Making Genes, Making Waves: a Social Activist in Science
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My Name Is Michael Mark Gottesman and My Position Is Deputy Director for Intramural Research at the National Institutes of Health
NHGRI: OH_Gottesman_Michael_20111113 1 3/1/16 My name is Michael Mark Gottesman and my position is deputy director for intramural research at the National Institutes of Health. I was born on October 7, 1946 in Jersey City, New Jersey. And when I was around two years old, my family moved to Flushing, Queens, and I had most of my formative years growing up in Flushing. I cannot remember a time when I wasn’t interested in science. Probably the first interaction with issues related to public health was as one of many probably millions of children in the United States who got the Salk vaccine as a -- as a test. I remember lining up, they explained to us that this was a trial, and we all got shots, which was not that much fun for a six-year-old or a seven-year-old. And that was a huge sea change. I remember learning about the fact that before then people got polio, kids got polio. They wandered off to camp, they came back paralyzed. And after that period, we didn’t need to worry about polio. So I had the sense that there was a lot that biomedical research could do to alleviate human disease. The next big event scientifically in my life was the launch of Sputnik in 1957, and it was a wake-up call to the United States. We were so-called “falling behind” in the space race, and I was an eleven-year-old boy who was interested in space science. So I spent my childhood after that making rockets, probably not as safely as it should have been, but no unfortunate accidents befell me. -
Population Dynamics
FOCUS ON BACTERIAL GROWTH EDITORIAL Population dynamics This Focus issue on bacterial growth, highlights the versatility and adaptability with which bacterial cells respond to their environmental and community context. Bacteria have an immense capacity to grow. As men- antagonizing each other; for example, by the secretion of tioned by Megan Bergkessel, David Basta and Dianne toxins or through the type VI secretion system. By con- Newman on page 549, if Escherichia coli were to con- trast, mutualistic clonemates growing next to each other tinue exponential growth, a single bacterial “cell would often cooperate; for example, through the secretion of grow to a population with the mass of the Earth within 2 public goods. days”. However, bacteria rarely encounter perfect growth To regulate cooperative behaviour, bacteria use quo- conditions outside of the laboratory: nutrients are lim- rum sensing, whereby the concentrations of secreted sig- ited, the bacteria have to compete with other cells for nalling molecules inform bacteria about the surrounding resources or they are under attack by other bacterial population density. On page 576, Bonnie Bassler and Kai species, host defences or antimicrobial therapy. Thus, Papenfort review quorum sensing systems in Gram- bacteria have developed a wide variety of mechanisms negative bacteria, highlighting the different signalling that enable them to optimize their growth patterns molecules, receptors and response networks. They also according to the surrounding conditions. This Focus describe the broad effects that quorum sensing can have issue explores factors that influence bacterial growth by not only enabling communication between members dynamics and how bacterial populations respond to of one bacterial species but also between species, gen- them; for example, by forming biofilms and produc- era and even kingdoms; for example, between the gut ing a structured extracellular matrix, by executing microbiota and the mammalian host. -
Real-Time Egg Laying Dynamics in Caenorhabditis Elegans
