagappa Srinivas ◽

Chinnamade Channegowde Gowda

Keyword(s):

Spider Mite ◽

Morphological Characters ◽

Molecular Data ◽

Mite Species ◽

Coi Gene ◽

High Similarity ◽

Mitochondrial Coi ◽

Mitochondrial Coi Gene ◽

High Degree ◽

Degree Of Similarity

Study of morphological characters of Tetranychus macfarlanei Baker & Pritchard and Tetranychus malaysiensis Ehara revealed high similarity by comparing all the important characters in addition to the characters pointed out by Ehara to separate those two species. Molecular phylogeny of seven Indian populations of T. macfarlanei and one population of T. malaysiensis from Philippines along with few distantly related species of Tetranychus was attempted. High degree of similarity between these two species at mitochondrial COI gene (96%) as well as ITS2 (rDNA) (96–99%) region was evident. Based on both morphological features and molecular data, T. malaysiensis is proposed as a junior synonym of T. macfarlanei based on ICZN’s law of priority. Also more female characters are prompted in this study to distinctly discriminate T. macfarlanei from its most resembling species, Tetranychus ludeni Zacher. Tetranychus macfarlanei has emerged as a pest of several cultivated crop plants in India.

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