Regenesis (44 page)

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Authors: George M. Church

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CHAPTER 1

Amitābha Sūtra

Genesis 22:17

Brock, William H.
The Norton History of Chemistry
. New York: Norton, 1992.

Web

en.wikipedia.org/wiki/Hadean

“Transplant Jaw Made by 3D Printer Claimed As First” BBC News, February 6, 2012.
bbc.co.uk/news/technology-16907104

CHAPTER 2

Burgess, Jeremy, et al.
Under the Microscope
. Cambridge: Cambridge University Press, 1990.

Cook-Deegan, Robert.
The Gene Wars
. New York: Norton, 1994.

Duve, Christian de.
A Guided Tour of the Living Cell
. 2 vols. New York: Scientific American Books, 1984.

Forster, Anthony C., and George M. Church. “Towards Synthesis of a Minimal Cell.”
Molecular Systems Biology
2 (2006), 45.

Gibson, Daniel G., et al. “Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome.”
Science Express
, May 20, 2010, 10.

Gibson, Daniel G., et al. “Complete Chemical Synthesis, Assembly, and Cloning of a
Mycoplasma genitalium
Genome.”
Science
, February 29, 2008, 1215–1220.

Glass, John L., et al. “Essential Genes of a Minimal Bacterium.”
PNAS
, January 10, 2006, 425–430.

Goodsell, David S.
The Machinery of Life
. New York: Springer-Verlag, 1993.

Jeon, K. W., et al. “Reassembly of Living Cells from Dissociated Components.”
Science
, March 20, 1970, 1626–1627.

Lartigue, Carole. “Creating Bacterial Strains from Genomes That Have Been Cloned and Engineered in Yeast.”
Science
, September 26, 2009, 1693–1696.

Nagel, Thomas. “What Is It Like to Be a Bat?”
Philosophical Review
, October 1974, 435–450.
organizations.utep.edu/Portals/1475/nagel_bat.pdf
.

Russo, Eugene. “The Birth of Biotechnology.”
Nature
, January 23, 2003, 456–457.

Web

en.wikipedia.org/wiki/Archean

CHAPTER 3

Blight, Keril J., et al. “Efficient Initiation of HCV RNA Replication in Cell Culture.”
Science
, December 8, 2000, 1972–1974.

Cello, Jeronimo, et al. “Chemical Synthesis of Poliovirus
cDNA:
Generation of Infectious Virus in the Absence of Natural Template.”
Science
, August 9, 2002, 1016–1018.

deMagalhaes, J. P., et al. “A Proposal to Sequence Genomes of Unique Interest for Research on Aging.”
Journal of Gerontology
62A (2007): 583–584.

Douglas, S. M., et al. “Rapid Prototyping of Three-Dimensional DNA-Origami Shapes with caDNAno.”
Nucleic Acids Res
2009. doi:10.1093/nar/gkp436. See also
caDNAno.org
.

Douglas, S. M., I. Bachelet, and G. M. Church. “A Logic-Gated Nanorobot for Targeted Transport of Molecular Payloads.”
Science
335 (2012): 831–834.

Isaacs, Farren J. et al. “Precise Manipulation of Chromosomes In Vivo Enables Genome-Wide Codon Replacement.”
Science
, July 15, 2011, 348–353.

Schrödinger, Erwin.
What Is Life? The Physical Aspect of a Living Cell
. Cambridge: Cambridge University Press, 1945.

Seeman, Nadrian. “Nucleic Acid Junctions and Lattices.”
Journal of Theoretical
Biology
99 (1982): 237–247.

Seluanov, Andrei, et al. “Hypersensitivity to Contact Inhibition Provides a Clue to Cancer Resistance of Naked Mole-Rat.”
PNAS
106, no. 46 (2009): 19352 19357. doi:10.1073/pnas.0905252106.

Smith, Hamilton O., et al. “Generating a Synthetic Genome by Whole Genome Assembly: phiX174 Bacteriophage from Synthetic Oligonucleotides”
PNAS
, December 23, 2003, 15440–15445.

