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You searched for: Journal name Journal of microbiological methods Remove constraint Journal name: Journal of microbiological methods
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1. A European multicenter evaluation study to investigate the performance on commercially available selective agar plates for the detection of carbapenemase producing Enterobacteriaceae

Author:
Cindy Dierikx; Stefan Börjesson; Agnès Perrin-Guyomard; Marisa Haenni; Madelaine Norström; Hege H. Divon; Hanna Karin Ilag; Sophie A. Granier; Annette Hammerum; Jette Sejer Kjeldgaard; Natalie Pauly; Luke Randall; Muna F. Anjum; Aleksandra Smialowska; Alessia Franco; Kees Veldman; Jannice Schau Slettemeås; One Health EJP IMPART project
Source:
Journal of microbiological methods 2022 v.193 pp. 106418
ISSN:
0167-7012
Subject:
Enterobacteriaceae; agar; beta-lactamase; carbapenems; cecum; flora; food safety; genotyping; peptones; species identification; swine; turkey meat
Abstract:
... The European Food Safety Authority (EFSA) advised to prioritize monitoring carbapenemase producing Enterobacteriaceae (CPE) in food producing animals. Therefore, this study evaluated the performance of different commercially available selective agars for the detection of CPE using spiked pig caecal and turkey meat samples and the proposed EFSA cultivation protocol. Eleven laboratories from nine co ...
DOI:
10.1016/j.mimet.2022.106418

2. A fluorescent aptasensor for the detection of Aflatoxin B1 by graphene oxide mediated quenching and release of fluorescence

Author:
Sai Keerthana Setlem; Bhairab Mondal; Shylaja Ramlal
Source:
Journal of microbiological methods 2022 v.193 pp. 106414
ISSN:
0167-7012
Subject:
adsorption; aflatoxin B1; aptasensors; bioassays; desorption; detection limit; fluorescence; fluorescent dyes; food safety; graphene oxide; industry; oligonucleotides; peanuts; trade
Abstract:
... Aflatoxin B1 contamination in food and agro commodities has been major concern of global food safety and trade industry. There is an urgent need to develop sensitive and on-site detection methods for aflatoxins mainly, AFB1 monitoring. In the present study, a fluorophore (Alexa Fluor 488) based aptamer biosensor was devised in combination with graphene oxide (GO) for the detection of Aflatoxin B1 ...
DOI:
10.1016/j.mimet.2022.106414

3. A multistep enrichment process with custom growth medium improves resuscitation of chlorine-stressed coliforms from secondary sewage effluents

Author:
Jennifer M. Mobberley; Scott K. Cooley; Mark W. Widder; Shelby M. Phillips; Angela M. Melville; Linda M. Brennan; Valerie T. Divito; William H. van der Schalie; Richard M. Ozanich; Janine R. Hutchison
Source:
Journal of microbiological methods 2022 v.192 pp. 106364
ISSN:
0167-7012
Subject:
chlorine; culture media; growth promotion; magnesium chloride; sewage; sodium pyruvate; trace elements; trehalose
Abstract:
... Resuscitation and detection of stressed total coliforms in chlorinated water samples is needed to assess and prevent health effects from adverse exposure. In this study, we report that the addition of a growth enhancer mix consisting of trehalose, sodium pyruvate, magnesium chloride, and 1× trace mineral supplement improved growth of microorganisms from chlorinated secondary effluent in the base m ...
DOI:
10.1016/j.mimet.2021.106364

4. A panoptic review of techniques for finfish disease diagnosis: The status quo and future perspectives

Author:
Tina Kollannoor Johny; Thangaraj Raja Swaminathan; Neeraj Sood; Pravata Kumar Pradhan; Kuldeep Kumar Lal
Source:
Journal of microbiological methods 2022 v.196 pp. 106477
ISSN:
0167-7012
Subject:
aquaculture; diagnostic techniques; disease diagnosis; fish; fish health; flow cytometry; fluorescent antibody technique; immunohistochemistry; point-of-care systems; sustainable development
Abstract:
... Disease outbreaks caused by bacterial and viral pathogens is a major impediment to the sustainable growth of aquaculture. Rapid and accurate diagnosis of pathogens is crucial for the successful maintenance of fish health and productivity in aquaculture. This review manuscript provides a brief description of conventional disease diagnosis techniques and a detailed description of immunological techn ...
DOI:
10.1016/j.mimet.2022.106477

5. A simple method for purification of epsilon toxin of Clostridium perfringens type D for serum neutralization assay

Author:
Lida Abdolmohammadi Khiav; Anahita Emadi; Azadeh Zahmatkesh
Source:
Journal of microbiological methods 2022 v.193 pp. 106395
ISSN:
0167-7012
Subject:
ammonium sulfate; blood serum; cell culture; chromatography; cost effectiveness; disease prevention; enterotoxemia; lethal dose; neutralization; neutralization tests; phosphates; polyacrylamide gel electrophoresis; purification methods; small ruminants; toxins; vaccination; vaccines
Abstract:
... Enterotoxaemia, a disease that affects domestic ruminants, is caused by the epsilon toxin of Clostridium perfringens type D and B. Control and prophylaxis are based on systemic vaccination of small ruminant herds with epsilon toxoid. Purified epsilon toxin is an essential material for vaccine evaluation. It is also necessary for diagnosis of enterotoxaemia disease in the field by in vitro tests in ...
DOI:
10.1016/j.mimet.2021.106395

6. A single-container procedure for multiple genomic DNA samples preparation for pulsed field gel electrophoresis

Author:
Karen León Arcia; Heidi Quintero Álvarez; Laura María Pantoja-Echevarría; Yainelis Garrido Nicot
Source:
Journal of microbiological methods 2022 v.195 pp. 106453
ISSN:
0167-7012
Subject:
DNA; Escherichia coli; cell growth; cost effectiveness; infectious diseases; pulsed-field gel electrophoresis
Abstract:
... Genomic DNA preparation is a critical step for successful fingerprinting analysis by Pulsed Field Gel Electrophoresis (PFGE). This paper presents a simple and rapid protocol to prepare DNA samples from up to 24 bacterial isolates simultaneously. It involves performing the conventional PFGE sample preparation steps (cell growth and harvest, agarose-immobilization of intact cells, and DNA release an ...
DOI:
10.1016/j.mimet.2022.106453

