Towards a unified system for detecting waterborne pathogens.

Abstract:

:Currently, there is no single method to collect, process, and analyze a water sample for all pathogenic microorganisms of interest. Some of the difficulties in developing a universal method include the physical differences between the major pathogen groups (viruses, bacteria, protozoa), efficiently concentrating large volume water samples to detect low target concentrations of certain pathogen groups, removing co-concentrated inhibitors from the sample, and standardizing a culture-independent endpoint detection method. Integrating the disparate technologies into a single, universal, simple method and detection system would represent a significant advance in public health and microbiological water quality analysis. Recent advances in sample collection, on-line sample processing and purification, and DNA microarray technologies may form the basis of a universal method to detect known and emerging waterborne pathogens. This review discusses some of the challenges in developing a universal pathogen detection method, current technology that may be employed to overcome these challenges, and the remaining needs for developing an integrated pathogen detection and monitoring system for source or finished water.

journal_name

J Microbiol Methods

authors

Straub TM,Chandler DP

doi

10.1016/s0167-7012(03)00023-x

subject

Has Abstract

pub_date

2003-05-01 00:00:00

pages

185-97

issue

2

eissn

0167-7012

issn

1872-8359

pii

S016770120300023X

journal_volume

53

pub_type

杂志文章,评审
  • Quantification of bacterial invasion into adherent cells by flow cytometry.

    abstract::Quantification of invasive, intracellular bacteria is critical in many areas of cellular microbiology and immunology. We describe a novel and fast approach to determine invasion of bacterial pathogens in adherent cell types such as epithelial cells or fibroblasts based on flow cytometry. Using the CEACAM-mediated upta...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2005.08.013

    authors: Pils S,Schmitter T,Neske F,Hauck CR

    更新日期:2006-05-01 00:00:00

  • Optimizing ultracentrifugation conditions for DNA-based stable isotope probing (DNA-SIP).

    abstract::DNA-SIP (DNA-based stable isotope probing) is increasingly being employed in soil microbial ecology to identify those microbes assimilating the 13C/15N labelled substrate. Isopycnic gradient centrifugation is the primary experimental process for conducting DNA-SIP. However, diverse centrifugal conditions have been use...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2020.105938

    authors: Wang J,Zhang X,Yao H

    更新日期:2020-06-01 00:00:00

  • Genotypic characterization of Salmonella by multilocus sequence typing, pulsed-field gel electrophoresis and amplified fragment length polymorphism.

    abstract::Molecular typing is an important tool in surveillance and outbreak investigations of human Salmonella infections. In this study, three molecular typing methods were used to investigate the discriminatory ability, reproducibility and the genetic relationship between 110 Salmonella enterica subspecies enterica isolates....

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2005.03.006

    authors: Torpdahl M,Skov MN,Sandvang D,Baggesen DL

    更新日期:2005-11-01 00:00:00

  • Improved method for collection of sputum for tuberculosis testing to ensure adequate sample volumes for molecular diagnostic testing.

    abstract::The quality and quantity of sputum collected has an important impact on the laboratory diagnosis of pulmonary TB. We conducted a pilot study to assess a new collection cups for the collection of sputum for the diagnosis of pulmonary tuberculosis. The pilot study utilized the standard collection cup in South Africa dem...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2017.01.011

    authors: Fisher M,Dolby T,Surtie S,Omar G,Hapeela N,Basu D,DeWalt A,Kelso D,Nicol M,McFall S

    更新日期:2017-04-01 00:00:00

  • Evaluation of functional gene enrichment in a soil metagenomic clone library.

    abstract::We evaluated the use of mixed oligonucleotide probes hybridized to metagenomic clones spotted on high density membranes. The pooled probes included oligonucleotides designed for genes associated with denitrification, antibiotic resistance, and dehalogenation among others. Pyrosequence comparison between the clones and...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2008.09.009

    authors: Demanèche S,David MM,Navarro E,Simonet P,Vogel TM

    更新日期:2009-01-01 00:00:00

  • Improved biovar test for Ralstonia solanacearum.

    abstract::Race 3, biovar 2 strains of Ralstonia solanacearum are quarantined pathogens in Europe and Canada and Select Agent pathogens in the United States. The biovar classification of R. solanacearum strains is based on their biochemical abilities to utilize a carbohydrate panel. The standard biovar test uses bromothymol blue...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2011.12.007

    authors: Huang Q,Yan X,Wang JF

    更新日期:2012-02-01 00:00:00

  • Efficient differentiation of Corynebacterium striatum, Corynebacterium amycolatum and Corynebacterium xerosis clinical isolates by multiplex PCR using novel species-specific primers.

