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  1. Article ; Online: Fluid-Screen as a real time dielectrophoretic method for universal microbial capture.

    Weber, Robert Emanuel / Petkowski, Janusz Jurand / Michaels, Brandye / Wisniewski, Kamil / Piela, Anna / Antoszczyk, Slawomir / Weber, Monika Urszula

    Scientific reports

    2021  Volume 11, Issue 1, Page(s) 22222

    Abstract: Bacterial culture methods, e.g. Plate Counting Method (PCM), are a gold standard in the assessment of microbial contamination in multitude of human industries. They are however slow, labor intensive, and prone to manual errors. Dielectrophoresis (DEP) ... ...

    Abstract Bacterial culture methods, e.g. Plate Counting Method (PCM), are a gold standard in the assessment of microbial contamination in multitude of human industries. They are however slow, labor intensive, and prone to manual errors. Dielectrophoresis (DEP) has shown great promise for particle separation for decades; however, it has not yet been widely applied in routine laboratory setting. This paper provides an overview of a new DEP microbial capture and separation method called Fluid-Screen (FS), that achieves very fast, efficient, reliable and repeatable capture and separation of microbial cells. Method verification experiments demonstrated that the FS system captured 100% of bacteria in test samples, a capture efficiency much higher than previously reported for similar technology. Data generated supports the superiority of the FS method as compared to the established Plate Counting Method (PCM), that is routinely used to detect bacterial contamination in healthcare, pharmacological and food industries. We demonstrate that the FS method is universal and can capture and separate different species of bacteria and fungi to viruses, from various sample matrices (i.e. human red blood cells, mammalian cells).
    Language English
    Publishing date 2021-11-15
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-021-01600-z
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Swarming motility by Photorhabdus temperata is influenced by environmental conditions and uses the same flagella as that used in swimming motility.

    Michaels, Brandye / Tisa, Louis S

    Canadian journal of microbiology

    2011  Volume 57, Issue 3, Page(s) 196–203

    Abstract: Photorhabdus temperata, an insect pathogen and nematode symbiont, is motile in liquid medium by swimming. We found that P. temperata was capable of surface movement, termed swarming behavior. Several lines of evidence indicate that P. temperata use the ... ...

    Abstract Photorhabdus temperata, an insect pathogen and nematode symbiont, is motile in liquid medium by swimming. We found that P. temperata was capable of surface movement, termed swarming behavior. Several lines of evidence indicate that P. temperata use the same flagella for both swimming and swarming motility. Both motility types required additional NaCl or KCl in the medium and had peritrichous flagella, which were composed of the same flagellin as detected by immunoblotting experiments. Mutants defective in flagellar structural proteins were nonmotile for both motility types. Unlike swimming, we observed swarming behavior to be a social form of movement in which the cells coordinately formed intricate channels covering a surface. The constituents of the swarm media affected motility. Swarming was optimal on low agar concentrations; as agar concentrations increased, swarm ring diameters decreased.
    MeSH term(s) Agar/chemistry ; Culture Media/chemistry ; Flagella/physiology ; Flagellin/analysis ; Microscopy, Electron, Transmission ; Photorhabdus/physiology ; Photorhabdus/ultrastructure ; Salts/chemistry
    Chemical Substances Culture Media ; Salts ; Flagellin (12777-81-0) ; Agar (9002-18-0)
    Language English
    Publishing date 2011-03
    Publishing country Canada
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 280534-0
    ISSN 1480-3275 ; 0008-4166
    ISSN (online) 1480-3275
    ISSN 0008-4166
    DOI 10.1139/W10-119
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  3. Book ; Thesis: Genetics and physiology of motility by Photorhabdus SPP

    Michaels, Brandye A

    2006  

    Author's details by Brandye A. Michaels
    Language English
    Size xii, 136 leaves :, ill. ; 29 cm.
    Document type Book ; Thesis
    Thesis / German Habilitation thesis Thesis (Ph.D.)--University of New Hampshire (Dept of Microbiology), 2006
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  4. Article ; Online: Considerations for Optimization of High-Throughput Sequencing Bioinformatics Pipelines for Virus Detection.

