Thermotaxis Is a Robust Mechanism for Thermoregulation in Caenorhabditis Elegans Nematodes
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Bimodal Rheotactic Behavior Reflects Flagellar Beat Asymmetry in Human Sperm Cells
Bimodal rheotactic behavior reflects flagellar beat asymmetry in human sperm cells Anton Bukatina,b,1, Igor Kukhtevichb,c,1, Norbert Stoopd,1, Jörn Dunkeld,2, and Vasily Kantslere aSt. Petersburg Academic University, St. Petersburg 194021, Russia; bInstitute for Analytical Instrumentation of the Russian Academy of Sciences, St. Petersburg 198095, Russia; cITMO University, St. Petersburg 197101, Russia; dDepartment of Mathematics, Massachusetts Institute of Technology, Cambridge, MA 02139-4307; and eDepartment of Physics, University of Warwick, Coventry CV4 7AL, United Kingdom Edited by Charles S. Peskin, New York University, New York, NY, and approved November 9, 2015 (received for review July 30, 2015) Rheotaxis, the directed response to fluid velocity gradients, has whether this effect is of mechanical (20) or hydrodynamic (21, been shown to facilitate stable upstream swimming of mamma- 22) origin. Experiments (23) show that the alga’s reorientation lian sperm cells along solid surfaces, suggesting a robust physical dynamics can lead to localization in shear flow (24, 25), with mechanism for long-distance navigation during fertilization. How- potentially profound implications in marine ecology. In contrast ever, the dynamics by which a human sperm orients itself relative to taxis in multiflagellate organisms (2, 5, 18, 26, 27), the navi- to an ambient flow is poorly understood. Here, we combine micro- gation strategies of uniflagellate cells are less well understood. fluidic experiments with mathematical modeling and 3D flagellar beat For instance, it was discovered only recently that uniflagellate reconstruction to quantify the response of individual sperm cells in marine bacteria, such as Vibrio alginolyticus and Pseudoalteromonas time-varying flow fields. Single-cell tracking reveals two kinematically haloplanktis, use a buckling instability in their lone flagellum to distinct swimming states that entail opposite turning behaviors under change their swimming direction (28). -
A Hybrid Computational Model for Collective Cell Durotaxis
Biomechanics and Modeling in Mechanobiology https://doi.org/10.1007/s10237-018-1010-2 ORIGINAL PAPER A hybrid computational model for collective cell durotaxis Jorge Escribano1 · Raimon Sunyer2,5 · María Teresa Sánchez3 · Xavier Trepat2,4,5,6 · Pere Roca-Cusachs2,4 · José Manuel García-Aznar1 Received: 13 September 2017 / Accepted: 17 February 2018 © Springer-Verlag GmbH Germany, part of Springer Nature 2018 Abstract Collective cell migration is regulated by a complex set of mechanical interactions and cellular mechanisms. Collective migration emerges from mechanisms occurring at single cell level, involving processes like contraction, polymerization and depolymerization, of cell–cell interactions and of cell–substrate adhesion. Here, we present a computational framework which simulates the dynamics of this emergent behavior conditioned by substrates with stiffness gradients. The computational model reproduces the cell’s ability to move toward the stiffer part of the substrate, process known as durotaxis. It combines the continuous formulation of truss elements and a particle-based approach to simulate the dynamics of cell–matrix adhesions and cell–cell interactions. Using this hybrid approach, researchers can quickly create a quantitative model to understand the regulatory role of different mechanical conditions on the dynamics of collective cell migration. Our model shows that durotaxis occurs due to the ability of cells to deform the substrate more in the part of lower stiffness than in the stiffer part. This effect explains why cell collective movement is more effective than single cell movement in stiffness gradient conditions. In addition, we numerically evaluate how gradient stiffness properties, cell monolayer size and force transmission between cells and extracellular matrix are crucial in regulating durotaxis. -
Mathematical Modelling and Analysis of Aspects of Planktonic Bacterial Motility