UNIVERSITY OF CALIFORNIA, IRVINE Real-time egg laying dynamics in Caenorhabditis elegans DISSERTATION submitted in partial satisfaction of the requirements for the degree of DOCTOR OF PHILOSOPHY in Biomedical Engineering by Philip Vijay Thomas Dissertation Committee: Professor Elliot Hui, Chair Professor Olivier Cinquin Professor Abraham Lee 2015 c 2015 Philip Vijay Thomas TABLE OF CONTENTS Page LIST OF FIGURES iv ACKNOWLEDGMENTS v CURRICULUM VITAE vi ABSTRACT OF THE DISSERTATION viii 1 Introduction and motivation 1 1.1 The impact of C. elegans in aging and lifespan studies along with current limitations . 1 1.2 Starvation and its effect on worms . 4 1.3 Microfabricated systems for C. elegans biology . 5 2 Real-time C. elegans embryo cytometry to study reproductive aging 7 2.1 High capacity low-weight passive bubble trap . 8 2.2 Microfluidic device layout . 10 2.3 Tuning habitat exit sizes to flush out embryos while retaining worms . 11 2.4 Equal flow resistance to make identical habitats . 12 2.5 Video enumeration of eggs . 13 2.6 Switching between discrete and continuously varying media concentrations . 15 3 Optimizing worm health in C. elegans microfluidics 17 3.1 E. coli densities of 1010 cells/mL maintain egg-laying in liquid worm culture 18 3.2 E. coli biofilms in devices . 19 3.3 Amino acid addition to S-media, γ irradiation of bacteria, and elevated syringe temperatures are ineffective in reducing biofilms in devices . 20 3.4 Use of a curli major subunit deletion strain significantly reduces biofilm in S-media . 23 4 Conclusions and future directions 26 Bibliography 30 ii A Appendix Title 41 A.1 Methods . -
JOURNAL of BACTERIOLOGY Volume 145 Contents for January 1981 Numberl
JOURNAL OF BACTERIOLOGY Volume 145 Contents for January 1981 Numberl Morphology and Ultrastructure Structure of the Heptose Region of Lipopolysaccharides from Rho- dospirillum tenue. JOANNA RADZIEJEWSKA-LEBRECHT, U. FEIGE, H. MAYER,* AND J. WECKESSER ...... .............. 138-144 Regulation ofPolarMorphogenesis in Caulobactercrescentus. AKIo FUKUDA,* MAKOTO ASADA, SHIGEO KOYASU, HIDEYA YOSHIDA, KATSUYUKI YAGINUMA, AND YOSHI OKADA ..... ............ 559-572 Isolation and Electron Microscopic Observations of Intracyto- plasmic Inclusions Containing Chlamydia psittaci. AKIRA MATSUMOTO ............................................. 605-612 Isolation and Properties ofPiil from Spores ofBacillus cereus. JOHN P. DEsROSIER AND J. CANO LARA* ....... .................. 613-619 General Microbiology Lectin, a Possible Basis for Symbiosis Between Bacteria and Sponges. WERNER E. G. MULLER,* RUDOLF K. ZAHN, BRANDO KURELEC, CEDOMIL Lucu, ISABEL MULLER, AND GERD UHLENBRUCK ............................................ 548-558 Quantitation of Bacillus subtilis L-Form Growth Parameters in Batch Culture. RICHARD W. GILPIN,* SUZANNE K. PATTER- SON, AND RALPH A. KNIGHT ............................... 651-653 Plant Microbiology Elaboration of Cellulose Fibrils by Agrobacterium tumefaciens Dur- ing Attachment to Carrot Cells. ANN G. MATTHYSSE,* KATH- RYN V. HOLMES, AND ROBIN H. G. GURLITZ ..... ............ 583-595 Genetics and Molecular Biology Methyl-Accepting Chemotaxis Protein III and Transducer Gene trg. GERALD L. HAZELBAUER,* PETER ENGSTROM, AND SHI- GEAKI HARAYAMA .................. ... ... 43-49 Stringent Response of Bacillus stearothermophilus: Evidence for the Existence of Two Distinct Guanosine 3',5'-Polyphosphate Synthetases. SUSANNE FEHR AND DIETMAR RICHTER* ...... 68-73 Plasmid Transfer and Genetic Recombination by Protoplast Fusion in Staphylococci. F. GOTz, S. AHRNE, AND M. LINDBERG* ... 74-81 Naturally Occurring Macrolide-Lincosamide-Streptogramin B Re- sistance in Bacillus licheniformis. A. DOCHERTY, G. GRANDI, R. GRANDI, T. J. GRYCZAN, A. G. -
Bacteria Podcast.Pages
podcasts Encyclopedia of Life eol.org Bacteria Podcast and Scientist Interview Bacillus subtilis Roberto Kolter of Harvard explains the relationship between one bacterium, Bacillus subtilis, and the majestic trees outside his office windows at Harvard Medical School. There’s a lot going on, down among the roots. Transcript Ari: From the Encyclopedia of Life, this is One Species at a Time. I’m Ari Daniel Shapiro. Over the last few years, we’ve created more than 60 episodes for this series. But there’s one group we’ve neglected – the bacteria. Kolter: The most spectacular aspect of life on the planet Earth is the stuff we don’t see! Ari: Roberto Kolter is a bacteria fanatic. He’s a microbiologist, after all. Ari: Kolter lifts the blinds of one of his office windows at the Harvard Medical School. He looks outside, and he says everything he sees – depends on bacteria. The people bundled up on the street below rely on the bacteria in their guts to digest their food. There’s the dirt… Kolter: A lot of that soil is actually produced by bacterial activity. Ari: Even the trees dotting the landscape. Kolter: Without the microbes, none of those trees would make it. Ari: And it’s this last point – that most plants really benefit from a remarkable relationship with bacteria – that Kolter’s especially interested in. To explain, let’s focus on a particular bacteria – a tiny rod-shaped cell called Bacillus subtilis. This little guy is everywhere on the planet. Kolter: Glaciers in Alaska, deserts in Africa, swamps in South America – just to mention a few. -
