Journal of Microbiological Methods

The Research Publications track research that is published across national and international peer-reviewed journals. The most recent articles are available ahead of print and searchable by Journal Title, Subject, USDA Grant Funding Agencies or FDA Grant Funding Agencies. The research publications are tracked across five subject areas: Bacterial Pathogens, Chemical Contaminants, Natural Toxins, Parasites, and Viruses.

Wed, 02/12/2020 - 10:45
Author(s): Jiahua Xing, Jia Yu, Yin LiuAbstractVibrio parahaemolyticus, a major food-borne pathogen, is a gram-negative rod-shaped halophilic bacterium which inhabits marine environments throughout the world. It can pose a threat to humans after the consumption of raw or undercooked seafood. Fast detection is crucial for hindering and controlling V. parahaemolyticus infection. Compared with...
Wed, 02/05/2020 - 03:22
Author(s): Jay Prakash Yadav, Satya Veer Singh Malik, Pankaj Dhaka, Manesh Kumar, Sirsant Bhoomika, Diksha Gourkhede, Sukhadeo B. Barbuddhe, Deepak B. RawoolAbstractThe in-house developed DnaK and Com1 synthetic peptide-based Latex Agglutination Tests (LATs) were comparatively evaluated with commercial indirect-ELISA kit, to provide a rapid, economical and onsite field applicable test for...
Sun, 02/02/2020 - 03:20
Author(s): Triveni Kalleshamurthy, Somy Skariah, Yashaswini Rathore, Kavana D. Ramanjinappa, Chaitra Nagaraj, Bibek Ranjan Shome, Habibur Rahman, Nagendra Nath Barman, Rajeswari ShomeAbstractBrucellosis is an important zoonosis that constitutes a serious public health hazard which is caused by a bacterium belonging to the genus Brucella. In the present study, two highly specific serological tests...
Tue, 01/14/2020 - 03:19
Author(s): E. Lewis, J.A. Hudson, N. Cook, J.D. Barnes, E. HaynesAbstractNext generation sequencing (NGS) approaches are increasingly applied to tracing microbial contaminants entering the food chain due to NGS’ untargeted nature and ability to investigate non-culturable (and/or difficult to culture) organisms while yielding genomic information about the microbiota. So far, a plethora of microbes...
Wed, 01/08/2020 - 03:22
Author(s): Peter Reid, Nicholas C.K. Heng, John D. Hale, Deepti Krishnan, Julian Crane, John R. Tagg, Trudy J. MilneAbstractIn order to assess the colonization efficacy of the oral probiotic Streptococcus salivarius K12, a rapid method for specific detection and enumeration of the strain was developed. Here, we describe a two-step TaqMan™ quantitative PCR assay using primer-probe combinations...
Wed, 01/08/2020 - 03:22
Author(s): Luca Michelutti, Michela Bulfoni, Emanuele NencioniAbstractIntroduction: Flow cytometry is a powerful and sensitive technique able to characterize single cells within a heterogeneous population. Different fluorescent dyes can be combined and used together to analyze a great variety of parameters simultaneously. In particular, flow-cytometry allows to measure viability and vitality of...
Mon, 12/30/2019 - 03:21
Author(s): Jiajia Wan, Jianping Guo, Zhaoxin Lu, Xiaomei Bie, Fengxia Lv, Haizhen ZhaoAbstractThe purpose of this study was to assemble two types of loop-mediated isothermal amplification (LAMP) kit that have the ability to visually detect Salmonella in ready-to-eat fruits and vegetables. The reaction results were obtained within 20–40 min after addition of DNA and can be discerned by the naked...
Thu, 12/26/2019 - 03:21
Author(s): M. Esteban, P. Marcos, C. Horna, P. Galan-Malo, L. Mata, M.D. Pérez, M. Calvo, L. SánchezAbstractClostridium tyrobutyricum is the major agent that causes the blowing defect in cheese due to the germination of its dormant spores during the ripening stage. As a result, many of the affected cheeses show cavities and cracks, which cause the product loss in most cases. Nowadays, there is...