7. A study of various factors affecting satellitism tests of Haemophilus influenzae and Haemophilus parainfluenzae using Staphylococcus aureus as the source of NAD

Author:
Yu Xi; Hexuan Wang; Shanmei Wang; Xuxiao Wu; Zeyu Wang
Source:
Journal of microbiological methods 2022 v.193 pp. 106417
ISSN:
0167-7012
Subject:
Haemophilus influenzae; Haemophilus parainfluenzae; NAD (coenzyme); Staphylococcus aureus; agar
Abstract:
... Many factors affecting satellitism tests are unclear, and it is difficult to avoid misidentification, even if the medium is properly selected. We investigated the factors causing false-positive results for Haemophilus influenzae and false-negative results for Haemophilus parainfluenzae in the satellitism tests using Staphylococcus aureus as the source of nicotinamide adenine dinucleotide (NAD). H. ...
DOI:
10.1016/j.mimet.2022.106417

8. A two-step bioluminescence assay for optimizing antibacterial coating of hollow-fiber membranes with polydopamine in an integrative approach

Author:
Michael Czieborowski; Antoine J.B. Kemperman; Erik Rolevink; Janieke Blom; Tymen Visser; Bodo Philipp
Source:
Journal of microbiological methods 2022 v.196 pp. 106452
ISSN:
0167-7012
Subject:
biofilm; bioluminescence; bioluminescence assay; dopamine; polymerization; sodium; ultrafiltration
Abstract:
... Pure-water filtration membranes are often fouled by bacterial biofilms. Antibacterial coatings for preventing biofilm formation on such membranes should not rely on leaching of inhibiting compounds but should only be effective on surface contact. Certified assays for antibacterial coatings do not sufficiently exclude leaching effects and involve nutrient-rich cultivation media that do not correspo ...
DOI:
10.1016/j.mimet.2022.106452

9. Accurate classification of Listeria species by MALDI-TOF mass spectrometry incorporating denoising autoencoder and machine learning

Author:
Yunhong Li; Zeyu Gan; Xi Zhou; Zhiwei Chen
Source:
Journal of microbiological methods 2022 v.192 pp. 106378
ISSN:
0167-7012
Subject:
Food and Drug Administration; Listeria monocytogenes; data collection; food industry; food safety; listeriosis; matrix-assisted laser desorption-ionization mass spectrometry; pathogens; statistics; support vector machines
Abstract:
... Listeria monocytogenes belongs to the category of facultative anaerobic bacteria, and is the pathogen of listeriosis, potentially lethal disease for humans. There are many similarities between L. monocytogenes and other non-pathogenic Listeria species, which causes great difficulties for their correct identification. The level of L. monocytogenes contamination in food remains high according to sta ...
DOI:
10.1016/j.mimet.2021.106378

10. Accurate qPCR quantification in polymicrobial communities requires assessment of gDNA extraction efficiency

Author:
Nuno Cerca; Ângela Lima; Angela França
Source:
Journal of microbiological methods 2022 v.194 pp. 106421
ISSN:
0167-7012
Subject:
journals; methodology; microbial load
Abstract:
... qPCR absolute quantification requires the assessment of PCR reaction efficiency. This is achieved by performing serial dilutions of gDNA. Herein, we demonstrate that when quantifying bacterial load in mixed samples, reaction efficiency should not be used as a calibration curve since gDNA isolation efficiency is neglected, significantly impacting quantification. ...
DOI:
10.1016/j.mimet.2022.106421

11. Adaptation and validation of a method for evaluating the bactericidal activity of ethyl alcohol in gel format 70% (w/w)

Author:
Amanda Fermiano da Cruz; Alessandra Oliveira de Abreu; Paula Araujo de Souza; Bianca Deveza; Carolaine Totelote Medeiros; Verônica Santos Sousa; Bruna Peres Sabagh; Maria Helena Simões Villas Bôas
Source:
Journal of microbiological methods 2022 v.193 pp. 106402
ISSN:
0167-7012
Subject:
Pseudomonas aeruginosa; Salmonella enterica; Staphylococcus aureus; aerosols; analytical methods; antibacterial properties; disinfectants; equipment; ethanol; gels; microbial activity; microbiological quality; monitoring; quality control; Brazil
Abstract:
... Ethyl alcohol 70% (w/w) is a broad-spectrum bactericidal agent that is mandatorily marketed as a gel in Brazil since 2002. However, there is no method described for the microbiological quality control of surface disinfectants in the form of gel, which makes it impossible to monitor the effectiveness of these products by the Health Surveillance. Thus, the present study aimed to adapt an analytical ...
DOI:
10.1016/j.mimet.2021.106402

12. An agar-based bioassay for accurate screening of the total antioxidant capacity of lactic acid bacteria cell-free supernatants

Author:
Hasna Hanchi; Khaled Sebei; Walid Mottawea; Imad Al Kasaa; Riadh Hammami
Source:
Journal of microbiological methods 2022 v.195 pp. 106437
ISSN:
0167-7012
Subject:
agar; analysis of variance; antioxidant activity; ascorbic acid; bioassays; color; cost effectiveness; humans; intestines; lactic acid; probiotics
Abstract:
... This study aims to develop a new, simple, and efficient method for estimating the total antioxidant capacity of lactic acid bacteria-cell free supernatant. The bioassay is based on diffusion and reduction of permanganate in agar medium under acidic conditions where the Mn7+ ions are quantitatively oxidized to Mn2+ and shift from an intense purple color to colorless. Hence, the reaction enables fas ...
DOI:
10.1016/j.mimet.2022.106437

