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  1. AU="van Steijn, Leonie"
  2. AU="Zeng, Zhenling"
  3. AU="Silva Helio B."
  4. AU="Bellicoso, Daniela"
  5. AU="Cruz Viggi, Carolina"

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  1. Artikel ; Online: Deformability and collision-induced reorientation enhance cell topotaxis in dense microenvironments.

    van Steijn, Leonie / Wondergem, Joeri A J / Schakenraad, Koen / Heinrich, Doris / Merks, Roeland M H

    Biophysical journal

    2023  Band 122, Heft 13, Seite(n) 2791–2807

    Abstract: In vivo, cells navigate through complex environments filled with obstacles such as other cells and the extracellular matrix. Recently, the term "topotaxis" has been introduced for navigation along topographic cues such as obstacle density gradients. ... ...

    Abstract In vivo, cells navigate through complex environments filled with obstacles such as other cells and the extracellular matrix. Recently, the term "topotaxis" has been introduced for navigation along topographic cues such as obstacle density gradients. Experimental and mathematical efforts have analyzed topotaxis of single cells in pillared grids with pillar density gradients. A previous model based on active Brownian particles (ABPs) has shown that ABPs perform topotaxis, i.e., drift toward lower pillar densities, due to decreased effective persistence lengths at high pillar densities. The ABP model predicted topotactic drifts of up to 1% of the instantaneous speed, whereas drifts of up to 5% have been observed experimentally. We hypothesized that the discrepancy between the ABP and the experimental observations could be in 1) cell deformability and 2) more complex cell-pillar interactions. Here, we introduce a more detailed model of topotaxis based on the cellular Potts model (CPM). To model persistent cells we use the Act model, which mimics actin-polymerization-driven motility, and a hybrid CPM-ABP model. Model parameters were fitted to simulate the experimentally found motion of Dictyostelium discoideum on a flat surface. For starved D. discoideum, the topotactic drifts predicted by both CPM variants are closer to the experimental results than the previous ABP model due to a larger decrease in persistence length. Furthermore, the Act model outperformed the hybrid model in terms of topotactic efficiency, as it shows a larger reduction in effective persistence time in dense pillar grids. Also pillar adhesion can slow down cells and decrease topotaxis. For slow and less-persistent vegetative D. discoideum cells, both CPMs predicted a similar small topotactic drift. We conclude that deformable cell volume results in higher topotactic drift compared with ABPs, and that feedback of cell-pillar collisions on cell persistence increases drift only in highly persistent cells.
    Mesh-Begriff(e) Dictyostelium ; Extracellular Matrix ; Motion
    Sprache Englisch
    Erscheinungsdatum 2023-06-07
    Erscheinungsland United States
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 218078-9
    ISSN 1542-0086 ; 0006-3495
    ISSN (online) 1542-0086
    ISSN 0006-3495
    DOI 10.1016/j.bpj.2023.06.001
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  2. Buch ; Online: Deformability and collision-induced reorientation enhance cell topotaxis in dense microenvironments

    van Steijn, Leonie / Wondergem, Joeri A. J. / Schakenraad, Koen / Heinrich, Doris / Merks, Roeland M. H.

    2023  

    Abstract: In vivo, cells navigate through complex environments filled with obstacles. Recently, the term 'topotaxis' has been introduced for navigation along topographic cues such as obstacle density gradients. Experimental and mathematical efforts have analyzed ... ...

    Abstract In vivo, cells navigate through complex environments filled with obstacles. Recently, the term 'topotaxis' has been introduced for navigation along topographic cues such as obstacle density gradients. Experimental and mathematical efforts have analyzed topotaxis of single cells in pillared grids with pillar density gradients. A previous model based on active Brownian particles has shown that ABPs perform topotaxis, i.e., drift towards lower pillar densities, due to decreased effective persistence lengths at high pillars densities. The ABP model predicted topotactic drifts of up to 1% of the instantaneous speed, whereas drifts of up to 5% have been observed experimentally. We hypothesized that the discrepancy between the ABP and the experimental observations could be in 1) cell deformability, and 2) more complex cell-pillar interactions. Here, we introduce a more detailed model of topotaxis, based on the Cellular Potts model. To model persistent cells we use the Act model, which mimicks actin-polymerization driven motility, and a hybrid CPM-ABP model. Model parameters were fitted to simulate the experimentally found motion of D. discoideum on a flat surface. For starved D. discoideum, both CPM variants predict topotactic drifts closer to the experimental results than the previous ABP model, due to a larger decrease in persistence length. Furthermore, the Act model outperformed the hybrid model in terms of topotactic efficiency, as it shows a larger reduction in effective persistence time in dense pillar grids. Also pillar adhesion can slow down cells and decrease topotaxis. For slow and less persistent vegetative D. discoideum cells, both CPMs predicted a similar small topotactic drift. We conclude that deformable cell volume results in higher topotactic drift compared to ABPs, and that feedback of cell-pillar collisions on cell persistence increases drift only in highly persistent cells.
    Schlagwörter Physics - Biological Physics ; Quantitative Biology - Cell Behavior
    Thema/Rubrik (Code) 612
    Erscheinungsdatum 2023-06-15
    Erscheinungsland us
    Dokumenttyp Buch ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  3. Artikel ; Online: Computational modelling of cell motility modes emerging from cell-matrix adhesion dynamics.

    van Steijn, Leonie / Wortel, Inge M N / Sire, Clément / Dupré, Loïc / Theraulaz, Guy / Merks, Roeland M H

    PLoS computational biology

    2022  Band 18, Heft 2, Seite(n) e1009156

    Abstract: Lymphocytes have been described to perform different motility patterns such as Brownian random walks, persistent random walks, and Lévy walks. Depending on the conditions, such as confinement or the distribution of target cells, either Brownian or Lévy ... ...