Thu, 12/19/2019 - 03:22
Author(s): Cheryl N. Miller, Maisha Khan, S. Ashraf Ahmed, Krishna Kota, Rekha G. Panchal, Martha L. HaleAbstractThe intracellular Gram-negative bacterium, Coxiella burnetii, is a worldwide zoonotic pathogen and the causative agent of Q fever. The standard of care for C. burnetii infections involves extended periods of antibiotic treatment and the development of doxycycline-resistant strains...
Wed, 12/18/2019 - 03:35
Author(s): Weili Liu, Hong Zhao, Zhigang Qiu, Min Jin, Dong Yang, Qunying Xu, Hua Feng, Junwen Li, Zhiqiang ShenAbstractBackgroundE.coli is an important foodborne pathogen. Rapid and robust tracking of the source of E. coli is the key step to control foodborne infections.ResultsIn this study, a genotyping and tracing method based on highly discriminatory single nucleotide polymorphisms (SNPs) was...
Sat, 12/14/2019 - 03:21
Author(s): Sara Andrés-Lasheras, Rahat Zaheer, Reuben Ha, Catrione Lee, Murray Jelinski, Tim A. McAllisterAbstractCulturing Mycoplasma bovis is laborious and unpredictable with most laboratories relying on molecular methods for its detection and identification. However, bacterial culture is still necessary to relate phenotypic characteristics to genotypic traits within and between individual...
Thu, 12/12/2019 - 03:23
Author(s): Miaomiao Hu, Dong Yang, Xiaoli Wu, Meng Luo, Feng XuAbstractTo establish a simple and rapid high-resolution melting curve (HRM) method, 5 different strains of Salmonella were identified by adding DNA denaturants at different concentrations into the HRM system to change the characteristics of DNA melting and to obtain different Tm (dissolving temperature) values of DNA from different...
Thu, 12/05/2019 - 03:38
Author(s): Youngkee Jung, Yoojung Heo, Jaejoong Lee, Amanda Deering, Euiwon BaeAbstractWe report an application for the smartphone as an accurate and unbiased reading platform of a lateral flow immunoassays for food safety application. In particular, this report focuses on detection of food-borne bacteria in samples extracted from food matrices such as ground beef and spinach. The lateral flow...
Sat, 11/30/2019 - 03:22
Author(s): Sophie Reissier, Isabelle Lazareth, Louise Adjiman, Carine Couzigou, Barbara Vidal, Assaf Mizrahi, Jean Claude Nguyen Van, Benoît Pilmis, Alban Le Monnier, Julie Lourtet-HascoëtAbstractObjectivesUnyvero i60 ITI multiplex PCR (mPCR) may identify a large panel of bacteria and antibiotic resistance genes. In this study, we compared results obtained by mPCR to standard bacteriology in...
Wed, 11/13/2019 - 03:20
Author(s): Kuppuswamy N. KasturiAbstractSalmonella is one of the leading causes of foodborne illnesses in the USA. When a Salmonella outbreak occurs, rapid identification of the causative serovar is important for tracing the source of contamination and for preventing the further spread of the illness. Each serovar is characterized by the presence of a group-specific somatic O-antigen(s) and an...
Tue, 11/05/2019 - 03:23
Author(s): Yusuke Ota, Kazuki Furuhashi, Yuki Nagao, Takamasa Nanba, Katsumasa Yamanaka, Jinko Ishikawa, Osanori Nagura, Moriya Iwaizumi, Etsuko Hamada, Masato MaekawaAbstractRapid and sensitive detection of extended-spectrum β-lactamases (ESBLs) is essential for infection control and antimicrobial treatment. Recently, a matrix-assisted laser desorption ionization-time of flight mass spectrometry...