13. Analysis of DNA extraction methods for detection of Treponema pallidum: A comparison of three methods

Author:
Vera Mileide Trivellato Grassi; Mauro Cunha Ramos; Liliane Trivellato Grassi; Marcia Susana Nunes Silva; Maria Lucia Rosa Rossetti
Source:
Journal of microbiological methods 2022 v.192 pp. 106383
ISSN:
0167-7012
Subject:
DNA; Treponema pallidum; cost benefit analysis; genes; sexually transmitted diseases; sonication; Brazil
Abstract:
... Syphilis is a sexually transmitted disease caused by Treponema pallidum. DNA amplification methods have started to be used to facilitate diagnosis at different stages of the disease. The success of such methodologies depends on obtaining DNA from clinical samples in adequate quantity and quality for molecular reactions. There are many DNA extraction kits, but often the molecular analysis process i ...
DOI:
10.1016/j.mimet.2021.106383

14. Antimicrobial susceptibility testing determined by Alfred 60/AST (Alifax®) in a multi-sites lab: performance's evaluation and optimization of workflow

Author:
R. Cupaiolo; S. Cherkaoui; G. Serrano; N. Dauby; A. Georgala; S. Blumental; E. Maillart; M. Hites; M. Hallin; D. Martiny
Source:
Journal of microbiological methods 2022 v.194 pp. 106433
ISSN:
0167-7012
Subject:
Enterococcus; antibiotic resistance; automation; bacteremia; blood; blood flow; blood volume; clindamycin; disk diffusion antimicrobial test; meropenem
Abstract:
... New techniques are needed to speed-up the identification and antimicrobial susceptibility testing (AST) of bacteria associated with bloodstream infections. Alfred 60/AST (Alifax®, Polverara, Italy) performs AST by light scattering directly from positive blood cultures. We evaluated Alfred 60/AST performances for 4 months. Each new episode of bacteraemia was included and AST were compared to either ...
DOI:
10.1016/j.mimet.2022.106433

15. Application of proper orthogonal decomposition for evaluation of coherent structures and energy contents in microbial biofilms

Author:
Daniel Montelongo-Jauregui; Adesile Ajisafe; Mary Ann Jabra-Rizk; Ahmed S. Sultan
Source:
Journal of microbiological methods 2022 v.194 pp. 106420
ISSN:
0167-7012
Subject:
Candida albicans; acoustics; biofilm; biosensors; energy; fluid mechanics; fungi; models; pathogens; polysaccharides; reflectance
Abstract:
... Microbial biofilms are structured communities of surface-associated microbial populations embedded in a matrix of extracellular polysaccharides that provide protection for biofilm cells. Among the wide plethora of microbial species adept at forming biofilms, the fungal pathogen Candida albicans (C. albicans), is one of the most notable. C. albicans biofilm development occurs in a series of sequent ...
DOI:
10.1016/j.mimet.2022.106420

16. Assessment of VITEK® 2, MALDI-TOF MS and full gene 16S rRNA sequencing for aerobic endospore-forming bacteria isolated from a pharmaceutical facility

Author:
Luciana Veloso da Costa; Rebeca Vitoria da Silva Lage de Miranda; Erica Louro da Fonseca; Natalia Pedra Gonçalves; Cristhiane Moura Falavina dos Reis; Adriana Marques Frazão; Fernanda Ventura Cruz; Marcelo Luiz Lima Brandão; Juliana Nunes Ramos; Verônica Viana Vieira
Source:
Journal of microbiological methods 2022 v.194 pp. 106419
ISSN:
0167-7012
Subject:
databases; endospore forming bacteria; genes; journals; methodology; nucleotide sequences
Abstract:
... VITEK®2, MALDI-TOF MS and 16S rRNA sequencing were evaluated for the identification of aerobic endospore-forming bacteria (AEB) from a pharmaceutical facility. MALDI-TOF MS demonstrated higher accuracy compared to VITEK®2, although both databases were insufficient to identify AEB species. Sequencing was the best methodology, but unable to identify closely related species. ...
DOI:
10.1016/j.mimet.2022.106419

17. Bacterial and fungal disinfection via ozonation in air

Author:
Emmanuel I. Epelle; Andrew Macfarlane; Michael Cusack; Anthony Burns; Bathini Thissera; William Mackay; Mostafa E. Rateb; Mohammed Yaseen
Source:
Journal of microbiological methods 2022 v.194 pp. 106431
ISSN:
0167-7012
Subject:
Aspergillus fumigatus; Candida albicans; Escherichia coli; Staphylococcus aureus; air; cost effectiveness; disinfection; exposure duration; fabrics; fungi; ozonation; ozone; pandemic; water treatment
Abstract:
... Ozone treatment is an eco-friendly and cost-effective approach to achieve material disinfection, and this disinfection method is of utmost importance in the present global pandemic. The efficacy of ozone's oxidative potential on common microorganisms has been extensively studied, particularly in the food and water treatment industries. However, little is still understood regarding its antimicrobia ...
DOI:
10.1016/j.mimet.2022.106431

18. Bioremediation of oily seawater by Bacteria immobilization on a novel carrier material containing nutrients

Author:
Qun Luo; Lina Liu; Dengyong Hou
Source:
Journal of microbiological methods 2022 v.192 pp. 106392
ISSN:
0167-7012
Subject:
biodegradability; biodegradation; bioremediation; calcium alginate; diesel fuel; gas chromatography-mass spectrometry; oils; rhubarb; rice; seawater
Abstract:
... A novel carrier material was obtained by coating puffed rhubarb rice (PRR) with calcium alginate (CA) membrane. The carrier material was prepared to contain oil-degrading bacterial strains and inorganic nutrients through entrapping them in different locations. This formulation possessed floatability, biodegradability and nutrient slow-release properties. Therefore, it could be applied for oil biod ...
DOI:
10.1016/j.mimet.2021.106392

19. Chemical susceptibility testing of non-tuberculous mycobacterium strains and other aquatic bacteria: Results of a study for the development of a more sensitive and simple method for the detection of NTM in environmental samples

Author:
Savina Ditommaso; Monica Giacomuzzi; Gabriele Memoli; Jacopo Garlasco; Antonio Curtoni; Marco Iannaccone; Carla Maria Zotti
Source:
Journal of microbiological methods 2022 v.193 pp. 106405
ISSN:
0167-7012
Subject:
Burkholderia multivorans; Methylobacterium; Mycobacterium chelonae; Mycobacterium chimaera; acetylcysteine; agar; cetylpyridinium chloride; culture media; decontamination; sodium hydroxide
Abstract:
... The methods employed to detect non-tuberculous mycobacteria on environmental samples are essentially those classically used in clinical microbiology, which envisage a decontamination step to reduce the overgrowth of non-mycobacterial organisms before plating them on the culture medium. The aim of this study was to propose alternative culture techniques to improve non-tuberculous mycobacteria detec ...
DOI:
10.1016/j.mimet.2021.106405

