BIOLOGY FOR LIFE
  • Syllabus
    • Core >
      • 1: Cell Biology >
        • 1.1: Introduction to Cells
        • 1.2: Ultrastructure of Cells
        • 1.3: Membrane Structure
        • 1.4: Membrane Transport
        • 1.5: The Origin of Cells
        • 1.6: Cell Division
      • 2: Molecular Biology >
        • 2.1: Molecules to Metabolism
        • 2.2: Water
        • 2.3: Carbohydrates and Lipids
        • 2.4: Proteins
        • 2.5: Enzymes
        • 2.6: DNA and RNA
        • 2.7: DNA Replication, Transcription and Translation
        • 2.8: Cell Respiration
        • 2.9: Photosynthesis
      • 3: Genetics >
        • 3.1: Genes
        • 3.2: Chromosomes
        • 3.3: Meiosis
        • 3.4: Inheritance
        • 3.5: Genetic Modification and Biotechnology
      • 4: Ecology >
        • 4.1: Species, Communities and Ecosystems
        • 4.2: Energy Flow
        • 4.3: Carbon Cycling
        • 4.4: Climate Change
      • 5: Evolution and Biodiversity >
        • 5.1: Evidence for Evolution
        • 5.2: Natural Selection
        • 5.3: Classification and Biodiversity
        • 5.4: Cladistics
      • 6: Human Physiology >
        • 6.1: Digestion and Absorption
        • 6.2: The Blood System
        • 6.3: Defense Against Infectious Disease
        • 6.4: Gas Exchange
        • 6.5: Neurons and Synapses
        • 6.6: Hormones, Homeostasis and Reproduction
    • Higher Level >
      • 7: Nucleic Acids >
        • 7.1: DNA Structure and Replication
        • 7.2: Transcription and Gene Expression
        • 7.3: Translation
      • 8: Metabolism, Cell Respiration & Photosynthesis >
        • 8.1: Metabolism
        • 8.2: Cell Respiration
        • 8.3: Photosynthesis
      • 9: Plant Biology >
        • 9.1: Transport in the Xylem of Plants
        • 9.2: Transport in the Phloem of Plants
        • 9.3: Growth in Plants
        • 9.4: Reproduction in Plants
      • 10: Genetics and Evolution >
        • 10.1: Meiosis
        • 10.2: Inheritance
        • 10.3: Gene Pools and Speciation
      • 11: Animal Physiology >
        • 11.1: Antibody Production and Vaccination
        • 11.2: Movement
        • 11.3: Kidney and Osmoregulation
        • 11.4: Sexual Reproduction
    • Options >
      • D: Human Physiology >
        • D.1: Human Nutrition
        • D.2: Digestion
        • D.3: Functions of the Liver
        • D.4: The Heart
        • D.5: Hormones and Metabolism
        • D.6: Transport of Respiratory Gases
  • IB Requirements
    • Learner Profile
    • Group 4 Project
    • External Exam
    • Internal Assessment >
      • Personal Engagement
      • Exploration
      • Analysis
      • Evaluation
      • Communication
    • Extended Essay
  • Investigation Skills
    • Lab Safety
    • Microscopy
    • Lab Drawings
    • Data Tables
    • Measurement
    • Statistics >
      • Descriptive Statistics >
        • Skew
        • Measures of Central Tendancy
        • Measures of Spread
        • Pearson Correlation
      • Inferential Statistics >
        • T-Test
        • ANOVA
        • Kruskal-Wallis
        • X2 Test for Independence
        • X2 Goodness of Fit
    • Graphing >
      • Graphing with Excel
      • Interpreting Error Bars
    • Error Analysis
  • Course Info
    • Above & Beyond >
      • Biology Club
      • Pumpkin Carving
      • Scavenger Hunt
      • Science News
      • IB Bio Dance
      • Wood Duck Project
      • Invasive Crayfish Project
    • Assessment >
      • Class Grading IB Bio I
      • Class Grading IB Bio II
      • Daily Quizzes
      • WICC Assessment
      • Lab Practicals
    • Assessment Statements
    • Class Photos
    • Recommendations
    • Supplemental Reading
  • Contact
  • About
    • Philosophy
    • Resume
    • Reflection
    • Site Feedback
    • Favorite Quotes
    • AEF Blog
  • Expeditions
    • Bahamas (2009)
    • Trinidad (2010)
    • Trinidad (2011)
    • Ecuador (2012)
    • Trinidad (2013)
    • Peru (2014)
    • Bahamas (2015)
    • Peru (2016)
    • Costa Rica (2017)
    • Costa Rica (2018)
    • Arizona (2022)
  • Summer Ecology Research

