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  1. Article ; Online: Development of Spatial Distribution Patterns by Biofilm Cells.

    Haagensen, Janus A J / Hansen, Susse K / Christensen, Bjarke B / Pamp, Sünje J / Molin, Søren

    Applied and environmental microbiology

    2015  Volume 81, Issue 18, Page(s) 6120–6128

    Abstract: Confined spatial patterns of microbial distribution are prevalent in nature, such as in microbial ... to an understanding of spatial species distribution patterns as they are observed in nature, as well as the ecology ... of species distribution patterns observed in macroecology, and we summarize observations about the processes ...

    Abstract Confined spatial patterns of microbial distribution are prevalent in nature, such as in microbial mats, soil communities, and water stream biofilms. The symbiotic two-species consortium of Pseudomonas putida and Acinetobacter sp. strain C6, originally isolated from a creosote-polluted aquifer, has evolved a distinct spatial organization in the laboratory that is characterized by an increased fitness and productivity. In this consortium, P. putida is reliant on microcolonies formed by Acinetobacter sp. C6, to which it attaches. Here we describe the processes that lead to the microcolony pattern by Acinetobacter sp. C6. Ecological spatial pattern analyses revealed that the microcolonies were not entirely randomly distributed and instead were arranged in a uniform pattern. Detailed time-lapse confocal microscopy at the single-cell level demonstrated that the spatial pattern was the result of an intriguing self-organization: small multicellular clusters moved along the surface to fuse with one another to form microcolonies. This active distribution capability was dependent on environmental factors (carbon source and oxygen) and historical contingency (formation of phenotypic variants). The findings of this study are discussed in the context of species distribution patterns observed in macroecology, and we summarize observations about the processes involved in coadaptation between P. putida and Acinetobacter sp. C6. Our results contribute to an understanding of spatial species distribution patterns as they are observed in nature, as well as the ecology of engineered communities that have the potential for enhanced and sustainable bioprocessing capacity.
    MeSH term(s) Acinetobacter/physiology ; Biofilms/growth & development ; Microbial Consortia ; Microscopy, Confocal ; Pseudomonas putida/physiology ; Time-Lapse Imaging
    Language English
    Publishing date 2015-09
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 223011-2
    ISSN 1098-5336 ; 0099-2240
    ISSN (online) 1098-5336
    ISSN 0099-2240
    DOI 10.1128/AEM.01614-15
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Methods for characterizing the co-development of biofilm and habitat heterogeneity.

    Li, Xiaobao / Song, Jisun L / Culotti, Alessandro / Zhang, Wei / Chopp, David L / Lu, Nanxi / Packman, Aaron I

    Journal of visualized experiments : JoVE

    2015  , Issue 97

    Abstract: ... of optical methods to quantify spatial patterns in biofilm structure, flow distributions over biofilms, and ... significant spatial heterogeneities. Biofilm development is strongly regulated by the surrounding flow and ... for growing and visualizing biofilm development under these conditions. We also present protocols for a series ...

    Abstract Biofilms are surface-attached microbial communities that have complex structures and produce significant spatial heterogeneities. Biofilm development is strongly regulated by the surrounding flow and nutritional environment. Biofilm growth also increases the heterogeneity of the local microenvironment by generating complex flow fields and solute transport patterns. To investigate the development of heterogeneity in biofilms and interactions between biofilms and their local micro-habitat, we grew mono-species biofilms of Pseudomonas aeruginosa and dual-species biofilms of P. aeruginosa and Escherichia coli under nutritional gradients in a microfluidic flow cell. We provide detailed protocols for creating nutrient gradients within the flow cell and for growing and visualizing biofilm development under these conditions. We also present protocols for a series of optical methods to quantify spatial patterns in biofilm structure, flow distributions over biofilms, and mass transport around and within biofilm colonies. These methods support comprehensive investigations of the co-development of biofilm and habitat heterogeneity.
    MeSH term(s) Biofilms/growth & development ; Ecosystem ; Escherichia coli/physiology ; Microfluidics/instrumentation ; Microfluidics/methods ; Microscopy, Confocal/methods ; Pseudomonas aeruginosa/physiology
    Language English
    Publishing date 2015-03-11
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Video-Audio Media
    ISSN 1940-087X
    ISSN (online) 1940-087X
    DOI 10.3791/52602
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: Methods for characterizing the co-development of biofilm and habitat heterogeneity

    Li, Xiaobao / Song, Jisun L / Culotti, Alessandro / Zhang, Wei / Chopp, David L / Lu, Nanxi / Packman, Aaron I

    Journal of visualized experiments. 2015 Mar. 11, , no. 97

    2015  

    Abstract: ... of optical methods to quantify spatial patterns in biofilm structure, flow distributions over biofilms, and ... significant spatial heterogeneities. Biofilm development is strongly regulated by the surrounding flow and ... for growing and visualizing biofilm development under these conditions. We also present protocols for a series ...

