Planarian Behavior: a Student-Designed Laboratory Exercise
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Development of Microfluidic Devices to Study Algal Chemotaxis and Long-Term Growth Dynamics" (2016)
Louisiana State University LSU Digital Commons LSU Master's Theses Graduate School 2016 Development of Microfluidic evD ices to Study Algal Chemotaxis and Long-Term Growth Dynamics Benjamin Seth Roberts Louisiana State University and Agricultural and Mechanical College, [email protected] Follow this and additional works at: https://digitalcommons.lsu.edu/gradschool_theses Part of the Chemical Engineering Commons Recommended Citation Roberts, Benjamin Seth, "Development of Microfluidic Devices to Study Algal Chemotaxis and Long-Term Growth Dynamics" (2016). LSU Master's Theses. 4496. https://digitalcommons.lsu.edu/gradschool_theses/4496 This Thesis is brought to you for free and open access by the Graduate School at LSU Digital Commons. It has been accepted for inclusion in LSU Master's Theses by an authorized graduate school editor of LSU Digital Commons. For more information, please contact [email protected]. DEVELOPMENT OF MICROFLUIDIC DEVICES TO STUDY ALGAL CHEMOTAXIS AND LONG-TERM GROWTH DYNAMICS A Thesis Submitted to the Graduate Faculty of the Louisiana State University and Agricultural and Mechanical College in partial fulfillment of the requirements for the degree of Master of Science in The Cain Department of Chemical Engineering by Benjamin S. Roberts B.S., Mississippi State University, 2014 December 2016 TABLE OF CONTENTS ABSTRACT ................................................................................................................................... iii CHAPTER 1. INTRODUCTION ....................................................................................................1 -
1Β IL-12 Receptor Viral Inflammation Are Mediated Through Macrophage
IL-12 p40 Homodimer-Dependent Macrophage Chemotaxis and Respiratory Viral Inflammation Are Mediated through IL-12 Receptor β1 This information is current as of September 24, 2021. Tonya D. Russell, Qingyun Yan, Guangshun Fan, Anthony P. Khalifah, D. Keith Bishop, Steven L. Brody and Michael J. Walter J Immunol 2003; 171:6866-6874; ; doi: 10.4049/jimmunol.171.12.6866 Downloaded from http://www.jimmunol.org/content/171/12/6866 References This article cites 63 articles, 41 of which you can access for free at: http://www.jimmunol.org/ http://www.jimmunol.org/content/171/12/6866.full#ref-list-1 Why The JI? Submit online. • Rapid Reviews! 30 days* from submission to initial decision • No Triage! Every submission reviewed by practicing scientists by guest on September 24, 2021 • Fast Publication! 4 weeks from acceptance to publication *average Subscription Information about subscribing to The Journal of Immunology is online at: http://jimmunol.org/subscription Permissions Submit copyright permission requests at: http://www.aai.org/About/Publications/JI/copyright.html Email Alerts Receive free email-alerts when new articles cite this article. Sign up at: http://jimmunol.org/alerts The Journal of Immunology is published twice each month by The American Association of Immunologists, Inc., 1451 Rockville Pike, Suite 650, Rockville, MD 20852 Copyright © 2003 by The American Association of Immunologists All rights reserved. Print ISSN: 0022-1767 Online ISSN: 1550-6606. The Journal of Immunology IL-12 p40 Homodimer-Dependent Macrophage Chemotaxis and Respiratory Viral Inflammation Are Mediated through IL-12 Receptor 11 Tonya D. Russell,* Qingyun Yan,* Guangshun Fan,* Anthony P. -
Caenorhabditis Elegans Exhibits Positive Gravitaxis
bioRxiv preprint doi: https://doi.org/10.1101/658229; this version posted June 3, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Caenorhabditis elegans Exhibits Positive Gravitaxis 2 Wei-Long Chen1,3, Hungtang Ko1, Han-Sheng Chuang3, Haim H. Bau1, and David Raizen2 3 1. Dept. Mechanical Engineering and Applied Mechanics, University of Pennsylvania, 4 Philadelphia, PA 5 2. Dept. of Neurology, Perelman School of Medicine, University of Pennsylvania, 6 Philadelphia, PA 7 3. Department of Biomedical Engineering, National Cheng Kung University (NCKU), 8 Taiwan 9 10 Abstract 11 Whether or not the micro swimmer Caenorhabditis elegans senses and respond to gravity is 12 unknown. We find that C. elegans aligns its swimming direction with that of the gravity vector 13 (positive gravitaxis). When placed in an aqueous solution that is denser than the animals, they 14 still orient downwards, indicating that non-uniform mass distribution and/or hydrodynamic 15 effects are not responsible for animal’s downward orientation. Paralyzed worms and worms 16 with globally disrupted sensory cilia do not change orientation as they settle in solution, 17 indicating that gravitaxis is an active behavior that requires gravisensation. Other types of 18 sensory driven orientation behaviors cannot explain our observed downward orientation. Like 19 other neural behaviors, the ability to respond to gravity declines with age. Our study establishes 20 gravitaxis in the micro swimmer C. -