20. Classification of gases around Pseudomonas aeruginosa and Acinetobacter baumannii by infrared spectroscopy

Author:
Masato Yamamoto; Satoru Arata; Kunihiko Fukuchi; Hidehiko Honda; Hirokazu Kobayashi; Masahiro Inagaki
Source:
Journal of microbiological methods 2022 v.196 pp. 106474
ISSN:
0167-7012
Subject:
Acinetobacter baumannii; Pseudomonas aeruginosa; absorption; air; humans; infrared spectroscopy
Abstract:
... Gas samples were collected from the air surrounding single and mixed laboratory cultures, and preliminary data on human breath samples were also obtained. The infrared spectra of a variety of gasses were measured at high resolution (0.5 cm⁻¹) to obtain information about the infrared absorption bands to be used as indicators. These key bands enable bacterial classification, and the discrimination r ...
DOI:
10.1016/j.mimet.2022.106474

21. Comparative performance of different antigens on the lateral flow assay (LFA) platform for the rapid serodiagnosis of paratuberculosis

Author:
Mukta Jain; Amit Kumar Singh; Amit Kumar; Saurabh Gupta; Rathnagiri Polavarapu; Jagdip Singh Sohal
Source:
Journal of microbiological methods 2022 v.192 pp. 106367
ISSN:
0167-7012
Subject:
antigens; blood serum; bovine tuberculosis; cattle; cross reaction; detection limit; diagnostic techniques; issues and policy; paratuberculosis; point-of-care systems; polymerase chain reaction; serodiagnosis; tissue culture
Abstract:
... Paratuberculosis is a globally prevalent disease, that adversely affects the economy of livestock farming. Control is largely based on early detection followed by ‘Test and Cull’ or ‘Test and Segregate’ Policy. Implementation of paratuberculosis control is a special challenge due to the non-availability of point of care diagnostics (PoCD). Therefore, the present study aimed to optimize and evaluat ...
DOI:
10.1016/j.mimet.2021.106367

22. Comparison of DNA/RNA yield and integrity between PMAP36-mediated and other bacterial lysis methods

Author:
Yunjung Lee; Hye-sun Cho; Munjeong Choi; Somasundaram Prathap; Nagasundarapandian Soundrarajan; Youngsok Choi; Hyuk Song; Kwonho Hong; Chankyu Park
Source:
Journal of microbiological methods 2022 v.193 pp. 106396
ISSN:
0167-7012
Subject:
DNA; Gram-positive bacteria; RNA; Staphylococcus aureus
Abstract:
... Currently, several methods are available for the isolation of bacterial DNA and RNA. However, the diversity and complexity of cell envelope structures limit their efficiency depending on the target bacterial species. In this study, we compared the differences in yield and integrity of RNA prepared from four gram-negative and six gram-positive bacterial species using bead-beating, bacteriolytic pro ...
DOI:
10.1016/j.mimet.2021.106396

23. Comparison of peaks in the matrix-assisted laser desorption ionization time-of-flight mass spectrometry spectra of Staphylococcus aureus grown on various blood agar plates

Author:
Jung-Min Kim; Sung Hee Chung; Inhee Kim; Jae-Seok Kim
Source:
Journal of microbiological methods 2022 v.196 pp. 106471
ISSN:
0167-7012
Subject:
agar; bacterial proteins; culture media; genes; matrix-assisted laser desorption-ionization mass spectrometry; methicillin; methicillin-resistant Staphylococcus aureus; protein synthesis; yeast extract
Abstract:
... Matrix-assisted laser desorption ionization-time-of-flight mass spectrometry (MALDI-TOF MS) is routinely used for bacterial identification in clinical laboratories. Bacterial protein expression may differ according to their growth conditions, especially the culture medium composition. We aimed to study the peak variations of Staphylococcus aureus grown on various blood agar plates (BAP), especiall ...
DOI:
10.1016/j.mimet.2022.106471

24. Comparison of the complete filtration method using an automated feces analyzer with three manual methods for stool examinations

Author:
Peechana Aiadsakun; Wilaiwan Sriwimol; Nannapas Thongbun; Bancha Rui-on; Kulathida Thiparaksaphan; Churai Phainuice; Chonnikarn Nuhom
Source:
Journal of microbiological methods 2022 v.192 pp. 106394
ISSN:
0167-7012
Subject:
Ascaris lumbricoides; Blastocystis; Entamoeba histolytica; Giardia lamblia; Strongyloides stercoralis; Trichuris trichiura; automation; fecal examination; feces; filtration; formalin; hookworms; yeasts
Abstract:
... Conventional diagnostic techniques using manual methods for stool examination have important limitations. Hence there is a need for improved technologies in routine clinical practice. This study aimed to compare detection rates, agreements, and diagnostic performances for stool examinations in all parameters of the complete filtration method using the Sciendox Feces Analysis System-50 automated fe ...
DOI:
10.1016/j.mimet.2021.106394

25. Current methods for the diagnosis of leptospirosis: Issues and challenges

Author:
Gillaine Vail Pinto; Kuppusamy Senthilkumar; Praveen Rai; Shama Prakash Kabekkodu; Indrani Karunasagar; Ballamoole Krishna Kumar
Source:
Journal of microbiological methods 2022 v.195 pp. 106438
ISSN:
0167-7012
Subject:
Leptospira interrogans; antibiotics; leptospirosis; public health; rain; rapid methods; therapeutics; zoonoses
Abstract:
... Leptospirosis is a re-emerging anthropo-zoonotic infection of worldwide significance caused by the pathogenic spirochete (Leptospira interrogans) of the genus Leptospira, predominant in tropical/temperate regions and endemic to areas receiving heavy rainfall and flooding. Clinical presentation is similar to that of other febrile illnesses exhibiting mild symptoms which are often self-limiting. Hen ...
DOI:
10.1016/j.mimet.2022.106438

26. Determination by isothermal microcalorimetry of the sensitivity of phytopathogenic fungi of tropical fruits against an ethanolic extract of jackfruit leaf (Artocarpus heterophyllus Lam.)