Mathematical modelling and analysis of aspects of planktonic bacterial motility Gabriel Aaron Rosser St Anne's College University of Oxford A thesis submitted for the degree of Doctor of Philosophy Michaelmas 2012 Contents 1 The biology of bacterial motility and taxis 8 1.1 Bacterial motility and taxis . .8 1.2 Experimental methods used to probe bacterial motility . 14 1.3 Tracking . 20 1.4 Conclusion and outlook . 21 2 Mathematical methods and models of bacterial motility and taxis 23 2.1 Modelling bacterial motility and taxis: a multiscale problem . 24 2.2 The velocity jump process . 34 2.3 Spatial moments of the general velocity jump process . 46 2.4 Circular statistics . 49 2.5 Stochastic simulation algorithm . 52 2.6 Conclusion and outlook . 54 3 Analysis methods for inferring stopping phases in tracking data 55 3.1 Analysis methods . 58 3.2 Simulation study comparison of the analysis methods . 76 3.3 Results . 80 3.4 Discussion and conclusions . 86 4 Analysis of experimental data 92 4.1 Methods . 92 i 4.2 Results . 109 4.3 Discussion and conclusions . 124 5 The effect of sampling frequency 132 5.1 Background and methods . 133 5.2 Stationary distributions . 136 5.3 Simulation study of dynamic distributions . 140 5.4 Analytic study of dynamic distributions . 149 5.5 Discussion and conclusions . 159 6 Modelling the effect of Brownian buffeting on motile bacteria 162 6.1 Background . 163 6.2 Mathematical methods . 166 6.3 A model of rotational diffusion in bacterial motility . 173 6.4 Results . 183 6.5 Discussion and conclusion . -
The Behavior of Fishes by Antonios Pappantoniou
The Behavior of Fishes by Antonios Pappantoniou I. A GENERAL OVERVIEW OF FISH BEHAVIOR This article is the first in a series of articles on the behavior of North American freshwater fishes. Althou~h this first ~rticle will not stress any species in particular, each !~ture article will focus on the behavior of a single species or group of closely related fishes. It is the intent of the articles to supply the readers with a knowledge of fish behavior so that they may better understand and enjoy their aquarium fishes. The articles will draw on information from the scien tific literat~re and the authors' own observations. The behavior of fishes is very much dictated by their environment. Two factors, temperature and light, are probably the most critical environmental factors control ling fish behavior. Fish are classed as ectothermic animals. Ectothermic means they must rely on outside sources of he~r. to maintain their body temperature. Temperature governs biochemical and physiological activities which in turn control fish behavior. The preferred te~perature of fish varies with the species. Fish species adapted to swift-flowing streams prefer cooler temperatures than those species adapted to life in a small pond. Temperatures may fluctuate on a daily or seasonal basis. Daily fluctuations, especially in the s~~er months, can cause onshore - offshore movements in species of lake fish. Seasonal changes in temperature are partly responsible for initiati~g physiological changes which lead to reproductive activity in fish. Light is the other critical environmental factor controlling fish behavior. 1 fish may be diurnal. Such a fish would be active during the day. -
Chapter 51 Animal Behavior
Chapter 51 Animal Behavior Lecture Outline Overview: Shall We Dance? • Red-crowned cranes (Grus japonensis) gather in groups to dance, prance, stretch, bow, and leap. They grab bits of plants, sticks, and feathers with their bills and toss them into the air. • How does a crane decide that it is time to dance? In fact, why does it dance at all? • Animal behavior is based on physiological systems and processes. • An individual behavior is an action carried out by the muscular or hormonal system under the control of the nervous system in response to a stimulus. • Behavior contributes to homeostasis; an animal must acquire nutrients for digestion and find a partner for sexual reproduction. • All of animal physiology contributes to behavior, while animal behavior influences all of physiology. • Being essential for survival and reproduction, animal behavior is subject to substantial selective pressure during evolution. • Behavioral selection also acts on anatomy because body form and appearance contribute directly to the recognition and communication that underlie many behaviors. Concept 51.1: A discrete sensory input is the stimulus for a wide range of animal behaviors. • An animal’s behavior is the sum of its responses to external and internal stimuli. Classical ethology presaged an evolutionary approach to behavioral biology. • In the mid-20th century, pioneering behavioral biologists developed the discipline of ethology, the scientific study of how animals behave in their natural environments. • Niko Tinbergen, of the Netherlands, suggested four questions that must be answered to fully understand any behavior. 1. What stimulus elicits the behavior, and what physiological mechanisms mediate the response? 2. -