    Abstract Biofilms are surface-attached microbial communities that have complex structures and produce significant spatial heterogeneities. Biofilm development is strongly regulated by the surrounding flow and nutritional environment. Biofilm growth also increases the heterogeneity of the local microenvironment by generating complex flow fields and solute transport patterns. To investigate the development of heterogeneity in biofilms and interactions between biofilms and their local micro-habitat, we grew mono-species biofilms of Pseudomonas aeruginosa and dual-species biofilms of P. aeruginosa and Escherichia coli under nutritional gradients in a microfluidic flow cell. We provide detailed protocols for creating nutrient gradients within the flow cell and for growing and visualizing biofilm development under these conditions. We also present protocols for a series of optical methods to quantify spatial patterns in biofilm structure, flow distributions over biofilms, and mass transport around and within biofilm colonies. These methods support comprehensive investigations of the co-development of biofilm and habitat heterogeneity.
    Keywords Escherichia coli ; Pseudomonas aeruginosa ; biofilm ; mass transfer ; microbial communities ; microhabitats ; solutes
    Language English
    Dates of publication 2015-0311
    Size p. e52602.
    Publishing place Journal of Visualized Experiments
    Document type Article
    ZDB-ID 2259946-0
    ISSN 1940-087X
    ISSN 1940-087X
    DOI 10.3791/52602
    Database NAL-Catalogue (AGRICOLA)

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  4. Article: Spatial periodicity of Escherichia coli K-12 biofilm microstructure initiates during a reversible, polar attachment phase of development and requires the polysaccharide adhesin PGA.

    Agladze, Konstantin / Wang, Xin / Romeo, Tony

    Journal of bacteriology

    2005  Volume 187, Issue 24, Page(s) 8237–8246

    Abstract: ... within Escherichia coli biofilm are organized in nonrandom or periodic spatial patterns. Here, we developed a gravity ... polar attachment. Nevertheless, it formed periodic attachment patterns. In contrast, biofilm mutants ... distinct forms of cell attachment, temporary and permanent, during early biofilm development. Temporarily ...

    Abstract Using fast Fourier transform (FFT) analysis, we previously observed that cells within Escherichia coli biofilm are organized in nonrandom or periodic spatial patterns. Here, we developed a gravity displacement assay for examining cell adherence and used it to quantitatively monitor the formation of two distinct forms of cell attachment, temporary and permanent, during early biofilm development. Temporarily attached cells were mainly surface associated by a cell pole; permanent attachments were via the lateral cell surface. While temporary attachment precedes permanent attachment, both forms can coexist in a population. Exposure of attached cells to gravity liberated an unattached population capable of rapidly reassembling a new monolayer, composed of temporarily attached cells, and possessing periodicity. A csrA mutant, which forms biofilm more vigorously than its wild-type parent, exhibited an increased proportion of permanently attached cells and a form of attachment that was not apparent in the parent strain, permanent polar attachment. Nevertheless, it formed periodic attachment patterns. In contrast, biofilm mutants with altered lipopolysaccharide synthesis (waaG) exhibited increased cell-cell interactions, bypassed the polar attachment step, and produced FFT spectra characteristic of aperiodic cell distribution. Mutants lacking the polysaccharide adhesin beta-1,6-N-acetyl-d-glucosamine (DeltapgaC) also exhibited aperiodic cell distribution, but without apparent cell-cell interactions, and were defective in forming permanent attachments. Thus, spatial periodicity of biofilm microstructure is genetically determined and evident during the formation of temporary cell surface attachments.
    MeSH term(s) Adhesins, Bacterial/genetics ; Adhesins, Bacterial/physiology ; Bacterial Adhesion/genetics ; Bacterial Adhesion/physiology ; Biofilms/growth & development ; Escherichia coli K12/genetics ; Escherichia coli K12/growth & development ; Escherichia coli K12/physiology ; Escherichia coli Proteins/genetics ; Escherichia coli Proteins/physiology ; Gene Deletion ; Glucosyltransferases/genetics ; Glucosyltransferases/physiology ; Models, Biological ; Morphogenesis ; Mutagenesis, Insertional ; Mutation ; Polysaccharides, Bacterial/genetics ; Polysaccharides, Bacterial/physiology ; RNA-Binding Proteins/genetics ; RNA-Binding Proteins/physiology ; Repressor Proteins/genetics ; Repressor Proteins/physiology
    Chemical Substances Adhesins, Bacterial ; CsrA protein, E coli ; Escherichia coli Proteins ; Polysaccharides, Bacterial ; RNA-Binding Proteins ; Repressor Proteins ; bacterial adhesins, polysaccharide ; Glucosyltransferases (EC 2.4.1.-) ; WaaG protein, E coli (EC 2.4.1.-)
    Language English
    Publishing date 2005-12
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2968-3
    ISSN 1098-5530 ; 0021-9193
    ISSN (online) 1098-5530
    ISSN 0021-9193
    DOI 10.1128/JB.187.24.8237-8246.2005
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Ud II Zs.50: Show issues Location:
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  5. Article ; Online: Predicting the distribution of spiral waves from cell properties in a developmental-path model of Dictyostelium pattern formation.