Synthetic (or are they artificial) Cells

5/17/2018

 
So few teachers who specialize in a discipline ever have the opportunity for professional development that focuses on the content of the discipline.  For example, I teach biology and I love biology, but until this fellowship year I haven't had the time, money or opportunity to focus on learning more BIOLOGY.  I've been to plenty of conferences and district sessions about how to teach biology, but not had the opportunity to actually focus on advancing my own biological content knowledge.  Now don't get me wrong, I am not suggesting that my biological knowledge hasn't advanced since I graduated with my biology degree nearlytwenty years ago; far from it.  I make a concerted effort to remain up to date in the field.  For example, I am a biology news geek, I am sure to take time daily to read the newest articles about advances and discoveries (which I share on Twitter #ibbio and post to my website topic pages). 

For me, probably the best part of being an Albert Einstein Distinguished Educator Fellow is the opportunities I've had to advance my own biological content knowledge and to witness firsthand the scientific process in action.  I've previously written about a couple of these opportunities. 

This week I was able to attend the Synthetic and Artificial Cells workshop, a gathering of about 25 cell biologists from the USA and Europe who are interested in building an artificial cell or models of cellular processes in order to understand the nature of how cells work and to develop applications such as pharmaceutical drug delivery systems.  As the National Science Foundation deputy director for Biological Science said in the introduction to the workshop, "we've spent decades taking cells apart; now we need to determine how to put it all together."
Picture
A slide capture illustrating the basic science understanding and applications of creating artificial cells.
Some big idea questions can be answered by trying to make synthetic cells (or cell processes ex vivo):
  • Can life emerge?
  • What are the rules of life?
  • How did life begin?
Such big problems will require international collaboration and a cross disciplinary approach.
Picture
Throughout the conference I took lots of notes.  I was especially intrigued the some of the conversations that mimic those held in my classroom.  Questions such as:
  • "What is life?"
  • "Why does life emerge?"
  • "What are the pros and cons of a systems vs reductionist approach?" 
Picture
Picture
There are two main approaches to creating synthetic cells, the "top down" approach and the "bottom up" approach.  Some of the researchers (i.e. Dr. Hutchinson) were focused on one approach while others were focused on the structures and functions of sub-cellular components. 
Picture
Picture
Dr. Eberhard Bodenschatz from the Max Plank Institute providing a European perspective on Synthetic Cells
A highlight of the workshop was hearing from Clyde Hutchison, a well known and respected biologist from the J. Craig Venter  Institute.  Dr. Hutchison discussed his teams progress on creating a minimal bacterial cell which contains only the core machinery for life.  Following a "design --> build --> test" model, the team is systematically removing genes from Mycoplasma bacteria and observing the phenotypic effects on the cells ability to sustain life. They started with a bacteria that contained 901 genes (1079 bp) and by "Syn 3.0" have created a living cell that now has 473 genes (531 bp).  Fascinatingly, the minimal viable cells contains 65 genes that are essential for life but who's function is unknown!  Additionally, the implications of  OMNIGENIC was discussed. The idea of omnigenics is that in reality, no single gene has a single function - there is complexity in the interactions of the genes and gene products. Proof that we still have a lot to learn in biology. ​
Picture
Abstract of the minimal cell paper, published in Science (2016)
Dr. Hutchison was sure to use language to suggest his team had created "A" minimal cell, not "THE" minimal cell.  The genome required of a minimal cell will depend on the medium on which the bacteria is growing.  In other words, a minimal cell genome size for a bacteria grown in one media will be different than the minimal cell genome size for a bacteria grown in another media.  That said, the minimal cell as described by Dr. Hutchison was a big breakthough and will continue to influence the future of the field. 
Picture
The J. Craig Venter Institute is using a "Top Down" approach to building a minimal cell.  All of the other presenters at the workshop were focused on a "Bottom Up" approach in which they were focused on creating synthetic or artificial structures and/or processes of cells. 
Picture
There were scientists who focused on the INFORMATION aspect of a cell (cell-free transcription and translation) and others focused on the SELF-ORGANIZATION (creating artificial cell membranes). 
Dr. Vincent Noireaux (UMN) spoke about his work in developing a cell-free method for gene expression.  