AP Biology Lab 11: Roly Poly Enhanced Interrogation Animal
AP Biology Lab 11: Roly Poly Enhanced Interrogation Animal Behavior1 Overview In this lab you will observe the behavior of pill bugs and design an experiment to investigate their responses to environmental variables. Objectives Before doing this lab you should understand: 1. The concept of distribution of organisms in a resource gradient, and 2. The difference between kinesis and taxis. After doing this lab you should be able to: 1. describe some aspects of animal behavior, such as orientational behavior, agonistic behavior, dominance display, or mating behavior, and 2. Understand the adaptiveness of the behaviors you studied. 3. How to quantitively analyze your results using chi-square. Introduction Ethology is the study of animal behavior. Behavior is an animal’s response to sensory input and falls into two basic categories: learned and innate (inherited). Orientation behaviors place the animal in its most favorable environment. In taxis, the animal moves toward or away from a stimulus. Taxis are often exhibited when the stimulus is light, heat, moisture, sound, or chemicals. Kinesis is a movement that is random and does not result in orientation with respect to a stimulus. If an organism responds to bright light by moving away, that is taxis. If an organism responds to bright light by random movements in all directions, that is kinesis. Agonistic behavior is exhibited when animals respond to each other by aggressive or submissive responses. Often the agonistic behavior is simply a display that makes the organism look big or threatening. It is sometimes studied in the laboratory with Bettas (Siamese fighting fish). Mating behaviors may involve a complex series of activities that facilitate finding, courting, and mating with a member of the same species. -
Metabolism-Dependent Taxis and Control of Motility in Pseudomonas Putida
Metabolism-dependent taxis and control of motility in Pseudomonas putida Sofia Österberg Department of Molecular Biology Umeå University Umeå 2013 This work is protected by the Swedish Copyright Legislation (Act 1960:729) ISBN: 978-91-7459-563-5 Cover picture: Electron microscopy image of Pseudomonas putida KT2440 Electronic version available at http://umu.diva-portal.org/ Printed by: Department of Chemistry Printing Service, Umeå University Umeå, Sweden 2013 Till min familj CONTENTS CONTENTS .................................................................................................. I ABSTRACT................................................................................................ III ABBREVIATIONS ....................................................................................... IV LIST OF PUBLICATIONS .............................................................................. V SAMMANFATTNING PÅ SVENSKA .............................................................. VI 1. INTRODUCTION .................................................................................. 1 1.1 BACTERIAL ADAPTATION ........................................................................ 1 1.2 BACTERIAL TRANSCRIPTION .................................................................... 1 1.2.1 RNA polymerase – the molecular machinery ................................. 1 1.2.2 σ-factors – the specificity components ......................................... 2 1.2.3 The transcriptional process from start to finish ............................ -
Planarian Behavior: a Student-Designed Laboratory Exercise