    Geberth, Daniel / Hütt, Marc-Thorsten

    PLoS computational biology

    2009  Volume 5, Issue 7, Page(s) e1000422

    Abstract: ... of homogeneously distributed D. discoideum cells has been the suggestion of a developmental path the cells follow ... and systematic spatial distribution of spiral waves, which can be predicted from the distribution ... of cells on the developmental path. We propose specific experiments for checking whether such systematics ...

    Abstract The slime mold Dictyostelium discoideum is one of the model systems of biological pattern formation. One of the most successful answers to the challenge of establishing a spiral wave pattern in a colony of homogeneously distributed D. discoideum cells has been the suggestion of a developmental path the cells follow (Lauzeral and coworkers). This is a well-defined change in properties each cell undergoes on a longer time scale than the typical dynamics of the cell. Here we show that this concept leads to an inhomogeneous and systematic spatial distribution of spiral waves, which can be predicted from the distribution of cells on the developmental path. We propose specific experiments for checking whether such systematics are also found in data and thus, indirectly, provide evidence of a developmental path.
    MeSH term(s) Algorithms ; Animals ; Computational Biology/methods ; Cyclic AMP/metabolism ; Dictyostelium/growth & development ; Dictyostelium/metabolism ; Dictyostelium/physiology ; Models, Biological ; Models, Statistical ; Phosphoric Diester Hydrolases/metabolism
    Chemical Substances Cyclic AMP (E0399OZS9N) ; Phosphoric Diester Hydrolases (EC 3.1.4.-)
    Language English
    Publishing date 2009-07-10
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2193340-6
    ISSN 1553-7358 ; 1553-734X
    ISSN (online) 1553-7358
    ISSN 1553-734X
    DOI 10.1371/journal.pcbi.1000422
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Predicting the distribution of spiral waves from cell properties in a developmental-path model of Dictyostelium pattern formation.

    Daniel Geberth / Marc-Thorsten Hütt

    PLoS Computational Biology, Vol 5, Iss 7, p e

    2009  Volume 1000422

    Abstract: ... of homogeneously distributed D. discoideum cells has been the suggestion of a developmental path the cells follow ... and systematic spatial distribution of spiral waves, which can be predicted from the distribution ... of cells on the developmental path. We propose specific experiments for checking whether such systematics ...

    Abstract The slime mold Dictyostelium discoideum is one of the model systems of biological pattern formation. One of the most successful answers to the challenge of establishing a spiral wave pattern in a colony of homogeneously distributed D. discoideum cells has been the suggestion of a developmental path the cells follow (Lauzeral and coworkers). This is a well-defined change in properties each cell undergoes on a longer time scale than the typical dynamics of the cell. Here we show that this concept leads to an inhomogeneous and systematic spatial distribution of spiral waves, which can be predicted from the distribution of cells on the developmental path. We propose specific experiments for checking whether such systematics are also found in data and thus, indirectly, provide evidence of a developmental path.
    Keywords Biology (General) ; QH301-705.5
    Language English
    Publishing date 2009-07-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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