​
Picture
Picture
Dr. Allen Liu (U Michigan) and Henrike Niederholtmeyer (UCSD) independently spoke of their work developing membrane vesicles that can flex, bend and grow like a cell membrane. 
Picture
Picture
One thing I learned was about cellular compartmentalization.  I had learned, and the IB Biology curriculum suggests, that prokaryote cells aren’t compartmentalized.  However, I heard multiple times over the course of this conference about prokaryote compartments (not necessarily membrane bound).  For example, one person said “In prokaryotes, the nucleiod is considered a phase separated compartment.”  I was curious about phase-separation, so I looked it up and found this great summary. 
Picture
Picture
Picture
Throughout the workshop there was a vigorous dialogue between the scientists about the nomenclature around the terms minimum, synthetic and artificial in relation to biology and bio-engineering.  It was clear that I was witnessing the birth of a new scientific discipline.  I summarized a full page of my take aways from the sessions:
Picture
Picture
    Picture

    Author

    I’m Gretel von Bargen and I was an Einstein Fellow in the Department of Energy, Office of Science.  During my fellowship year (2017-2018) I worked within the Workforce Development for Teachers and Scientists (WDTS) office.  Aligned with the goals of the WDTS office, I am committed towards creating a sustained pipeline of skilled science, technology, engineering and math (STEM) workers and teachers. As a dedicated STEM educator, I work to develop my students understanding and appreciation for the nature of science and the natural world.  In addition to the important work I did related to the National Science Bowl, I had three goals for my Fellowship year.  First, I was looking to build relationships and connections between the scientific and education communities, aiming for increased opportunity for high school students to gain authentic experiences with practicing scientists.  Second, I wanted to deepen my understanding of the complexities of the national STEM teacher shortage, specifically exploring the role active classroom teachers play in communicating the joys and challenges of a STEM teaching career.  Third, I was looking to broaden my own scientific content knowledge so that students benefit from an added depth, breadth and interdisciplinary connections in future lessons. 

    Viewpoints are my own and not representative of the Fellowship Program or the agency in which I was placed.  ​​

    Archives

    July 2018
    June 2018
    May 2018
    March 2018
    February 2018
    January 2018
    December 2017
    November 2017
    October 2017
    September 2017
    August 2017

I give many of my IB Biology resources away, for the benefit of students and teachers around the world. 
If you've found the materials helpful, please consider making a contribution of any amount
to 
this Earthwatch Expedition Fund. 

​Did I forget something?  Know of a mistake? Have a suggestion?  Let me know by emailing me here.

Before using any of the files available on this site,
​please familiarize yourself with the 
Creative Commons Attribution License. 
​​​It prohibits the use of any material on this site for commercial  purposes of any kind.  ​