    Abstract Lymphocytes have been described to perform different motility patterns such as Brownian random walks, persistent random walks, and Lévy walks. Depending on the conditions, such as confinement or the distribution of target cells, either Brownian or Lévy walks lead to more efficient interaction with the targets. The diversity of these motility patterns may be explained by an adaptive response to the surrounding extracellular matrix (ECM). Indeed, depending on the ECM composition, lymphocytes either display a floating motility without attaching to the ECM, or sliding and stepping motility with respectively continuous or discontinuous attachment to the ECM, or pivoting behaviour with sustained attachment to the ECM. Moreover, on the long term, lymphocytes either perform a persistent random walk or a Brownian-like movement depending on the ECM composition. How the ECM affects cell motility is still incompletely understood. Here, we integrate essential mechanistic details of the lymphocyte-matrix adhesions and lymphocyte intrinsic cytoskeletal induced cell propulsion into a Cellular Potts model (CPM). We show that the combination of de novo cell-matrix adhesion formation, adhesion growth and shrinkage, adhesion rupture, and feedback of adhesions onto cell propulsion recapitulates multiple lymphocyte behaviours, for different lymphocyte subsets and various substrates. With an increasing attachment area and increased adhesion strength, the cells' speed and persistence decreases. Additionally, the model predicts random walks with short-term persistent but long-term subdiffusive properties resulting in a pivoting type of motility. For small adhesion areas, the spatial distribution of adhesions emerges as a key factor influencing cell motility. Small adhesions at the front allow for more persistent motility than larger clusters at the back, despite a similar total adhesion area. In conclusion, we present an integrated framework to simulate the effects of ECM proteins on cell-matrix adhesion dynamics. The model reveals a sufficient set of principles explaining the plasticity of lymphocyte motility.
    Mesh-Begriff(e) Cell Adhesion/physiology ; Cell Movement/physiology ; Cell-Matrix Junctions/physiology ; Computer Simulation ; Extracellular Matrix/metabolism
    Sprache Englisch
    Erscheinungsdatum 2022-02-14
    Erscheinungsland United States
    Dokumenttyp 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.1009156
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  4. Artikel: A Novel Function of TLR2 and MyD88 in the Regulation of Leukocyte Cell Migration Behavior During Wounding in Zebrafish Larvae.

    Hu, Wanbin / van Steijn, Leonie / Li, Chen / Verbeek, Fons J / Cao, Lu / Merks, Roeland M H / Spaink, Herman P

    Frontiers in cell and developmental biology

    2021  Band 9, Seite(n) 624571

    Abstract: Toll-like receptor (TLR) signaling via myeloid differentiation factor 88 protein (MyD88) has been indicated to be involved in the response to wounding. It remains unknown whether the putative role of MyD88 in wounding responses is due to a control of ... ...

    Abstract Toll-like receptor (TLR) signaling via myeloid differentiation factor 88 protein (MyD88) has been indicated to be involved in the response to wounding. It remains unknown whether the putative role of MyD88 in wounding responses is due to a control of leukocyte cell migration. The aim of this study was to explore
    Sprache Englisch
    Erscheinungsdatum 2021-02-15
    Erscheinungsland Switzerland
    Dokumenttyp Journal Article
    ZDB-ID 2737824-X
    ISSN 2296-634X
    ISSN 2296-634X
    DOI 10.3389/fcell.2021.624571
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  5. Artikel ; Online: Predicting Metabolism from Gene Expression in an Improved Whole-Genome Metabolic Network Model of

    van Steijn, Leonie / Verbeek, Fons J / Spaink, Herman P / Merks, Roeland M H

    Zebrafish

    2019  Band 16, Heft 4, Seite(n) 348–362

    Abstract: Zebrafish is a useful modeling organism for the study of vertebrate development, immune response, and metabolism. Metabolic studies can be aided by mathematical reconstructions of the metabolic network of zebrafish. These list the substrates and products ...

    Abstract Zebrafish is a useful modeling organism for the study of vertebrate development, immune response, and metabolism. Metabolic studies can be aided by mathematical reconstructions of the metabolic network of zebrafish. These list the substrates and products of all biochemical reactions that occur in the zebrafish. Mathematical techniques such as flux-balance analysis then make it possible to predict the possible metabolic flux distributions that optimize, for example, the turnover of food into biomass. The only available genome-scale reconstruction of zebrafish metabolism is ZebraGEM. In this study, we present ZebraGEM 2.0, an updated and validated version of ZebraGEM. ZebraGEM 2.0 is extended with gene-protein-reaction associations (GPRs) that are required to integrate genetic data with the metabolic model. To demonstrate the use of these GPRs, we performed an
    Mesh-Begriff(e) Animals ; Gene Expression ; Metabolic Networks and Pathways ; Models, Genetic ; Zebrafish/genetics ; Zebrafish/metabolism
    Sprache Englisch
    Erscheinungsdatum 2019-06-19
    Erscheinungsland United States
    Dokumenttyp Journal Article
    ZDB-ID 2156020-1
    ISSN 1557-8542 ; 1545-8547
    ISSN (online) 1557-8542
    ISSN 1545-8547
    DOI 10.1089/zeb.2018.1712
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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