Thesis Submitted for the Degree of Doctor of Philosophy
University of Bath PHD An investigation into the strength and thickness of biofouling deposits to optimise chemical, water and energy use in industrial process cleaning Peck, Oliver Award date: 2017 Awarding institution: University of Bath Link to publication Alternative formats If you require this document in an alternative format, please contact: [email protected] General rights Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. • Users may download and print one copy of any publication from the public portal for the purpose of private study or research. • You may not further distribute the material or use it for any profit-making activity or commercial gain • You may freely distribute the URL identifying the publication in the public portal ? Take down policy If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim. Download date: 07. Oct. 2021 An investigation into the strength and thickness of biofouling deposits to optimise chemical, water and energy use in industrial process cleaning Oliver Philip Wayland Peck A thesis submitted for the degree of Doctor of Philosophy University of Bath Department of Chemical Engineering March 2017 COPYRIGHT Attention is drawn to the fact that copyright of this thesis/portfolio rests with the author and copyright of any previously published materials included may rest with third parties. -
Perspectives
Copyright Ó 2009 by the Genetics Society of America DOI: 10.1534/genetics.109.110007 Perspectives Anecdotal, Historical and Critical Commentaries on Genetics Letting Escherichia coli Teach Me About Genome Engineering James A. Shapiro1 Department of Biochemistry and Molecular Biology, University of Chicago, Gordon Center for Integrative Science, Chicago, Illinois 60637 ABSTRACT A career of following unplanned observations has serendipitously led to a deep appreciation of the capacity that bacterial cells have for restructuring their genomes in a biologically responsive manner. Routine characterization of spontaneous mutations in the gal operon guided the discovery that bacteria transpose DNA segments into new genome sites. A failed project to fuse l sequences to a lacZ reporter ultimately made it possible to demonstrate how readily Escherichia coli generated rearrangements necessary for in vivo cloning of chromosomal fragments into phage genomes. Thinking about the molecular mechanism of IS1 and phage Mu-transposition unexpectedly clarified how transposable elements mediate large-scale rearrangements of the bacterial genome. Following up on lab lore about long delays needed to obtain Mu-mediated lacZ protein fusions revealed a striking connection between physiological stress and activation of DNA rearrangement functions. Examining the fate of Mudlac DNA in sectored colonies showed that these same functions are subject to developmental control, like controlling elements in maize. All these experiences confirmed Barbara McClintock’s view that cells frequently respond to stimuli by restructuring their genomes and provided novel insights into the natural genetic engineering processes involved in evolution. HIS article is the reminiscence of a bacterial genet- The worlds of transcriptional regulation beyond simple T icist studying the processes of mutation and DNA repressor–operator models, signal transduction, chro- rearrangements. -
Roberto Kolter Knowing I’M One of the Points,” He Says