    Lambert, Christophe / Braxton, Cassandra / Charlebois, Robert L / Deyati, Avisek / Duncan, Paul / La Neve, Fabio / Malicki, Heather D / Ribrioux, Sebastien / Rozelle, Daniel K / Michaels, Brandye / Sun, Wenping / Yang, Zhihui / Khan, Arifa S

    Viruses

    2018  Volume 10, Issue 10

    Abstract: High-throughput sequencing (HTS) has demonstrated capabilities for broad virus detection based upon discovery of known and novel viruses in a variety of samples, including clinical, environmental, and biological. An important goal for HTS applications in ...

    Abstract High-throughput sequencing (HTS) has demonstrated capabilities for broad virus detection based upon discovery of known and novel viruses in a variety of samples, including clinical, environmental, and biological. An important goal for HTS applications in biologics is to establish parameter settings that can afford adequate sensitivity at an acceptable computational cost (computation time, computer memory, storage, expense or/and efficiency), at critical steps in the bioinformatics pipeline, including initial data quality assessment, trimming/cleaning, and assembly (to reduce data volume and increase likelihood of appropriate sequence identification). Additionally, the quality and reliability of the results depend on the availability of a complete and curated viral database for obtaining accurate results; selection of sequence alignment programs and their configuration, that retains specificity for broad virus detection with reduced false-positive signals; removal of host sequences without loss of endogenous viral sequences of interest; and use of a meaningful reporting format, which can retain critical information of the analysis for presentation of readily interpretable data and actionable results. Furthermore, after alignment, both automated and manual evaluation may be needed to verify the results and help assign a potential risk level to residual, unmapped reads. We hope that the collective considerations discussed in this paper aid toward optimization of data analysis pipelines for virus detection by HTS.
    MeSH term(s) Computational Biology ; DNA, Viral/genetics ; Data Accuracy ; Databases as Topic ; High-Throughput Nucleotide Sequencing ; RNA, Viral/genetics ; Reproducibility of Results ; Research Design ; Sequence Alignment ; Sequence Analysis ; Software ; Viruses/genetics ; Viruses/isolation & purification
    Chemical Substances DNA, Viral ; RNA, Viral
    Language English
    Publishing date 2018-09-27
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2516098-9
    ISSN 1999-4915 ; 1999-4915
    ISSN (online) 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v10100528
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: Elucidation of the Photorhabdus temperata Genome and Generation of a Transposon Mutant Library To Identify Motility Mutants Altered in Pathogenesis

    Hurst, Sheldon / Rowedder, Holli / Michaels, Brandye / Bullock, Hannah / Jackobeck, Ryan / Abebe-Akele, Feseha / Durakovic, Umjia / Gately, Jon / Janicki, Erik / Tisa, Louis S

    Journal of bacteriology. 2015 July 1, v. 197, no. 13

    2015  

    Abstract: The entomopathogenic nematode Heterorhabditis bacteriophora forms a specific mutualistic association with its bacterial partner Photorhabdus temperata . The microbial symbiont is required for nematode growth and development, and symbiont recognition is ... ...