    abstract::A multiplex-PCR (mPCR) assay was designed with species-specific primers which generate amplicons of 226bp, 434bp and 106bp for differentiating the species C. striatum, C. amycolatum, and C. xerosis, respectively. mPCR results were 100% in agreement with identifications achieved by 16S rRNA and rpoB gene sequencing and...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2017.09.002

    authors: Santos CS,Ramos JN,Vieira VV,Pinheiro CS,Meyer R,Alcantara-Neves NM,Ramos RT,Silva A,Hirata R Jr,Felicori L,de Alegría Puig CR,Navas J,Azevedo V,Mattos-Guaraldi AL,Pacheco LGC

    更新日期:2017-11-01 00:00:00

  • A multi-amplicon 16S rRNA sequencing and analysis method for improved taxonomic profiling of bacterial communities.

    abstract::Metagenomic sequencing of bacterial samples has become the gold standard for profiling microbial populations, but 16S rRNA profiling remains widely used due to advantages in sample throughput, cost, and sensitivity even though the approach is hampered by primer bias and lack of specificity. We hypothesized that a hybr...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2018.09.019

    authors: Schriefer AE,Cliften PF,Hibberd MC,Sawyer C,Brown-Kennerly V,Burcea L,Klotz E,Crosby SD,Gordon JI,Head RD

    更新日期:2018-11-01 00:00:00

  • High resolution clear native electrophoresis is a good alternative to blue native electrophoresis for the characterization of the Escherichia coli membrane complexes.

    abstract::Blue native electrophoresis (BNE) has become the most popular method for the global analysis of membrane protein complexes. Although it has been shown to be very useful for that purpose, it can produce the dissociation of complexes with weak interactions and, due to the use of Coomassie Brilliant Blue, does not allow ...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2014.05.003

    authors: Diéguez-Casal E,Freixeiro P,Costoya L,Criado MT,Ferreirós C,Sánchez S

    更新日期:2014-07-01 00:00:00

  • Quantification of Pseudomonas aeruginosa hydrogen cyanide production by a polarographic approach.

    abstract::Pseudomonas aeruginosa is an opportunistic pathogen responsible for numerous infections acquired in hospital especially in persons whose immune systems are weakened, such as with patient suffering from AIDS or cystic fibrosis. This bacterium produces a great diversity of virulence factors among them hydrogen cyanide (...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2012.04.005

    authors: Blier AS,Vieillard J,Gerault E,Dagorn A,Varacavoudin T,Le Derf F,Orange N,Feuilloley M,Lesouhaitier O

    更新日期:2012-07-01 00:00:00

  • Influence of PCR cycle number on 16S rRNA gene amplicon sequencing of low biomass samples.

    abstract::The objective of this study was to evaluate the effects of increased PCR cycle number on sequencing results from samples with low microbial biomass, including bovine milk, and murine pelage and blood. We hypothesized that subjecting DNA from such samples to higher PCR cycle numbers would increase 16S rRNA sequencing c...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2020.106033

    authors: Witzke MC,Gullic A,Yang P,Bivens NJ,Adkins PRF,Ericsson AC

    更新日期:2020-09-01 00:00:00

  • Application of sonication to release DNA from Bacillus cereus for quantitative detection by real-time PCR.

    abstract::A rapid sonication method for lysis of Gram-positive bacteria was evaluated for use in combination with quantitative real-time polymerase chain reaction (PCR) analyses for detection. Other criteria used for evaluation of lysis were microscopic cell count, colony forming units (cfu), optical density at 600 nm and total...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(03)00091-5

    authors: Fykse EM,Olsen JS,Skogan G

    更新日期:2003-10-01 00:00:00

  • Biolistic transformation of Trichoderma reesei using the Bio-Rad seven barrels Hepta Adaptor system.

    abstract::Effective biolistic transformation of intact conidia from the filamentous fungus Trichoderma reesei was achieved using the Bio-Rad Hepta Adaptor system with seven barrels for particle launch. Transformation frequencies of up to 39 colonies per microg of circular DNA and 37 colonies per microg of linear DNA were obtain...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(02)00126-4

    authors: Te'o VS,Bergquist PL,Nevalainen KM

    更新日期:2002-11-01 00:00:00

  • Improving the selection efficiency of the counter-selection marker pheS* for the genetic engineering of Bacillus amyloliquefaciens.