CAREERS Dodd chose to shift his research focus elsewhere. “I sometimes found it weird to be in the lab,” he says. He was one of TURNING POINT several patients who had the mutation, yet no symptoms, and so had MRI scans in their lab. “It was weird to see a bar graph, Roberto Kolter knowing I’m one of the points,” he says. The research could be emotionally taxing. “It would feel odd to work on, for example, Roberto Kolter set up his microbiology a mouse with the same genetic mutation laboratory at Harvard Medical School in as me, and wonder if I would respond Boston, Massachusetts, in 1983. Postdocs EINAT SEGEV EINAT similarly,” he says. But he did want to keep worldwide hope to join his lab because of his working on the heart, so he is now a postdoc career-targeted training philosophy, but with studying the cardiac effects of diabetes, a rare exceptions, he brings in only those who disease that his grandfather had. already have a fellowship. SPOTLIGHT SCARS Why do you accept postdocs only if they have The emotional toll can be especially intense their own funding? when media attention forces the scientist I focus on those whom I believe have a fan- into the public eye. Wartman felt the land- tastic chance of getting their own funding as a scape shift after a high-profile piece about principal investigator. I think it’s unfair for me him appeared in the New York Times in 2012. to interview those who have very little chance He is happy that patients find his personal of getting their own funding, considering how perspective helpful, but regrets that the deci- competitive the academic job market is and sion to share his story no longer rests with how important it is to show independence. -
UCLA Electronic Theses and Dissertations
UCLA UCLA Electronic Theses and Dissertations Title Bacterial motility on abiotic surfaces Permalink https://escholarship.org/uc/item/87j0h2w3 Author Gibiansky, Maxsim Publication Date 2013 Peer reviewed|Thesis/dissertation eScholarship.org Powered by the California Digital Library University of California University of California Los Angeles Bacterial motility on abiotic surfaces A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Bioengineering by Maxsim L. Gibiansky 2013 c Copyright by Maxsim L. Gibiansky 2013 Abstract of the Dissertation Bacterial motility on abiotic surfaces by Maxsim L. Gibiansky Doctor of Philosophy in Bioengineering University of California, Los Angeles, 2013 Professor Gerard C. L. Wong, Chair Bacterial biofilms are structured microbial communities which are widespread both in nature and in clinical settings. When organized into a biofilm, bacteria are extremely resistant to many forms of stress, including a greatly heightened antibiotic resistance. In the early stages of biofilm formation on an abiotic sur- face, many bacteria make use of their motility to explore the surface, finding areas of high nutrition or other bacteria to form microcolonies. They use motility ap- pendages, including flagella and type IV pili (TFP), to navigate the near-surface environment and to attach to the surface. Bacterial motility has previously been studied on a large scale, describing collective motility modes involving large ag- gregates of cells such as swarming and twitching. This dissertation provides an in-depth look at bacterial motility at the single-cell level, focusing on Pseudomonas aeruginosa and Myxococcus xanthus, two commonly-studied organisms; in addi- tion, it describes particle tracking algorithms and methodology used to analyze single-bacterium behaviors from flow cell microscopy video. -
Susan Gottesman, Phd National Institutes of Health
Boston Bacterial Meeting 2017 Crystal structure of Hfq in a complex with sRNA, Keynote speaker: RNA binding interfaces highlighted. Modeled using PDB: 4V2S Susan Gottesman, PhD National Institutes of Health Generously sponsored by: 2017 Boston Bacterial Meeting - Schedule and Introduction Thursday June 15 12:00 pm Registration 12:45 pm Opening Remarks I: Bacterial communities Chair: Matthew Ramsey Stephanie High-throughput analysis of targeted mutant libraries reveals new 1:00 pm Shames Legionella pneumophila effector virulence phenotypes Microbial hitchhiking promotes dispersal and colonization of new niches 1:20 pm Tahoura Samad by staphylococci Interactions between species introduce spurious associations in 1:40 pm Rajita Menon microbiome studies: evidence from inflammatory bowel disease The upper respiratory tract commensal Dolosigranulum pigrum inhibits 2:00 pm Silvio Brugger Staphylococcus aureus 2:20 pm Coffee Break II: Morphogenesis Chair: Eddie Geisinger Determining how bacteria regulate their rate of growth at the single- 2:50 pm Yingjie Sun molecule and single-cell levels by super-resolution microscopy Metabolic control of cell morphogenesis: perturbed TCA cycle halts 3:10 pm Irnov Irnov peptidoglycan biosynthesis Membrane remodeling at the division septum by the bacterial actin 3:30 pm Joseph Conti homolog FtsA 3:50 pm Kristin Little A cell envelope stress response system keeps cells in shape 4:10 pm Poster Session I - Science Center (#1-32, 60-66) III: Treatment strategies Chair: Alex Kostic Sebastien 5:30 pm BRACE for resistance: -