"When we try to pick out anything by itself, we find it hitched to everything else in the Universe." 
 John Muir,   1911
  • Syllabus
    • Core >
      • 1: Cell Biology >
        • 1.1: Introduction to Cells
        • 1.2: Ultrastructure of Cells
        • 1.3: Membrane Structure
        • 1.4: Membrane Transport
        • 1.5: The Origin of Cells
        • 1.6: Cell Division
      • 2: Molecular Biology >
        • 2.1: Molecules to Metabolism
        • 2.2: Water
        • 2.3: Carbohydrates and Lipids
        • 2.4: Proteins
        • 2.5: Enzymes
        • 2.6: DNA and RNA
        • 2.7: DNA Replication, Transcription and Translation
        • 2.8: Cell Respiration
        • 2.9: Photosynthesis
      • 3: Genetics >
        • 3.1: Genes
        • 3.2: Chromosomes
        • 3.3: Meiosis
        • 3.4: Inheritance
        • 3.5: Genetic Modification and Biotechnology
      • 4: Ecology >
        • 4.1: Species, Communities and Ecosystems
        • 4.2: Energy Flow
        • 4.3: Carbon Cycling
        • 4.4: Climate Change
      • 5: Evolution and Biodiversity >
        • 5.1: Evidence for Evolution
        • 5.2: Natural Selection
        • 5.3: Classification and Biodiversity
        • 5.4: Cladistics
      • 6: Human Physiology >
        • 6.1: Digestion and Absorption
        • 6.2: The Blood System
        • 6.3: Defense Against Infectious Disease
        • 6.4: Gas Exchange
        • 6.5: Neurons and Synapses
        • 6.6: Hormones, Homeostasis and Reproduction
    • Higher Level >
      • 7: Nucleic Acids >
        • 7.1: DNA Structure and Replication
        • 7.2: Transcription and Gene Expression
        • 7.3: Translation
      • 8: Metabolism, Cell Respiration & Photosynthesis >
        • 8.1: Metabolism
        • 8.2: Cell Respiration
        • 8.3: Photosynthesis
      • 9: Plant Biology >
        • 9.1: Transport in the Xylem of Plants
        • 9.2: Transport in the Phloem of Plants
        • 9.3: Growth in Plants
        • 9.4: Reproduction in Plants
      • 10: Genetics and Evolution >
        • 10.1: Meiosis
        • 10.2: Inheritance
        • 10.3: Gene Pools and Speciation
      • 11: Animal Physiology >
        • 11.1: Antibody Production and Vaccination
        • 11.2: Movement
        • 11.3: Kidney and Osmoregulation
        • 11.4: Sexual Reproduction
    • Options >
      • D: Human Physiology >
        • D.1: Human Nutrition
        • D.2: Digestion
        • D.3: Functions of the Liver
        • D.4: The Heart
        • D.5: Hormones and Metabolism
        • D.6: Transport of Respiratory Gases
  • IB Requirements
    • Learner Profile
    • Group 4 Project
    • External Exam
    • Internal Assessment >
      • Personal Engagement
      • Exploration
      • Analysis
      • Evaluation
      • Communication
    • Extended Essay
  • Investigation Skills
    • Lab Safety
    • Microscopy
    • Lab Drawings
    • Data Tables
    • Measurement
    • Statistics >
      • Descriptive Statistics >
        • Skew
        • Measures of Central Tendancy
        • Measures of Spread
        • Pearson Correlation
      • Inferential Statistics >
        • T-Test
        • ANOVA
        • Kruskal-Wallis
        • X2 Test for Independence
        • X2 Goodness of Fit
    • Graphing >
      • Graphing with Excel
      • Interpreting Error Bars
    • Error Analysis
  • Course Info
    • Above & Beyond >
      • Biology Club
      • Pumpkin Carving
      • Scavenger Hunt
      • Science News
      • IB Bio Dance
      • Wood Duck Project
      • Invasive Crayfish Project
    • Assessment >
      • Class Grading IB Bio I
      • Class Grading IB Bio II
      • Daily Quizzes
      • WICC Assessment
      • Lab Practicals
    • Assessment Statements
    • Class Photos
    • Recommendations
    • Supplemental Reading
  • Contact
  • About
    • Philosophy
    • Resume
    • Reflection
    • Site Feedback
    • Favorite Quotes
    • AEF Blog
  • Expeditions
    • Bahamas (2009)
    • Trinidad (2010)
    • Trinidad (2011)
    • Ecuador (2012)
    • Trinidad (2013)
    • Peru (2014)
    • Bahamas (2015)
    • Peru (2016)
    • Costa Rica (2017)
    • Costa Rica (2018)
    • Arizona (2022)
  • Summer Ecology Research