    abstract::Bacillus subtilis pheS was genetically modified to obtain a counter-selection marker with high selection efficiency in Bacillus amyloliquefaciens. The application of the new replication-thermosensitive integrative vector pNZTM1, containing this marker, pheSBsT255S/A309G, with a two-step replacement recombination proce...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2018.03.011

    authors: Kharchenko MS,Teslya PN,Babaeva MN,Zakataeva NP

    更新日期:2018-05-01 00:00:00

  • An array of multiplex PCR assays for detection of staphylococcal chromosomal cassette mec (SCCmec) types among staphylococcal isolates.

    abstract::Staphylococcal 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, here we have described the use of three sets of mult...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2019.105733

    authors: Bhowmik D,Das BJ,Pandey P,Chetri S,Chanda DD,Bhattacharjee A

    更新日期:2019-11-01 00:00:00

  • Is sonication of antibiotic-loaded cement spacers useful in two-stage revision of prosthetic joint infection?

    abstract:BACKGROUND:In a two-stage exchange protocol for prosthetic joint infection (PJI), bacteria surviving over the antibiotic-loaded cement spacers may cause the persistence of infection with renewed clinical symptoms following the surgery. Culture after sonication of removed prosthesis is more sensitive than conventional p...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2018.12.006

    authors: Sambri A,Maso A,Storni E,Donati ME,Pederzoli A,Dallari D,Bianchi G,Donati DM

    更新日期:2019-01-01 00:00:00

  • BEEP: An assay to detect bio-energetic and envelope permeability alterations in Pseudomonas aeruginosa.

    abstract::We developed an effective and rapid assay to detect both bio-energetic and envelope permeability (BEEP) alterations of Pseudomonas aeruginosa. The assay is based on quantification of extracellular ATP in bacterial cultures using luciferase as a reporter. To demonstrate the validity of our assay we conducted a biased s...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2016.04.009

    authors: Suh SJ,Shuman J,Carroll LP,Silo-Suh L

    更新日期:2016-06-01 00:00:00

  • Evaluation of extraction and purification methods for obtaining PCR-amplifiable DNA from compost for microbial community analysis.

    abstract::Analysis of microbial community structure in complex environmental samples using nucleic acid techniques requires efficient unbiased DNA extraction procedures; however, humic acids and other contaminants complicate the isolation of PCR-amplifiable DNA from compost and other organic-rich samples. In this study, combina...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(01)00377-3

    authors: LaMontagne MG,Michel FC Jr,Holden PA,Reddy CA

    更新日期:2002-05-01 00:00:00

  • Numerical solution of a microbial growth model applied to dynamic environments.

    abstract::The Baranyi and Roberts model is one of the most frequently used microbial growth models. It has been successfully applied to numerous studies of various microorganisms in different food products. Under dynamic conditions, the model is implicitly formulated as a set of two coupled differential equations which could be...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2015.03.003

    authors: Zhu S,Chen G

    更新日期:2015-05-01 00:00:00

  • Construction and use of a computerized DNA fingerprint database for lactic acid bacteria from silage.

    abstract::Efficient selection of new silage inoculant strains from a collection of over 10,000 isolates of lactic acid bacteria (LAB) requires excellent strain discrimination. Toward that end, we constructed a GelCompar II database of DNA fingerprint patterns of ethidium bromide-stained EcoRI fragments of total LAB DNA separate...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(03)00186-6

    authors: Chan RK,Wortman CR,Smiley BK,Hendrick CA

    更新日期:2003-12-01 00:00:00

  • Detection of respiratory enzyme activity in Giardia cysts and Cryptosporidium oocysts using redox dyes and immunofluorescence techniques.

    abstract::The fluorescent redox dye 5-cyano-2,3-ditolyl tetrazolium chloride (CTC), combined with fluorescein-labeled antibodies, was tested for the simultaneous detection of the respiratory electron transport system (ETS) activity and enumeration of Giardia cysts and Cryptosporidium oocysts by spectral microfluorometry and epi...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(01)00249-4

    authors: Iturriaga R,Zhang S,Sonek GJ,Stibbs H

    更新日期:2001-07-30 00:00:00

  • RNA-based sandwich hybridisation method for detection of lactic acid bacteria in brewery samples.

    abstract::Recently we showed the applicability and sensitivity of the RNA-based sandwich hybridisation assay (SHA) for detection of gram-negative cells in environmental samples [Leskelä, T., Tilsala-Timisjärvi, A., Kusnetsov, J., Neubauer, P., Breitenstein, A., 2005. Sensitive genus-specific detection of Legionella by a 16S rRN...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2006.10.009

    authors: Huhtamella S,Leinonen M,Nieminen T,Fahnert B,Myllykoski L,Breitenstein A,Neubauer P

    更新日期:2007-03-01 00:00:00

  • Mass spectrometry and tandem mass spectrometry characterization of protein patterns, protein markers and whole proteomes for pathogenic bacteria.