Appendix A: Chronology M.J
International Dimensions of Ethics Education in Science and Engineering Case Study Series: Asilomar Conference on Laboratory Precautions Appendix A: Chronology M.J. Peterson Version 1, June 2010 Key Green major developments in scientists’ collective discussions of recombinant DNA research Blue national government regulations of recombinant DNA research Purple international standards relevant to conduct of recombinant DNA research 1950 Further studies confirm double helix structure of DNA 1953 Apr. James Watson and Francis Crick, The Double Helix: A Personal Account of the Discovery of the Structure of DNA, proposing double helix structure of DNA published by Nature. 1960 continued research opens up possibility of creating recombinant DNA (rDNA) by combining genetic material from different organisms to produce offspring with desired traits. 1968-1971 gradual tightening of lab safety standards among researchers working with viruses. This case was created by the International Dimensions of Ethics Education in Science and Engineering (IDEESE) Project at the University of Massachusetts Amherst with support from the National Science Foundation under grant number 0734887. Any opinions, findings, conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. More information about the IDEESE and copies of its modules can be found at http://www.umass.edu/sts/ethics. This case should be cited as: M.J. Peterson. 2010. “Asilomar Conference on Laboratory Precautions When Conducting Recombinant DNA Research.” International Dimensions of Ethics Education in Science and Engineering. Available www.umass.edu/sts/ethics. © 2010 IDEESE Project Appendix A 1969 Dec. Science publishes letter from Jim Shapiro, Jon Beckwith, and Larry Eron of Harvard announcing isolation of a bacterial germ, highlighting it as a first step towards genetic engineering, and warning against government misuse of science. -
18.5 N&V Feature Greenbe#822F58
18.5 N&V Feature Greenbe#822F58 12/5/06 6:34 PM Page 300 Vol 441|18 May 2006 NEWS & VIEWS FEATURE MICROBIAL SCIENCES The superficial life of microbes Roberto Kolter and E. Peter Greenberg The social activities and organization of bacteria are crucial to their ecological success. But it is only in recent years that we have begun to study these secret societies. Most surfaces on this planet teem with micro- and establish a sedentary yet remarkably liquid cultures, which produce homogeneous bial life, creating ecosystems of diverse organ- diverse community (Fig. 1a). These are com- populations of genetically identical cells, isms that flourish in slimy beds of their own munities in the sense that we humans organize growth in biofilms generates a large amount of making. The plaque encrusting our teeth, the ourselves into communities with division of genetic diversity 2. How can a single cell, with a slippery coating on river stones, the gunge labour — as the surface-associated population single genetic complement, give rise to a clogging up water pipes or infected wounds: grows, the biofilm becomes increasingly biofilm population in which the individual cells these are just a few examples of the microbial sophisticated in its activities, with individual are genetically different from one another? The ‘biofilms’ that form anywhere there is a surface cells taking on specific tasks. As a result, simplest explanation may be that in any biofilm, with a little moisture and some nutrients. biofilms can develop intricate architectures; individual cells are stuck in the same place, Although microbes by and large live in such striking mushroom-like structures can bloom attached to their neighbours and the slime that biofilm communities, most of our understand- on submerged surfaces, and aerial projections surrounds them, so their access to nutrients will ing of their physiology stems from experiments sprout from surfaces exposed to the air vary as gradients form within the biofilms using liquid cultures of dispersed, free-swim- (Fig.