Van Hemert, M. J., et al. “SARS-Coronavirus Replication/Transcription Complexes Are Membrane-Protected and Need a Host Factor for Activity.”
Vitro.PLoS Pathog
4, no. 5 (2008), e1000054. doi:10.1371/journal.ppat .1000054.

Wang, Harris H., et al. “Programming Cells by Multiplex Genome Engineering and Accelerated Evolution.”
Nature
, August 13, 2009, 894–897.

Yu, C., et al. “RNA Sequencing Reveals Differential Expression of Mitochondrial and Oxidation Reduction Genes in the Long-Lived Naked Mole-Rat (
Heterocephalus glaber
) When Compared to Mice.”
PLoS ONE
2011, 6:e26729.

CHAPTER 4

Broad, William J. “Tracing Oil Reserves to Their Tiny Origins.”
New York Times
, August 2, 2010.

Demerjian, Dave. “Aviation Biofuels: More Hype Than Hope?”
wired.com/autopia/2009/01/aviation-bio-fu
.

Glasby, Geoffrey P. “Abiogenic Origin of Hydrocarbons: An Historical Overview.”
Resource Geology
56 (2006): 85–98.

Gold, Thomas. “The Origin of Methane (and Oil) in the Crust of the Earth.” USGS Professional Paper 1570.
The Future of Energy Gases
, 1993.

Ingram, L. O., et al. “Genetic Engineering of Ethanol Production in
Escherichia coli.” Applied and Environmental Microbiology
53 (1987): 2420–2425.

Knothe, Gerhard. “Historical Perspectives on Vegetable Oil-Based Diesel Fuels.”
Inform
12 (2001): 1103–1107.

Naylor, Rosamond L., et al. “The Ripple Effect: Biofuels, Food Security, and the Environment.”
Environment
49 (2007): 31–43.

Page, Lewis.
theregister.co.uk/2008/12/30/oily_kiwi_nut_jet_juice
.

theregister.co.uk/2008/02/25/virgin_747_coconut_yes_algae_no

theregister.co.uk/2009/01/09/algae_airliner_test_success

Robertson, D. E., et al. “A New Dawn for Industrial Photosynthesis”
Photosynth Res
. March 2011, 269–277.

Rosenthal, Elizabeth. “Rush to Use Crops as Fuel Raises Food Prices and Hunger Fears.”
New York Times
, April 6, 2011.

Schirmer, A., et al. “Microbial Biosynthesis of Alkanes.”
Science
, July 2010, 559–562.

Steen, Eric J., et al. “Microbial Production of Fatty-Acid-Derived Fuels and Chemicals from Plant Biomass.”
Nature
, January 28, 2010, 559–563. doi:10.1038/nature08721.

Voosen, Paul. “As Algae Bloom Fades, Photosynthesis Hopes Still Shine.”
New York Times
, March 29, 2011.

Web

aef.org.uk/uploads/Bio_fuelled_or_bio_fooled_article__2_.pdf

en.wikipedia.org/wiki/Carboniferous

econlib.org/library/Bastiat/basEss1.html

getg.com/engineOil.php

jouleunlimited.com

ls9.com

marinecorpstimes.com/news/2010/10/marine-push-for-alternative-fuels-102510

sapphireenergy.com

ucmp.berkeley.edu/carboniferous/carboniferous.php

walmart.com/ip/G-Oil-5W-30-Bio-Synthetic-Motor-Oil-5qt/16928048

CHAPTER 5

Anderson, J. Christopher, et al. “Environmentally Controlled Invasion of Cancer Cells by Engineered Bacteria.”
Journal of Molecular Biology
355 (2006): 619–627.

Clark, William R.
At War Within: The Double-Edged Sword of Immunity
. New York: Oxford University Press, 1995.

Comins, Neil F.
The Hazards of Space Travel
. New York: Villard, 2007.

Gladyshev, Eugene, and Matthew Meselson. “Extreme Resistance of Bdelloid Rotifers to Ionizing Radiation.”
PNAS
, April 1, 2008, 5139–5144.

Hu, William T., et al. “Long-Term Follow-up After Treatment of Rabies with Induction of Coma.”
New England Journal of Medicine
, August 30, 2007, 945–946.