Sun, 10/20/2019 - 03:26
Author(s): Caroline D'Souza, Ballamoole Krishna Kumar, Praveen Rai, Vijay Kumar Deekshit, Indrani KarunasagarAbstractA SYBR green based qPCR assay targeting a unique region of gyrB was developed for the detection of Vibrio vulnificus. The specificity of the assay was studied using V. vulnificus and other bacterial strains belonging to Vibrio and non-Vibrio species. The assay unambiguously...
Sat, 10/19/2019 - 03:26
Author(s): Aline C. da Silva Santos, Danielle M.N. Moura, Thiago A.R. dos Santos, Osvaldo P. de Melo Neto, Valéria R.A. PereiraAbstractLeishmaniasis, caused by protozoa belonging to the genus Leishmania, is an important public health problem found in >90 countries and with still limited options for treatment. Development of new anti-leishmanial drugs is an urgent need and the identification of...
Sat, 10/19/2019 - 03:26
Author(s): Deepshikha Bhowmik, Bhaskar Jyoti Das, Piyush Pandey, Shiela Chetri, Debadatta Dhar Chanda, Amitabha BhattacharjeeAbstractStaphylococcal Cassette Chromosome mec (SCCmec) element plays a key role in development of resistance by carrying different resistance factors. Therefore, routine and rapid diagnostic approach is considered advantageous for the easy detection of SCCmec elements. So...
Mon, 09/23/2019 - 03:20
Author(s): Kotková Hana, Cabrnochová Marie, Lichá Irena, Tkadlec Jan, Fila Libor, Bartošová Jana, Melter OtoAbstractBesides natural and acquired mechanisms of resistance, bacteria can cope with presence of antibiotics by using complex mechanisms such as persistence or tolerance.The main purpose of this study was to evaluate the suitability of newly developed Tolerance Disk Test (TDtest) (Gefen et...
Mon, 09/23/2019 - 03:20
Author(s): Like Xu, Hannah Chen, Melisa Canales, Lena CiricAbstractPollution of various environmental matrices by antibiotic resistance genes (ARGs) has become a growing threat to human health. For the quantitative analysis of the presence of ARGs, there is a need for sensitive and robust qPCR assays which can detect various genes from different types of DNA extracts. Fourteen ARGs were selected...
Mon, 09/23/2019 - 03:20
Author(s): Xiaotong Qiu, Dongke Chen, Xuebing Wang, Haijian Zhou, Xuexin Hou, Jingshan Zhang, Mengtong Li, Zhenjun LiAbstractCorynebacterium striatum is an emerging multidrug-resistant pathogen causing increasing numbers of infections and nosocomial outbreaks worldwide. Thus, a simple, rapid and accurate method for C. striatum is urgently required for improving diagnosis efficiency. In this study...
Mon, 09/23/2019 - 03:20
Author(s): Ming-An Tsai, Pei-Chi Wang, Shiomi Yoshida, Akio Aono, Satoshi Mitarai, Takayuki Wada, Shih-Chu ChenAbstractMycobacterium marinum is a zoonotic pathogen that can cause dermatological infection mainly from contaminated water or fish. Some well-known genetically similar species and subspecies are M. lifrandii and M. pseudoshottsii from amphibians and fish in aquaculture, and M. ulcerans...
Mon, 09/23/2019 - 03:20
Author(s): Fabián Lorenzo-Diaz, Inmaculada Moreno-Córdoba, Manuel EspinosaAbstractStreptococcus pneumoniae is a pathogenic and opportunistic Gram-positive bacterium that is the leading cause of community-acquired respiratory diseases, varying from mild- to deathly- infections. The appearance of antibiotic-resistant isolates has prompted the search for novel strategies and targets to tackle the...
Mon, 09/23/2019 - 03:20
Author(s): C.J. González-Pérez, J. Tanori-Cordova, E. Aispuro-Hernández, I. Vargas-Arispuro, M.A. Martínez-TéllezAbstractThe different morphological characteristics of five bacterial pathogen strains were analyzed through transmission electron microscopy for addressing the particular relationship between optical density and colony-forming units for each strain. Generated linear equations will...