Author:
Leonardo Covarrubias-Rivera; Rafael López-Cruz; Juan Arturo Ragazzo-Sánchez; Maricarmen Iñiguez-Moreno; Montserrat Calderón-Santoyo
Source:
Journal of microbiological methods 2022 v.195 pp. 106457
ISSN:
0167-7012
Subject:
Artocarpus heterophyllus; agar; antifungal properties; calorimetry; heat; jackfruits; leaves
Abstract:
... Conventional microbiological methods to evaluate the in vitro antifungal activity of bioactive compounds usually consume a long time. It is also difficult to calculate different kinetic parameters. For this reason, this study aimed to evaluate the sensitivity of phytopathogenic fungi to an ethanolic extract of jackfruit leaf by the poison agar and isothermal microcalorimetry (IMC) tests. The kinet ...
DOI:
10.1016/j.mimet.2022.106457

27. Determination of streptomycin and doxycycline using LC/MS towards an effective treatment against an experimental Brucella abortus infection in mice

Author:
Eugenia Sancho; Fabio Granados-Chinchilla; Elías Barquero-Calvo
Source:
Journal of microbiological methods 2022 v.194 pp. 106436
ISSN:
0167-7012
Subject:
Brucella melitensis biovar Abortus; animal models; bone marrow; brucellosis; defatting; doxycycline; freeze drying; liquid chromatography; liver; mass spectrometry; metabolism; mice; streptomycin; therapeutics
Abstract:
... Herein we described a versatile liquid chromatographic method for detection and quantification of the total levels of two antimicrobials [i.e., streptomycin (STM) and doxycycline (DOX)], in mice plasma and selected tissues, with the aid of a single quadrupole as a detection method. The method included a few sample preparation steps, including freeze-drying and in situ triphasic solvent-assisted de ...
DOI:
10.1016/j.mimet.2022.106436

28. Development and evaluation of a sensitive recombinase aided amplification assay for rapid detection of Vibrio parahaemolyticus

Author:
Zhi-shan Feng; Jing-yi Li; Jing-yun Zhang; Feng-yu Li; Hong-xia Guan; Rui-qing Zhang; Hong Liu; Qi Guo; Xin-xin Shen; Biao Kan; Xue-jun Ma
Source:
Journal of microbiological methods 2022 v.193 pp. 106404
ISSN:
0167-7012
Subject:
Vibrio parahaemolyticus; fish; gastroenteritis; pathogens; plasmids; quantitative polymerase chain reaction; rapid methods; recombinases
Abstract:
... Vibrio parahaemolyticus (V. parahaemolyticus) is a widely distributed pathogen in the coastal areas, which causes food poisoning and leads to gastroenteritis and sepsis. Therefore, developing a simple, sensitive, and rapid detection method for V. parahaemolyticus is a major concern globally. This study established a sensitive and rapid technique based on recombinase aided amplification (RAA) to de ...
DOI:
10.1016/j.mimet.2021.106404

29. Development of fluorescence-xBased nucleic acid blot hybridization method using Cy5.5 labeled DNA probes

Author:
Ying Cheng; Na Wang; Zhenxing Ren; Chenggang Xu
Source:
Journal of microbiological methods 2022 pp. 106479
ISSN:
0167-7012
Subject:
DNA; Northern blotting; RNA; Southern blotting; bioimaging; cellulolytic bacteria; fluorescence; fluorescent dyes; gene targeting; models; nucleic acid hybridization
Abstract:
... Near-infrared (NIR) fluorophores are widely used as fluorescent probes for bioimaging because of their minimal photodamage to biological samples, deep penetration, and low interference from background autofluorescence. Here, we employed a NIR fluorescent cyanine dye Cy5.5 to label DNA probes for nucleic acid blot hybridization. The specificity and sensitivity of fluorescent DNA probes were proven ...
DOI:
10.1016/j.mimet.2022.106479

30. Do it yourself! – Initial experiences with self-synthesized CsTFA for RNA-SIP analyses

Author:
Severin Weis; Susanne Jacksch; Marius Welkerling; Magnus S. Schmidt; Markus Egert
Source:
Journal of microbiological methods 2022 v.194 pp. 106432
ISSN:
0167-7012
Subject:
RNA; carbonates; centrifugation; cesium; stable isotopes
Abstract:
... Cesium trifluoroacetate (CsTFA) is a gradient medium for isopycnic centrifugation in RNA-based Stable Isotope Probing (RNA-SIP), an important means to link the structure and function of microbial communities. We report a protocol to easily synthesize CsTFA from cesium carbonate (Cs₂CO₃) and trifluoroacetic acid (TFA) and show that self-synthesized CsTFA performs similarly to commercial CsTFA in th ...
DOI:
10.1016/j.mimet.2022.106432

31. Electrotransformation of thermophilic bacterium Caldimonas manganoxidans

Author:
Takamitsu Arai; Shimpei Aikawa; Kumar Sudesh; Toshiaki Kondo; Akihiko Kosugi
Source:
Journal of microbiological methods 2022 v.192 pp. 106375
ISSN:
0167-7012
Subject:
Caldimonas; Escherichia coli; bacterial growth; bioplastics; electroporation; genetic engineering; plasmids; thermophilic bacteria
Abstract:
... Caldimonas manganoxidans is a Gram-negative, thermophilic, bioplastic-producing bacterium that is a promising strain to overcome the drawbacks of existing bioplastic manufacturing methods. However, genetic manipulation of this species has not previously been studied. Here, we developed an optimized electrotransformation protocol for C. manganoxidans by screening conditions, including the bacterial ...
DOI:
10.1016/j.mimet.2021.106375

32. Establishment of a TaqMan-MGB probe multiplex real-time PCR system for one-step levofloxacin and clarithromycin resistant Helicobacter pylori detection