    Abstract The entomopathogenic nematode Heterorhabditis bacteriophora forms a specific mutualistic association with its bacterial partner Photorhabdus temperata . The microbial symbiont is required for nematode growth and development, and symbiont recognition is strain specific. The aim of this study was to sequence the genome of P. temperata and identify genes that plays a role in the pathogenesis of the Photorhabdus - Heterorhabditis symbiosis. A draft genome sequence of P. temperata strain NC19 was generated. The 5.2-Mb genome was organized into 17 scaffolds and contained 4,808 coding sequences (CDS). A genetic approach was also pursued to identify mutants with altered motility. A bank of 10,000 P. temperata transposon mutants was generated and screened for altered motility patterns. Five classes of motility mutants were identified: (i) nonmotile mutants, (ii) mutants with defective or aberrant swimming motility, (iii) mutant swimmers that do not require NaCl or KCl, (iv) hyperswimmer mutants that swim at an accelerated rate, and (v) hyperswarmer mutants that are able to swarm on the surface of 1.25% agar. The transposon insertion sites for these mutants were identified and used to investigate other physiological properties, including insect pathogenesis. The motility-defective mutant P13-7 had an insertion in the RNase II gene and showed reduced virulence and production of extracellular factors. Genetic complementation of this mutant restored wild-type activity. These results demonstrate a role for RNA turnover in insect pathogenesis and other physiological functions. IMPORTANCE The relationship between Photorhabdus and entomopathogenic nematode Heterorhabditis represents a well-known mutualistic system that has potential as a biological control agent. The elucidation of the genome of the bacterial partner and role that RNase II plays in its life cycle has provided a greater understanding of Photorhabdus as both an insect pathogen and a nematode symbiont.
    Keywords Heterorhabditis bacteriophora ; Photorhabdus ; RNA ; bacterial motility ; biological control agents ; entomopathogenic nematodes ; genes ; genetic complementation ; growth and development ; insects ; mutants ; pathogenesis ; potassium chloride ; ribonucleases ; sodium chloride ; symbionts ; symbiosis ; transposons ; virulence
    Language English
    Dates of publication 2015-0701
    Size p. 2201-2216.
    Publishing place American Society for Microbiology
    Document type Article
    ZDB-ID 2968-3
    ISSN 1098-5530 ; 0021-9193
    ISSN (online) 1098-5530
    ISSN 0021-9193
    DOI 10.1128/JB.00197-15
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    In stock of ZB MED Bonn / Germany

    Z 4' 62/105: Show issues
    Z 487: Show issues

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  6. Article ; Online: Historical evaluation of the in vivo adventitious virus test and its potential for replacement with next generation sequencing (NGS).

    Barone, Paul W / Keumurian, Flora J / Neufeld, Caleb / Koenigsberg, Andrea / Kiss, Robert / Leung, James / Wiebe, Michael / Ait-Belkacem, Rima / Azimpour Tabrizi, Chakameh / Barbirato, Cristina / Beurdeley, Pascale / Brussel, Audrey / Cassart, Jean-Pol / Cote, Colette / Deneyer, Noémie / Dheenadhayalan, Veera / Diaz, Leyla / Geiselhoeringer, Angela / Gilleece, Maria M /
    Goldmann, Jakob / Hickman, Danielle / Holden, Angela / Keiner, Björn / Kopp, Martina / Kreil, Thomas R / Lambert, Christophe / Logvinoff, Carine / Michaels, Brandye / Modrof, Jens / Mullan, Brian / Mullberg, Jürgen / Murphy, Marie / O'Donnell, Sean / Peña, José / Ruffing, Michael / Ruppach, Horst / Salehi, Nasrin / Shaid, Shahjahan / Silva, Lindsey / Snyder, Richard / Spedito-Jovial, Mélancolie / Vandeputte, Olivier / Westrek, Bernice / Yang, Bin / Yang, Ping / Springs, Stacy L

    Biologicals : journal of the International Association of Biological Standardization

    2023  Volume 81, Page(s) 101661

    Abstract: The Consortium on Adventitious Agent Contamination in Biomanufacturing (CAACB) collected historical data from 20 biopharmaceutical industry members on their experience with the in vivo adventitious virus test, the in vitro virus test, and the use of next ...