Mon, 09/16/2019 - 01:05
Available online 14 September 2019 Author(s): Victoria Stadler Tasca Ribeiro, Letícia Kraft, Paula Hansen Suss, Juliette Cieslinski, Luciana Cristina Wollmann, Felipe Francisco TuonAbstractAlthough reports of infections caused by anaerobes after tissue transplantation are uncommon, contamination of allografts may result in substantial complications. Anaerobic incubation and testing of organ...
Mon, 08/26/2019 - 01:05
Available online 24 August 2019 Author(s): Julio C. Ayala, Jorge A. Benitez, Anisia J. SilvaAbstractWe describe a proteomic approach to identify transcription factors binding to a target promoter. The method's usefulness was tested by identifying proteins binding to the Vibrio cholerae rpoS promoter in response to cell density. Proteins identified in this screen included the nucleoid-associated...
Mon, 08/26/2019 - 01:05
Available online 25 August 2019 Author(s): Guerrino Macori, Siobhán C. McCarthy, Catherine M. Burgess, Séamus Fanning, Geraldine DuffyAbstractA quantitative PCR method is described for the detection and quantification of E. coli O157 and O26 in sheep recto-anal junction swabs. The method incorporated a short enrichment step (5 h) and the use of a developed standard calibration curve relating the...
Fri, 08/23/2019 - 01:03
Available online 21 August 2019 Author(s): Gökhan Kürşad Incili, Ahmet Koluman, Ayşegül Aktüre, Ahmet AtaşalanAbstractEscherichia coli O157:H7 is one of the most important food-borne pathogens to threaten public health. Cultural methods are used as a gold standard while they are laborious and time-consuming. Loop-mediated isothermal amplification (LAMP) method is an alternative method that became...
Sun, 08/04/2019 - 01:05
Available online 2 August 2019 Author(s): Esin Nagihan Kasap, Üzeyir Doğan, Ferah Çoğun, Ender Yıldırım, İsmail Hakkı Boyacı, Demet Çetin, Zekiye Suludere, Uğur Tamer, Nusret ErtaşAbstractIn this report, a passive microfluidic chip design was developed for fast and sensitive fluorometric determination of Escherichia coli (E. coli) based on sandwich immunoassay. Initially, magnetic nanoparticles (...
Thu, 07/25/2019 - 01:05
Available online 23 July 2019 Author(s): Zafer Ata, Esra BuyukcangazAbstractA single-tube multiplex real-time PCR targeting the nuclease (nuc) gene and subsequent high-resolution melting analysis (HRMA) were used to identify 13 different Staphylococcus species. The nuc gene was targeted due to its low intraspecies variation and the greater interspecies variation than the 16S rRNA gene in...
Thu, 05/16/2019 - 01:07
Available online 14 May 2019 Author(s): Sheila B. Buijs, Mirjam H.A. Hermans, Nabila Agni, Maaike C. de Vries, Andy I.M. Hoepelman, Jan Jelrik Oosterheert, Peter C. WeverAbstractIntroductionCoxiella burnetii, the causative pathogen of Q fever, is regularly detected in throat swabs from patients without serological evidence of Q fever infection. C. burnetii is also frequently found in bulk tank...
Thu, 05/16/2019 - 01:07
Available online 15 May 2019 Author(s): Narges Elahi, Mohammad Hadi Baghersad, Mehdi KamaliAbstractEarly detection of infectious bacteria is a necessity for combating infectious diseases. Due to low infectious dose of Shigella, rapid and sensitive detection is needed. Compared to the presented genes, Spa gene can be introduced as a novel sequence for all species of Shigella detection. Herein, the...