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. -
Engineering 3D Systems with Tunable Mechanical Properties to Mimic the Tumor Microenvironment Shalini Raj Unnikandam Veettil Iowa State University
Iowa State University Capstones, Theses and Graduate Theses and Dissertations Dissertations 2018 Engineering 3D systems with tunable mechanical properties to mimic the tumor microenvironment Shalini Raj Unnikandam Veettil Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/etd Part of the Chemical Engineering Commons Recommended Citation Unnikandam Veettil, Shalini Raj, "Engineering 3D systems with tunable mechanical properties to mimic the tumor microenvironment" (2018). Graduate Theses and Dissertations. 17339. https://lib.dr.iastate.edu/etd/17339 This Thesis is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Graduate Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. Engineering 3D systems with tunable mechanical properties to mimic the tumor microenvironment by Shalini Raj Unnikandam Veettil A thesis submitted to the graduate faculty in partial fulfillment of the requirements for the degree of MASTER OF SCIENCE Major: Chemical Engineering Program of Study Committee: Ian C Schneider, Major Professor Kaitlin Bratlie Michael Bartlett The student author, whose presentation of the scholarship herein was approved by the program of study committee, is solely responsible for the content of this thesis. The Graduate College will ensure this thesis is globally accessible and will not permit alterations after a degree is conferred. Iowa State University Ames, Iowa 2018 Copyright © Shalini Raj Unnikandam Veettil, 2018. All rights reserved. ii DEDICATION This thesis is dedicated to my family and friends who have been a great source of support. -
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 . -
Thermotaxis Is a Robust Mechanism for Thermoregulation in Caenorhabditis Elegans Nematodes
12546 • The Journal of Neuroscience, November 19, 2008 • 28(47):12546–12557 Behavioral/Systems/Cognitive Thermotaxis is a Robust Mechanism for Thermoregulation in Caenorhabditis elegans Nematodes Daniel Ramot,1* Bronwyn L. MacInnis,2* Hau-Chen Lee,2 and Miriam B. Goodman1,2 1Program in Neuroscience and 2Department of Molecular and Cellular Physiology, Stanford University, Stanford, California 94305 Many biochemical networks are robust to variations in network or stimulus parameters. Although robustness is considered an important design principle of such networks, it is not known whether this principle also applies to higher-level biological processes such as animal behavior. In thermal gradients, Caenorhabditis elegans uses thermotaxis to bias its movement along the direction of the gradient. Here we develop a detailed, quantitative map of C. elegans thermotaxis and use these data to derive a computational model of thermotaxis in the soil, a natural environment of C. elegans. This computational analysis indicates that thermotaxis enables animals to avoid temperatures at which they cannot reproduce, to limit excursions from their adapted temperature, and to remain relatively close to the surface of the soil, where oxygen is abundant. Furthermore, our analysis reveals that this mechanism is robust to large variations in the parameters governing both worm locomotion and temperature fluctuations in the soil. We suggest that, similar to biochemical networks, animals evolve behavioral strategies that are robust, rather than strategies that rely on fine tuning of specific behavioral parameters. Key words: behavior; C. elegans; temperature; neuroethology; computational models; robustness Introduction model to investigate the ability of thermotaxis to regulate Tb and its robustness to genetic and environmental perturbation. -
Chemotaxis and Chemokinesis of Living and Non-Living Objects
Chemotaxis and chemokinesis of living and non-living objects Jitka Cejkovˇ a´1;2, Silvia Holler1, Nguyen To Quyen2, Christian Kerrigan3, Frantisekˇ Stˇ epˇ anek´ 2, Martin M. Hanczyc1 Abstract One of the fundamental properties of living organisms is the ability to sense and respond to changes in their environment by movement. If a motile cell senses soluble molecules and follows along a concentration gradient to the source, or if it moves away from a source of undesirable chemicals (e.g. repellent, toxin), it is displaying a directional movement called positive or negative chemotaxis, re- spectively. This phenomenon is well-known to biologists and intensively studied in living systems . In contrast chemokinesis is a change in movement due to envi- ronmental input but the resulting movement is non-vectorial and can be considered directionally random. Recently, in the last ten years, few laboratories started to fo- cus on the movement properties of artificial constructs, including the directional movement of non-living objects in chemical gradients. This chapter will focus on chemotaxis and chemokinesis of natural and synthetic systems that may provide chemical platforms for unconventional computing. 