Planarian Behavior: A Student-Designed Laboratory Exercise Linda T. Collins and Brent W. Harker Department of Biological and Environmental Sciences University of Tennessee at Chattanooga Chattanooga, TN 37403 [email protected] Reprinted From: Collins, L. T. and B. W. Harker. 1999. Planarian behavior: A student-designed laboratory exercise. Pages 375-379, in Tested studies for laboratory teaching, Volume 20 (S. J. Karcher, Editor). Proceedings of the 20th Workshop/Conference of the Association for Biology Laboratory Education (ABLE), 399 pages. - Copyright policy: http://www.zoo.utoronto.ca/able/volumes/copyright.htm Although the laboratory exercises in ABLE proceedings volumes have been tested and due consideration has been given to safety, individuals performing these exercises must assume all responsibility for risk. The Association for Biology Laboratory Education (ABLE) disclaims any liability with regards to safety in connection with the use of the exercises in its proceedings volumes. © Linda T. Collins and Brent W. Harker Objectives 1. Know that different types of stimuli can affect planarian movement. 2. Distinguish between kinesis and taxis. 3. After preliminary observations, state a hypothesis to predict or explain planarian movement in response to an external stimulus. Test the hypothesis and reach a conclusion. Introduction Planarians are in the flatworm phylum, Platyhelminthes. Most planarians are free-living and are common in freshwater habitats. They are also found in marine and terrestrial environments. Planarians display bilateral symmetry, meaning the right and left halves are approximately mirror images of each other. The nervous system of planarians consists of an anterior “brain” consisting of large ganglia. Two ventral nerve cords run the length of the body from the ganglia. -
Proquest Dissertations
INFORMATION TO USERS This manuscript has been reproduced from the microfihn master. UMI films the text directly from the original or copy submitted. Thus, some thesis and dissertation copies are in typewriter face, while others may be from any type of computer printer. The quality of this reproduction is dependent upon the quality of the copy submitted. Broken or indistinct print, colored or poor quality illustrations and photographs, print bleedthrough, substandard margins, and improper alignment can adversely affect reproduction. In the unlikely event that the author did not send UMI a complete manuscript and there are missing pages, these will be noted. Also, if unauthorized copyright material had to be removed, a note will indicate the deletion. Oversize materials (e.g., maps, drawings, charts) are reproduced by sectioning the original, beginning at the upper left-hand comer and continuing from left to right in equal sections with small overlaps. Each original is also photographed in one exposure and is included in reduced form at the back of the book. Photographs included in the original manuscript have been reproduced xerographically in this copy. Higher quality 6” x 9” black and white photographic prints are available for any photographs or illustrations appearing in this copy for an additional charge. Contact UMI directly to order. UMI A Bell & Howell Information Company 300 North Zeeb Road, Ann Arbor MI 48106-1346 USA 313/761-4700 800/521-0600 STARVATION-INDUCED CHANGES IN MOTILITY AND SPONTANEOUS SWITCHING TO FASTER SWARMING BEHAVIOR OF SINORHIZOBIUM MELILOTI DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree of Doctor of Philosophy in the Graduate School at The Ohio State University By Xueming Wei. -
Phenomenlogical Modeling of Durotaxis
Phenomenlogical Modeling of Durotaxis Guangyuan Yu1;2, Jingchen Feng2, Haoran Man1,Herbert Levine2;3 1 Physics and Astronomy Department, Rice University, Houston, USA 2 Center for Theoretical Biological Physics, Rice University, Houston, USA 3 Bioengineering Department, Rice University, Houston, USA (Dated: February 23, 2017) Cells exhibit qualitatively different behaviors on substrates with different rigidities. The fact that cells are more polarized on the stiffer substrate motivates us to construct a two-dimensional cell with the distribution of focal adhesions dependent on substrate rigidities. This distribution affects the forces exerted by the cell and thereby determines its motion. Our model reproduces the experimental observation that the persistence time is higher on the stiffer substrate. This stiffness dependent persistence will lead to durotaxis, the preference in moving towards stiffer substrates. This propensity is characterized by the durotaxis index first defined in experiments. We derive and validate a 2D corresponding Fokker-Planck equation associated with our model. Our approach highlights the possible role of the focal adhesion arrangement in durotaxis. Cells are capable of sensing and responding to the me- sense a stiffer substrate, they take on a more elongated chanical properties of their external environment. For shape [25, 26] as a response. Now, cells move by protru- example, cytoskeletal stiffness [1], cellular differentia- sion which occurs with the help of focal adhesions which tion [2–5] and cell morphology and motility [6–8] are all allow force transmission to the substrate. We will assume strongly influenced by ECM stiffness. In particular, it that the change in shape to being more polarized implies has been shown experimentally that cells prefer crawl- that focal adhesions (FA) are formed within a narrower ing towards the stiffer parts on substrates with spatially wedge on the cell front. -