Mon, 05/13/2019 - 01:11
Available online 11 May 2019 Author(s): Lyddia Wilson, Kanwal Mohammad Iqbal, Terrie Simmons-Ehrhardt, Massimo F. Bertino, Muhammed Raza Shah, Vamsi K. Yadavalli, Christopher J. EhrhardtAbstractGaps in our understanding of the natural ecology and survival mechanisms of pathogenic bacteria in complex microenvironments such as soil typically occur due to the difficulty in characterizing biochemical...
Sun, 05/05/2019 - 01:14
Available online 2 May 2019 Author(s): Hiroki Maruoka, Atsushi Hinenoya, Noritomo Yasuda, Atsuyoshi Takeda, Shin Inoue, Tomoko Sumi, Kazuaki Koitabashi, Hiroshi Yasue, Kazuhiko Kogou, Shinji YamasakiAbstractWe developed a new GeneFields® EHEC/SS PCR dipstick DNA chromatography kit for the simultaneously detection of invA, ipaH, and stx genes in Salmonella enterica (56 strains), Shigella spp. (44...
Fri, 05/03/2019 - 01:13
Available online 30 April 2019 Author(s): R.M. Subasinghe, A.D. Samarajeewa, R. Scroggins, L.A. BeaudetteAbstractIdentification of bacteria in new or existing commercial microbial-based products (MBPs) is important for compliance with government regulations and for human and environmental risk assessment. Research was performed to develop effective methods to identify bacteria present in a MBP...
Thu, 04/18/2019 - 01:13
Available online 16 April 2019 Author(s): Wenxin Liu, Chaowen Yuan, Liguo Zhang, Yufei FengAbstractThe objective of this study was to establish a novel isothermal amplification method for detection of heat-labile enterotoxin (LT-I)-producing Escherichia coli. Loop-mediated isothermal amplification (LAMP), cross-priming amplification (CPA), and isothermal multiple-self-matching-initiated...
Wed, 04/17/2019 - 01:12
Available online 15 April 2019 Author(s): Luiz Humberto Gomes, Keila Maria Roncato Duarte, Marcos Yassuo Kamogawa, Jessica Aparecida Ferrarezi, Felipe Gabriel Andrino, Ana Claudia LoBuono Tavares, Ana Paula Maria da Silva, Sergio Escheverrigaray Laguna, Simone Possedente de LiraAbstractA simple generic toxicity method (test) is proposed using baker's yeast to mediate the reduction of the...
Fri, 04/12/2019 - 01:14
Available online 9 April 2019 Author(s): Heonseop Eom, Ji-hoon Hwang, Sedky H.A. Hassan, Jin Ho Joo, Jang Hyun Hur, Kangmin Chon, Byong-Hun Jeon, Young-Chae Song, Kyu-Jung Chae, Sang-Eun OhAbstractA fed-batch bioreactor based on sulfur-oxidizing bacteria (SOB) was tested for rapid detection of heavy metal-induced toxicity in water. For this evaluation, SOB were exposed to water contaminated by...
Thu, 03/21/2019 - 01:18
Available online 20 March 2019 Author(s): Tatsuya TominagaAbstractColiform bacteria in foods are enumerated at food processing plants and are used as sanitary and quality indicators. To detect coliform bacteria rapidly, seven Lateral Flow Test Strips (LFTSs) that can detect the genera Aeromonas, Citrobacter, Enterobacter, Hafnia, Klebsiella/Raoultella, Pantoea and Serratia were developed. For 55...
Mon, 03/18/2019 - 01:12
Available online 16 March 2019 Author(s): Himadri Tanaya Behera, Anjani Kumar Upadhyay, Vishakha Raina, Lopamudra RayAbstractOptimization of media composition for microbial growth is crucial particularly in industrial processes to obtain the desired end product. The waste from sea food industries includes the non-edible parts of shrimp, crabs and prawns which are rich in chitin as the major cause...