    Abstract The Consortium on Adventitious Agent Contamination in Biomanufacturing (CAACB) collected historical data from 20 biopharmaceutical industry members on their experience with the in vivo adventitious virus test, the in vitro virus test, and the use of next generation sequencing (NGS) for viral safety. Over the past 20 years, only three positive in vivo adventitious virus test results were reported, and all were also detected in another concurrent assay. In more than three cases, data collected as a part of this study also found that the in vivo adventitious virus test had given a negative result for a sample that was later found to contain virus. Additionally, the in vivo adventitious virus test had experienced at least 21 false positives and had to be repeated an additional 21 times all while using more than 84,000 animals. These data support the consideration and need for alternative broad spectrum viral detection tests that are faster, more sensitive, more accurate, more specific, and more humane. NGS is one technology that may meet this need. Eighty one percent of survey respondents are either already actively using or exploring the use of NGS for viral safety. The risks and challenges of replacing in vivo adventitious virus testing with NGS are discussed. It is proposed to update the overall virus safety program for new biopharmaceutical products by replacing in vivo adventitious virus testing approaches with modern methodologies, such as NGS, that maintain or even improve the final safety of the product.
    MeSH term(s) Animals ; High-Throughput Nucleotide Sequencing ; Viruses/genetics ; Biological Products ; Drug Contamination/prevention & control
    Chemical Substances Biological Products
    Language English
    Publishing date 2023-01-06
    Publishing country England
    Document type Journal Article
    ZDB-ID 1017370-5
    ISSN 1095-8320 ; 1045-1056
    ISSN (online) 1095-8320
    ISSN 1045-1056
    DOI 10.1016/j.biologicals.2022.11.003
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  7. Article ; Online: Elucidation of the Photorhabdus temperata Genome and Generation of a Transposon Mutant Library To Identify Motility Mutants Altered in Pathogenesis.

    Hurst, Sheldon / Rowedder, Holli / Michaels, Brandye / Bullock, Hannah / Jackobeck, Ryan / Abebe-Akele, Feseha / Durakovic, Umjia / Gately, Jon / Janicki, Erik / Tisa, Louis S

    Journal of bacteriology

    2015  Volume 197, Issue 13, Page(s) 2201–2216

    Abstract: Unlabelled: The entomopathogenic nematode Heterorhabditis bacteriophora forms a specific mutualistic association with its bacterial partner Photorhabdus temperata. The microbial symbiont is required for nematode growth and development, and symbiont ... ...

    Abstract Unlabelled: The entomopathogenic nematode Heterorhabditis bacteriophora forms a specific mutualistic association with its bacterial partner Photorhabdus temperata. The microbial symbiont is required for nematode growth and development, and symbiont recognition is strain specific. The aim of this study was to sequence the genome of P. temperata and identify genes that plays a role in the pathogenesis of the Photorhabdus-Heterorhabditis symbiosis. A draft genome sequence of P. temperata strain NC19 was generated. The 5.2-Mb genome was organized into 17 scaffolds and contained 4,808 coding sequences (CDS). A genetic approach was also pursued to identify mutants with altered motility. A bank of 10,000 P. temperata transposon mutants was generated and screened for altered motility patterns. Five classes of motility mutants were identified: (i) nonmotile mutants, (ii) mutants with defective or aberrant swimming motility, (iii) mutant swimmers that do not require NaCl or KCl, (iv) hyperswimmer mutants that swim at an accelerated rate, and (v) hyperswarmer mutants that are able to swarm on the surface of 1.25% agar. The transposon insertion sites for these mutants were identified and used to investigate other physiological properties, including insect pathogenesis. The motility-defective mutant P13-7 had an insertion in the RNase II gene and showed reduced virulence and production of extracellular factors. Genetic complementation of this mutant restored wild-type activity. These results demonstrate a role for RNA turnover in insect pathogenesis and other physiological functions.
    Importance: The relationship between Photorhabdus and entomopathogenic nematode Heterorhabditis represents a well-known mutualistic system that has potential as a biological control agent. The elucidation of the genome of the bacterial partner and role that RNase II plays in its life cycle has provided a greater understanding of Photorhabdus as both an insect pathogen and a nematode symbiont.
    MeSH term(s) Animals ; DNA Transposable Elements/genetics ; DNA, Bacterial ; Gene Expression Regulation, Bacterial ; Gene Library ; Genome, Bacterial ; Host-Parasite Interactions ; Moths/parasitology ; Movement ; Mutation ; Nematoda/microbiology ; Nematoda/physiology ; Photorhabdus/genetics ; Symbiosis
    Chemical Substances DNA Transposable Elements ; DNA, Bacterial
    Language English
    Publishing date 2015-04-27
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 2968-3
    ISSN 1098-5530 ; 0021-9193
    ISSN (online) 1098-5530
    ISSN 0021-9193
    DOI 10.1128/JB.00197-15
    Database MEDical Literature Analysis and Retrieval System OnLINE

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