Author:
Yan Zhao; Yang Li; Zhixian Luan; Cuiping Ma; Lin Yang; Wang Zhang; Chao Shi
Source:
Journal of microbiological methods 2022 v.192 pp. 106393
ISSN:
0167-7012
Subject:
Helicobacter pylori; antibiotic resistance; biopsy; clarithromycin; gender; levofloxacin; mutation; patients; plasmids; quantitative polymerase chain reaction; statistics
Abstract:
... Due to the abuse of antibiotics, the prevalence of antibiotic resistant Helicobacter pylori strains continues to increase. Therefore, antibiotic resistance assessment is now essential in addition to general H. pylori diagnosis in medical institutions to fulfill clinicians administering effective antibiotic regimens. However, the conventional antibiotic resistance assessment methods, such as in vit ...
DOI:
10.1016/j.mimet.2021.106393

33. Evaluating acute toxicity in enriched nitrifying cultures: Lessons learned

Author:
Carla Lopez; Charles W. Knapp
Source:
Journal of microbiological methods 2022 v.192 pp. 106377
ISSN:
0167-7012
Subject:
acetone; acute effects; acute toxicity; aeration; air; ammonia; bacterial communities; biomass; centrifugation; experimental design; inoculum; nitrification; nitrites; toxicity testing; wastewater treatment
Abstract:
... Toxicological batch assays are essential to assess a compound's acute effect on microorganisms. This methodology is frequently employed to evaluate the effect of contaminants in sensitive microbial communities from wastewater treatment plants (WWTPs), such as autotrophic nitrifying populations. However, despite nitrifying batch assays being commonly mentioned in the literature, their experimental ...
DOI:
10.1016/j.mimet.2021.106377

34. Evaluation of VITEK® 2 and MALDI-TOF/MS automated methodologies in the identification of atypical Listeria spp. isolated from food in different regions of Brazil

Author:
Cristhiane M.F. dos Reis; Gustavo Luis de P.A. Ramos; Rodrigo de Castro Lisbôa Pereira; Deyse Christina Vallim; Leonardo Emanuel de Oliveira Costa
Source:
Journal of microbiological methods 2022 v.194 pp. 106434
ISSN:
0167-7012
Subject:
Listeria grayi; Listeria innocua; Listeria monocytogenes; Listeria welshimeri; automation; elderly; foodborne illness; listeriosis; mortality; pathogens; polymerase chain reaction; Brazil
Abstract:
... Listeria monocytogenes is a pathogen responsible for listeriosis, a foodborne disease with high mortality rates (20–30%). It mainly affects the elderly, pregnant women, and immunocompromised people. Although not pathogenic, the isolation and identification of Listeria innocua are critical since they can indicate L. monocytogenes' presence as they are closely related and widely distributed in the e ...
DOI:
10.1016/j.mimet.2022.106434

35. Evaluation of anti-LipL32 carbon nanotube immunofluorescence probe (carbo-lip) and comparison with MAT, IgM ELISA, IgM spot test and culture for early detection of leptospirosis at local hospital

Author:
K. Sapna; A. Ashaiba; T.N. Ravi Kumar; V. Shashidhar; A.B. Arun; K. Sudhakara Prasad
Source:
Journal of microbiological methods 2022 v.195 pp. 106448
ISSN:
0167-7012
Subject:
Leptospira; agglutination tests; carbon nanotubes; diagnostic techniques; fluorescent antibody technique; fluorescent dyes; hospitals; leptospirosis; public health
Abstract:
... Leptospirosis is an emerging public health problem affecting people mainly from tropical and subtropical regions. Therefore, there is a need for rapid and sensitive tests for proper and prompt treatment. Recently we have demonstrated Carbo-Lip probe, which was fabricated through immuno recognition method with fluorescent dye functionalized LipL32 monoclonal antibodies, secondary antibody and Lepto ...
DOI:
10.1016/j.mimet.2022.106448

36. Evaluation of commercial ELISA kits for diagnosis of brucellosis in cattle and buffaloes in different epidemiological scenarios

Author:
Laxmi Narayan Sarangi; Kota Sri Naga Leela Surendra; Samir Kumar Rana; Thodangala Naveena; Amitesh Prasad; Nadikerianda Muthappa Ponnanna; Girish Kumar Sharma
Source:
Journal of microbiological methods 2022 v.195 pp. 106449
ISSN:
0167-7012
Subject:
agglutination tests; brucellosis; cattle; India
Abstract:
... Seven ELISA kits were evaluated for the fitness of purpose in diagnosing brucellosis among cattle and buffaloes in the endemic scenarios of India. The sera (675 numbers) for the study were sourced from brucellosis-free as well as infected herds. The diagnostic sensitivity (dsn) and specificity (dsp) of the kits were determined by three approaches: based on the results of the Rose Bengal test, hist ...
DOI:
10.1016/j.mimet.2022.106449

37. Evaluation of the clinical sensitivity and specificity of the BD Max™ Enteric Bacterial Panel for molecular detection of pathogens for acute gastroenteritis in the Singaporean population

Author:
Seok Hwee Koo; Ying Xuan Heng; Boran Jiang; Lily Siew Yong Ng; Diana Miao Fang Sim; Thean Yen Tan
Source:
Journal of microbiological methods 2022 pp. 106478
ISSN:
0167-7012
Subject:
Aeromonas; Campylobacter; Plesiomonas shigelloides; Salmonella; Shiga toxin-producing Escherichia coli; Singapore; Vibrio parahaemolyticus; bacterial culture; epidemiology; gastroenteritis; labor; reference standards
Abstract:
... Acute gastroenteritis (AGE) is caused by a wide range of pathogens. Culture methods for the detection of bacterial pathogens is time consuming and labour intensive. This study compared a same-day-to-result commercial molecular method using BD Max™ Enteric Bacterial Panel against conventional culture and laboratory-developed PCR assays (LDTs), and characterised the epidemiology of bacterial AGE in ...
DOI:
10.1016/j.mimet.2022.106478