Sun, 03/10/2019 - 01:13
Available online 9 March 2019 Author(s): Reinhard Sting, Tobias Eisenberg, Maja HrubenjaAbstractAnalyses of short subunit gene sequences have been established for taxonomic classification and identification of bacteria and fungi. To produce partial bacterial ribosomal 16S rRNA and rpoB and fungal ribosomal ITS/LSU gene sequences for DNA sequencing, real-time PCR assays supplemented with the...
Wed, 02/27/2019 - 01:12
Available online 25 February 2019 Author(s): Keita Takahashi, Yuki Hanamura, Nagisa Tokunoh, Kohei Kassai, Masaru Matsunishi, Shiori Watanabe, Tsuyoshi Sugiyama, Naoki InoueAbstractEvaluation of the efficacy of vaccine candidates that prevent enteropathogenic and enterohemorrhagic Escherichia coli (EPEC/EHEC) infection in mouse models is difficult due to their limited pathogenicity in mice....
Wed, 02/27/2019 - 01:12
Available online 26 February 2019 Author(s): Daoyi Xi, Fuyi Jing, Qian Liu, Boyang CaoAbstractPlesiomonas shigelloides is widely associated with human diarrheal disease. Research on this pathogen has been hampered by the absence of an effective genetic manipulation system. In the present study, an efficient and precise conjugation transfer procedure, mediated by suicide vector pRE112 was used to...
Mon, 02/25/2019 - 01:11
Available online 20 February 2019 Author(s): Jafar Ali, Naeem Ali, Lei Wang, Hassan Waseem, Gang PanAbstractSynthesis and application of reliable nanoscale materials is a progressive domain and the limelight of modern nanotechnology. Conventional physicochemical approaches for the synthesis of metal nanoparticles have become obsolete owing to costly and hazardous materials. There is a need to...
Sun, 02/17/2019 - 01:13
Available online 15 February 2019 Author(s): Bo Zhang, Yibeibaihan Maimaiti, Chunyan Liu, Jing Li, Haiye Wang, Haojie Lin, Zhaohui Deng, Xinhong Lu, Xin ZhangAbstractObjectiveClinical diagnosis of bloodstream infection diseases depends on the blood culture results. Bacterial identification by traditional methods is time-consuming. This study aimed to utilize molecular beacon-based fluorescence in...
Fri, 02/08/2019 - 01:12
Available online 6 February 2019 Author(s): Xinjie Song, Shruti Shukla, Myunghee KimAbstractCronobacter species are foodborne pathogens that pose a high risk in infant formula and can cause fatality rates of 40–80% in infected infants. To develop a rapid and easy detection method for Cronobacter species, especially in powdered infant formula (PIF), an immunoliposome-based immunochromatographic...
Wed, 01/30/2019 - 01:10
Available online 29 January 2019 Author(s): Jinqiang Hu, Runna Huang, Yanting Sun, Xiangke Wei, Yi Wang, Chunpeng Jiang, Yao Geng, Xincheng Sun, Jianzhou Jing, Hui Gao, Zhangcun Wang, Caiwen DongAbstractSalmonella Typhimurium (S. Typhimurium) can cause serious foodborne diseases. In this study, an assay combining recombinase polymerase amplification (RPA) with lateral flow dipsticks (LFD) was...
Wed, 01/23/2019 - 01:08
Available online 22 January 2019 Author(s): Richard M. Gell, Ignazio CarboneAbstractAflatoxins are mycotoxins that contaminate agricultural products when infected by toxigenic Aspergillus flavus. Methods for quantifying aflatoxin from culture using chromatography are available but are not optimized for population studies. We provide details of a method for preparation and quantitation of...
Tue, 01/15/2019 - 01:04
Available online 11 January 2019 Author(s): Al Serhat, Gökhan Kürşad Incili, Aytac Akcay, Ahmet KolumanAbstractAlthough rapid detection kits continue to be developed and used, the classical culture method is still accepted as a gold standard. Therefore accelerating the classical culture methods safely is important for the detection of Campylobacter. The aim of this study is to design and compare...

Pages