1 Cellular movement in biological systems Living cells can physically move through several mechanisms. Due to the length scales of most living cells, viscosity will dominate over inertia. Therefore at such low Reynolds numbers, motion of the cell will require the expenditure of energy. However, some cells rely entirely upon passive flotation and Brownian motion for dispersal. Under the microscope non-motile (and also dead) cells seem to move in a purposeful way, though they may frequently change direction, but this is due to random molecular bombardment of cells by the molecules of the solvent. -
Magnetosensitive Neurons Mediate Geomagnetic Orientation in Caenorhabditis Elegans
RESEARCH ARTICLE elifesciences.org Magnetosensitive neurons mediate geomagnetic orientation in Caenorhabditis elegans Andres´ Vidal-Gadea1†, Kristi Ward1, Celia Beron1, Navid Ghorashian2, Sertan Gokce3, Joshua Russell1, Nicholas Truong1, Adhishri Parikh1, Otilia Gadea1, Adela Ben-Yakar2, Jonathan Pierce-Shimomura1* 1Department of Neuroscience; Center for Brain, Behavior and Evolution; Center for Learning and Memory; Waggoner Center for Alcohol and Addiction Research; Institute of Cell and Molecular Biology, University of Texas at Austin, Austin, United States; 2Department of Mechanical Engineering, University of Texas at Austin, Austin, United States; 3Department of Electrical Engineering, University of Texas at Austin, Austin, United States Abstract Many organisms spanning from bacteria to mammals orient to the earth’s magnetic field. For a few animals, central neurons responsive to earth-strength magnetic fields have been identified; however, magnetosensory neurons have yet to be identified in any animal. We show that the nematode Caenorhabditis elegans orients to the earth’s magnetic field during vertical burrowing migrations. Well-fed worms migrated up, while starved worms migrated down. Populations isolated from around the world, migrated at angles to the magnetic vector that would optimize vertical translation in their native soil, with northern- and southern-hemisphere worms displaying opposite migratory preferences. Magnetic orientation and vertical migrations required the TAX-4 cyclic nucleotide-gated ion channel in the AFD sensory neuron pair. Calcium imaging showed that these *For correspondence: jonps@ neurons respond to magnetic fields even without synaptic input. C. elegans may have adapted austin.utexas.edu magnetic orientation to simplify their vertical burrowing migration by reducing the orientation Present address: †School of task from three dimensions to one. -
Phototactic Purple Bacteria Extinction Or Miscalculation?
SCIENTIFIC CORRESPONDENCE the light source through the gradient of Phototactic purple decreasing light intensity; on the other Extinction or hand, if their movement is scotophobic, bacteria the colony should move in the opposite miscalculation? direction. R. centenum swarm colonies SIR - In 1883 T. Engelmann! discovered irradiated laterally with infrared light in SIR - Heywood et al. I have discussed that purple photosynthetic bacteria re fact moved rapidly towards the light uncertainties in modelling rates. One way verse their swimming direction when the source, as for positive phototaxis. to check a predictive model's validity is to light intensity is suddenly reduced. He Anoxygenic photosynthetic bacteria see how well it predicts past events. In this described this photosensory effect as and the oxygenic cyanobacteria and algae case, the species-area relation model does "Schreckbewegung" ('movement of share several similar physiological re fairly well in predicting the number of fright'), but it is more properly designated quirements, so it is not surprising that bird and mammal extinctions during the as a scotophobic response, past 500 years in the United States and that is, a fear of darkness. a Canada .. Scotophobic behaviour is Time (min) Infrared Here I consider species extirpated fol typical of motile purple bac lowing habitat destruction initiated by 2 teria, is independent of the o Europeans in North America , combined direction of illumination, with currently endangered or threatened 3 and does not occur if the 30 species , to check if species loss is con light intensity is reduced ..'Q" gruent with habitat loss. Although exact only gradually. By contrast, 60 figures are difficult to come by, I take as oxygenic cyanobacteria and 20% the amount of land removed from algae exhibit phototactic re- 120 native North American mammal and bird 4 sponses, that is, oriented habitats . -
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.