Thermotaxis Ofdictyostelium Discoideum Amoebae and Its Possible Role in Pseudoplasmodial Thermotaxis
Proc. Natl. Acad. Sci. USA Vol. 80, pp. 5646-5649, September 1983 Developmental Biology Thermotaxis of Dictyostelium discoideum amoebae and its possible role in pseudoplasmodial thermotaxis (temperature/sensory transduction/slime mold) CHOO B. HONG*, DONNA R. FONTANAt, AND KENNETH L. POFFt Michigan State University-Department of Energy, Plant Research Laboratory, -Michigan State University, East Lansing, Michigan 48824 Communicated byJ. T. Bonner, June 6, 1983 ABSTRACT Thermotaxis by individual amoebae of Dictyo- bae. For example, the amoebae respond to cyclic AMP and fo- stelium discoideum on a temperature gradient is described. These late, whereas the multicellular pseudoplasmodia do not, and amoebae showpositive thermotaxis attemperatures between 14°C the action spectra for phototaxis by the amoebae substantially and 28WC shortly (3 hr) after food depletion. Increasing time on the differ from those for phototaxis by the pseudoplasmodia, sug- gradient reduces the positive thermotactic response at the lower gesting different photoreceptor pigments regulating the re- temperature gradients (midpoint temperatures of 14, 16, and 18°C), sponses to light. and amoebae show an apparent negative thermotactic response Thermotaxis by the pseudoplasmodia has been knownfor many after 12 hr on the gradient. The thermotaxis response curve for years (8). The characteristics of this response include (i) a very "wild-type" amoebae after 16 hr on the gradient is similar to that high sensitivity (response to less than 0.0005'C across an in- shown for the pseudoplasmodia. Growth of the amoebae at a dif- and a relatively narrow temper- ferent temperature causes a shift in the thermotaxis response curve dividual pseudoplasmodium) for the amoebae. This adaptation is similar to that shown for the ature range across which the response is given, (ii) negative pseudoplasmodia. -
Coupling Metabolism and Chemotaxis-Dependent Behaviours by Energy Taxis Receptors
University of Tennessee, Knoxville TRACE: Tennessee Research and Creative Exchange Microbiology Publications and Other Works Microbiology 6-2010 Coupling metabolism and chemotaxis-dependent behaviours by energy taxis receptors Gladys Alexandre University of Tennessee, Knoxville, [email protected] Follow this and additional works at: https://trace.tennessee.edu/utk_micrpubs Part of the Microbiology Commons Recommended Citation Alexandre, G. (2010). Coupling metabolism and chemotaxis-dependent behaviours by energy taxis receptors. Microbiology, 156(8), 2283-2293. This Article is brought to you for free and open access by the Microbiology at TRACE: Tennessee Research and Creative Exchange. It has been accepted for inclusion in Microbiology Publications and Other Works by an authorized administrator of TRACE: Tennessee Research and Creative Exchange. For more information, please contact [email protected]. Microbiology (2010), 156, 2283–2293 DOI 10.1099/mic.0.039214-0 Review Coupling metabolism and chemotaxis-dependent behaviours by energy taxis receptors Gladys Alexandre Correspondence Department of Biochemistry, Cellular and Molecular Biology, The University of Tennessee, Gladys Alexandre 1414 W. Cumberland Ave, Knoxville, TN 37996, USA [email protected] Bacteria have evolved the ability to monitor changes in various physico-chemical parameters and to adapt their physiology and metabolism by implementing appropriate cellular responses to these changes. Energy taxis is a metabolism-dependent form of taxis and is the directed movement of motile bacteria in gradients of physico-chemical parameters that affect metabolism. Energy taxis has been described in diverse bacterial species and several dedicated energy sensors have been identified. The molecular mechanism of energy taxis has not been studied in as much detail as chemotaxis, but experimental evidence indicates that this behaviour differs from metabolism- independent taxis only by the presence of dedicated energy taxis receptors.