38. Evaluation of various phenotypic methods for differentiation of Candida dubliniensis from Candida albicans

Author:
Abiroo Jan; Gulnaz Bashir; Insha Altaf; Bashir A. Fomda; Sabiya Hamid; Kownsar Jan
Source:
Journal of microbiological methods 2022 v.193 pp. 106400
ISSN:
0167-7012
Subject:
Candida albicans; agar; color; cost effectiveness; heat tolerance; hyphae; phenotype; polymerase chain reaction; salt tolerance; tobacco; xylose; Ireland
Abstract:
... Candida dubliniensis was first identified by Sullivan et al. (1995) in Dublin, Ireland. Its clinical significance is associated with development of fluconazole-resistance and invasive diseases in immunocompromised hosts. C. dubliniensis share many features with C. albicans so has been overlooked and misidentified for a long time. Evaluation of various phenotypic tests with polymerase chain reactio ...
DOI:
10.1016/j.mimet.2021.106400

39. Experimental validation under controlled conditions of real time PCR to quantify arbuscular mycorrhizal colonization in root

Author:
Bruna Arruda; Yasmin Florentino Rodrigues; Wilfrand Ferney Bejarano Herrera; Agnès Robin; Simone Raposo Cotta; Fernando Dini Andreote
Source:
Journal of microbiological methods 2022 v.192 pp. 106382
ISSN:
0167-7012
Subject:
microscopy; quantitative polymerase chain reaction; vesicular arbuscular mycorrhizae
Abstract:
... Mycorrhizal colonization of roots is traditionally evaluated by empirical methods, such as root microscopy. We compared this method with data from using a real time PCR technique, and determined the correlation between methods, indicating particularities of a promising system for a quick and accurate molecular diagnostic of arbuscular mycorrhization. ...
DOI:
10.1016/j.mimet.2021.106382

40. Formalin-fixed paraffin-embedded tissues for microbiome analysis in rainbow trout (Oncorhynchus mykiss)

Author:
Roberto Cruz-Flores; Mónica Hernández Rodríguez; Jesús Salvador Olivier Guirado Flores; Arun K. Dhar
Source:
Journal of microbiological methods 2022 v.192 pp. 106389
ISSN:
0167-7012
Subject:
Oncorhynchus mykiss; digestive system; histology; intestinal microorganisms; microbiome
Abstract:
... The gut microbiomes of rainbow trout (Oncorhynchus mykiss) reared at 16° and 22 °C were determined using formalin-fixed paraffin-embedded tissues (FFPE) and compared to fresh frozen tissue. The data revealed microbiomes could be successfully determined using FFPE tissue opening a new horizon in studying intestinal microbiota using archived histological samples. ...
DOI:
10.1016/j.mimet.2021.106389

41. Green synthesis, characterization of silver nanoparticals for biomedical application and environmental remediation

Author:
Victoria Vorobyova; Georgii Vasyliev; Dmitriy Uschapovskiy; Khrokalo Lyudmyla; Margarita Skiba
Source:
Journal of microbiological methods 2022 v.193 pp. 106384
ISSN:
0167-7012
Subject:
Bacillus subtilis; Candida albicans; Escherichia coli; X-ray diffraction; antibacterial properties; biosynthesis; electrochemistry; energy-dispersive X-ray analysis; grapes; nanosilver; nylon; oxidation; oxygen; photocatalysis; remediation; silver; tandem mass spectrometry; ultrasonics; ultraviolet-visible spectroscopy; zeta potential
Abstract:
... Production of silver nanoparticles (Ag-NPs) to increase photocatalytic activity of commercial TiO₂ (P25) and antibacterial activity of surgical sutures was studied. А new method of “green” synthesis of Ag-NPs from aqueous extract of grape skin (oxidation product), which is pre-processed by oxygen and ultrasound is reported. Also, a new method of electrochemical modification of surgical sutures was ...
DOI:
10.1016/j.mimet.2021.106384

42. High throughput pH bioassay demonstrates pH adaptation of Rhizobium strains isolated from the nodules of Trifolium subterraneum and T. repens

Author:
Anish S. Shah; Steve A. Wakelin; Derrick J. Moot; Céline Blond; Alasdair Noble; Hayley J. Ridgway
Source:
Journal of microbiological methods 2022 v.195 pp. 106455
ISSN:
0167-7012
Subject:
Rhizobium; Trifolium repens; Trifolium subterraneum; bioassays; mannitol; soil pH; yeasts
Abstract:
... The purpose of developing this high throughput assay was to determine whether there was evidence of pH adaptation in strains of rhizobia which nodulate subterranean clover (SC) and white clover (WC), and whether this was related to the pH of the soil of origin. pH is a first-order factor influencing the niche preferences of soil microorganisms and has been convincingly shown to be a key driver of ...
DOI:
10.1016/j.mimet.2022.106455

43. Identification of two potential aetiological agents of chronic diarrhoea in an immunocompromised patient in Cuba using conventional and molecular diagnostic techniques

Author:
Luis Enrique Jerez Puebla; Fidel A. Núñez Fernández; Iraís Atencio Millán; Jorge Pérez Avila; Jorge Fraga Nodarse; Iredys Cruz Rodríguez; Laura Rodríguez Moreno; Yanet Fresco Sampedro; Lucy J. Robertson
Source:
Journal of microbiological methods 2022 v.192 pp. 106376
ISSN:
0167-7012
Subject:
Enterocytozoon bieneusi; diagnostic techniques; diarrhea; microscopy; patients; Cuba
Abstract:
... The aetiology of diarrhoea in a patient in Cuba with HIV was investigated. Although molecular diagnostics are still not used in many under-resourced settings, here traditional methods were supported by use of PCR. This approach enabled detection of a dual infection (Cystoisospora belli and Enterocytozoon bieneusi), the latter of which was not identified by microscopy with Didier's trichromic stain ...
DOI:
10.1016/j.mimet.2021.106376

44. Insight into the biotechnology potential of Alicyclobacillus tolerans from whole genome sequence analysis and genome-scale metabolic network modeling.