    abstract::There have been many recent reviews published on MALDI-TOF MS (matrix assisted laser desorption/ionization time-of-flight) MS (mass spectrometry) for identification of bacteria particularly with relevance to clinical microbiology. MALDI-TOF MS is now a mature technique for bacterial identification with great promise. ...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章,评审

    doi:10.1016/j.mimet.2013.01.004

    authors: Intelicato-Young J,Fox A

    更新日期:2013-03-01 00:00:00

  • Use of green fluorescent protein to quantify the growth of Colletotrichum during infection of tobacco.

    abstract::To develop a quantitative assay of fungal growth inside plant tissues, strains of Colletotrichum destructivum and Colletotrichum orbiculare were transformed with a modified green fluorescent protein (GFP) gene fused with a glyceraldehyde-3-phosphate dehydrogenase promoter from Aspergillus nidulans. Transformants expre...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(02)00234-8

    authors: Chen N,Hsiang T,Goodwin PH

    更新日期:2003-04-01 00:00:00

  • Bacterial identification using a SCIEX 5800 TOF/TOF MALDI research instrument and an external database.

    abstract::In our current study we were identifying 26 bacterial isolates using a SCIEX 5800 TOF/TOF MALDI instrument and an external database. The results were compared with the results of a Vitek® MS system and in case of discrepancies at the species level 16s rRNA sequencing was performed for further verification. ...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2019.105685

    authors: Huber CA,Pflüger V,Reed S,Cottrell K,Sidjabat HE,Ranasinghe A,Zowawi HM,Harris P,Paterson DL

    更新日期:2019-09-01 00:00:00

  • A DNA array based assay for the characterization of microbial community in raw milk.

    abstract::An oligonucleotide array based on PCR method containing a combination of probes for taxonomic markers and species-specific virulence genes was developed for the simultaneous identification of 14 Lactic Acid Bacteria (LAB) and food-borne pathogenic bacteria in raw milk. The hypervariable regions V3 and V6 of 16S, toget...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2009.05.015

    authors: Giannino ML,Aliprandi M,Feligini M,Vanoni L,Brasca M,Fracchetti F

    更新日期:2009-08-01 00:00:00

  • Polymerase chain reaction fingerprints of methicillin-resistant Staphylococcus aureus clinical isolates in Greece are related to certain antibiotypes.

    abstract::Characterization of clinical isolates of methicillin-resistant Staphylococcus aureus (MRSA) and representatives of three MRSA clones from other hospitals was performed by arbitrarily primed polymerase chain reaction (AP-PCR) and antibiotic susceptibility patterns. All isolates were mecA-positive and two main antibioty...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/s0167-7012(02)00249-x

    authors: Bartzavali-Louki C,Dimitracopoulos G,Spiliopoulou I

    更新日期:2003-06-01 00:00:00

  • Monitoring biosensor capture efficiencies: development of a model using GFP-expressing Escherichia coli O157:H7.

    abstract::One of the known limitations for biosensor assays is the high limit of detection for target cells within complex samples (e.g., Escherichia coli at 10(4) to 10(5) CFU/mL) due to poor capture efficiencies. Currently, researchers can only estimate the cell capture efficiency necessary to produce a positive signal for an...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2007.11.004

    authors: Simpson-Stroot JM,Kearns EA,Stroot PG,Magaña S,Lim DV

    更新日期:2008-01-01 00:00:00

  • Isolation of Brucella abortus total RNA from B. abortus-infected murine RAW macrophages.

    abstract::Brucella is a Gram-negative facultative bacterium that persists intracellularly in macrophages. However, the intracellular survival mechanisms used by Brucella are not fully understood. Isolation of Brucella RNA from infected macrophages has been challenging, and the inability to isolate sufficient Brucella RNA from i...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2004.10.018

    authors: Covert J,Eskra L,Splitter G

    更新日期:2005-03-01 00:00:00

  • Development of a genomic site for gene integration and expression in Enterococcus faecalis.

    abstract::Enterococcus faecalis, a gram-positive opportunistic pathogen, has become one of the leading causes of nosocomial infections. Normally a resident of the gastrointestinal tract, extensive use of antibiotics has resulted in the rise of E. faecalis strains that are resistant to multiple antibiotics. This, compounded with...

    journal_title:Journal of microbiological methods

    pub_type: 杂志文章

    doi:10.1016/j.mimet.2012.04.011

    authors: Debroy S,van der Hoeven R,Singh KV,Gao P,Harvey BR,Murray BE,Garsin DA

    更新日期:2012-07-01 00:00:00