Author:
Enuh Blaise Manga; Belma Nural Yaman; Pınar Aytar Çelik
Source:
Journal of microbiological methods 2022 pp. 106459
ISSN:
0167-7012
Subject:
Alicyclobacillus; acid mine drainage; bacteria; biochemical pathways; bioinformatics; bioleaching; biotechnology; carbon; computer simulation; energy; genomics; mathematical models; metabolism; nucleic acids; nucleotide sequences; phenotype; pyrite; sequence analysis
Abstract:
... Extremophilic bacteria have numerous uncovered biotechnological potentials. Acidophilic bacteria are important iron oxidizers that are valuable in bioleaching and in studying extreme environments on earth and in space. Despite their obvious potential, little is known about the genetic traits that underpin their metabolic functions, which are equally poorly understood from a mechanistic perspective ...
DOI:
10.1016/j.mimet.2022.106459

45. Interlaboratory evaluations of a standardized quantitative test method for determining the bactericidal and tuberculocidal efficacy of antimicrobial substances on hard non-porous surfaces

Author:
Stephen F. Tomasino; Rebecca M. Pines; Darla M. Goeres; Albert E. Parker
Source:
Journal of microbiological methods 2022 v.196 pp. 106460
ISSN:
0167-7012
Subject:
Mycobacterium terrae; Pseudomonas aeruginosa; Staphylococcus aureus; disease control; liquids; markets; quantitative analysis; stainless steel; statistical analysis
Abstract:
... The development, validation, and use of new quantitative methodologies for testing the effectiveness of antimicrobial products are necessary to meet the regulatory challenges associated with an ever-changing marketplace, novel product claims, new infection control practices, and the emergence of new clinical pathogens. A series of four interlaboratory studies were conducted in a standardized manne ...
DOI:
10.1016/j.mimet.2022.106460

46. Is skipping the definition of primary and secondary models possible? Prediction of Escherichia coli O157 growth by machine learning

Author:
Kento Koyama; Kyosuke Kubo; Satoko Hiura; Shige Koseki
Source:
Journal of microbiological methods 2022 v.192 pp. 106366
ISSN:
0167-7012
Subject:
Escherichia coli O157; mathematical theory; model validation; normal distribution; population growth; prediction; predictive microbiology; regression analysis
Abstract:
... To predict bacterial population behavior in food, statistical models with specific function form have been applied in the field of predictive microbiology. Modelers need to consider the linear or non-linear relationship between the response and explanatory variables in the statistical modeling approach. In the present study, we focused on machine learning methods to skip definition of primary and ...
DOI:
10.1016/j.mimet.2021.106366

47. Low-cost, specific PCR assays to identify the main aflatoxigenic species of Aspergillus section Flavi

Author:
Josué J. Silva; Maria H.P. Fungaro; Taynara Souza Soto; Marta H. Taniwaki; Beatriz T. Iamanaka
Source:
Journal of microbiological methods 2022 v.196 pp. 106470
ISSN:
0167-7012
Subject:
DNA-directed RNA polymerase; aflatoxins; cryptic species; food contamination; fungi; loci; metabolites
Abstract:
... Aflatoxins are fungal metabolites that are present as contaminants in food globally. Most aflatoxigenic species belong to Aspergillus section Flavi, and the main ones are grouped in the A. flavus clade, where many cryptic species that are difficult to discriminate are found. In this study, we investigated inter- and intraspecific diversity of the A. flavus clade to develop low-cost, species-specif ...
DOI:
10.1016/j.mimet.2022.106470

48. Machine learning approach for predicting the antifungal effect of gilaburu (Viburnum opulus) fruit extracts on Fusarium spp. isolated from diseased potato tubers

Author:
Alper Zongur; Hatice Kavuncuoglu; Erhan Kavuncuoglu; Tugba Dursun Capar; Hasan Yalcin; Mehmet Akif Buzpinar
Source:
Journal of microbiological methods 2022 v.192 pp. 106379
ISSN:
0167-7012
Subject:
Viburnum opulus; acetone; antifungal properties; ethanol; food microbiology; fruits; fungal growth; methanol; neural networks; potatoes
Abstract:
... This work addresses the mathematical model building to detect the diameter of the inhibition zone of gilaburu (Viburnum opulus L.) extract against eight different Fusarium strains isolated from diseased potato tubers. Gilaburu extracts were obtained with acetone, ethanol or methanol. The isolated Fusarium strains were: F. solani, F. oxysporum, F. sambucinum, F. graminearum, F. coeruleum, F. sulphu ...
DOI:
10.1016/j.mimet.2021.106379

49. Measurement of lactose concentration in milk by using engineered bacteria producing lycopene

Author:
Yinjie Li; Qunqun Guo; Tingting Zhang; Chao Wang; Hong Yang; Guicai Du; Ronggui Li
Source:
Journal of microbiological methods 2022 v.194 pp. 106390
ISSN:
0167-7012
Subject:
Escherichia coli; bacterial culture; genetic transformation; high performance liquid chromatography; lactose; lycopene; milk; phenotype; plasmids; spectrophotometers
Abstract:
... Lycopene is an orange–red carotenoid, which confers a visual phenotype to assess genetic transformation of microorganisms. In this study, the lycopene synthesis pathway was constructed in engineered Escherichia coli BL21 (DE3) by transforming plasmid pET-15b-crtBEI, wherein crtB, crtE, and crtI could be expressed under the control of the T7 promoter and lacO operator and lycopene could be accumula ...
DOI:
10.1016/j.mimet.2021.106390

50. Methodology to streamline flow cytometric-based detection of early stage Plasmodium parasitemia in mice

Author:
Mohan Liu; Matthew J. Liao; Christopher J. Fisher; Rodolfo D. Vicetti Miguel; Thomas L. Cherpes
Source:
Journal of microbiological methods 2022 v.195 pp. 106439
ISSN:
0167-7012
Subject:
Plasmodium berghei; fluorescence; laminar flow; malaria; mice; parasitemia; therapeutics
Abstract:
... Murine infection models are needed to develop therapeutics and vaccines to combat the Plasmodium parasites causing malaria. Herein, we describe an easy to perform flow cytometry-based methodology for detecting green fluorescent protein-expressing Plasmodium berghei in the peripheral red blood cells (RBC) of mice. This methodology uses one-step staining and simplified gating strategies to streamlin ...
DOI:
10.1016/j.mimet.2022.106439