Isaacs, Farren J. et al. “Precise Manipulation of Chromosomes In Vivo Enables Genome-Wide Codon Replacement.”
Science
, July 15, 2011, 348–353.

Johnson, Mark. “Rabies Survivor Jeanna Giese Graduates from College.”
jsonline.com/news/wisconsin/121479779.html
also
jeannagiese.com
.

Lonberg, Nils. “Human Antibodies from Transgenic Animals.”
Nature Biotechnology
, September 2005, 1117–1125.

___________-. Email to Ed Regis, July 7, 2010.

Willoughby, Rodney Jr. Email to Ed Regis, August 31, 2010.

Willoughby, Rodney E. Jr., et al. “Survival After Treatment of Rabies with Induction of Coma.”
New England Journal of Medicine
, June 16, 2005, 2508–2514.

CHAPTER 6

Briggs, Robert, and Thomas J. King. “Transplantation of Living Nuclei from Blastula Cells into Enucleated Frogs' Eggs.”
PNAS
38, 1952: 455–463.

Burbano, Hernán A., et al. “Targeted Investigation of the Neandertal Genome by Array-Based Sequence Capture.”
Science
, May 7, 2010, 723–725.

Folch, J. Email to Ed Regis, August 20, 2010.

Folch, J., et al. “First Birth of an Animal from an Extinct Subspecies (
Capra pyrenaica pyrenaica
) by Cloning.”
Theriogenology
, 2009. doi:10.1016/j.theriogenology.2008.11.005.

Gray, Richard, and Roger Dobson. “Extinct Ibex Is Resurrected by Cloning.”
The Telegraph
, 31 January 2009.

Green, Richard E., et al. “Analysis of One Million Base Pairs of Neanderthal DNA.”
Nature
, November 16, 2006, 330–336.

_______________. “A Draft Sequence of the Neandertal Genome.”
Science
, May 7, 2010, 710–722.

Kolata, Gina.
Clone: The Road to Dolly and the Path Ahead
. New York: William Morrow, 1998.

Kolbert, Elizabeth. “Sleeping with the Enemy.”
New Yorker
, August 15, 2011, 64–75.

Nicholls, Henry. “Darwin 200: Let's Make a Mammoth.”
Nature
456 (2008): 310–314.

Olson, Steve. “Neanderthal Man.”
Smithsonian
, October 2006.

Pääbo, S. “Molecular Cloning of Ancient Egyptian Mummy DNA.”
Nature
314 (1985): 844–845.

Stone, Richard.
Mammoth: The Resurrection of an Ice Age Giant
. Cambridge, MA: Perseus, 2001.

Wade, Nicholas. “Regenerating a Mammoth, for $10 Million.”
New York Times
, November 19, 2008.

Wilmut, I., et al. “Viable Offspring Derived from Fetal and Adult Mammalian Cells.”
Nature
385 (1997): 810–813.

Zimov, Sergey A. “Pleistocene Park: Return of the Mammoth's Ecosystem.”
Science
308 (2005): 796–798.

Zorich, Zack. “Should We Clone Neanderthals?”
Archaeology
, March-April 2010.

Web

en.wikipedia.org/wiki/Pleistocene

en.wikipedia.org/wiki/Neanderthal

CHAPTER 7

Baker, D., et al. “Engineering Life: Building a FAB for Biology.”
Scientific American
, June 2006, 44–51.

Blanchard A., R. J. Kaiser, and L. E. Hood. “High Density Oligonucleotide Arrays”
Biosensors and Bioelectronics
11 (1996): 687–690.

Carroll, Lewis.
Through the Looking-Glass, and What Alice Found There
. 1871.

Shreeve, James.
The Genome War: How Craig Venter Tried to Capture the Code of Life and Save the World
. New York: Knopf, 2004.

Staden, Roger. “A Strategy of DNA Sequencing Employing Computer Programs”
Nucleic Acids Res
. 6 (1979): 2601–2610.

Sulston, John, and Georgina Ferry.
The Common Thread
. Washington, DC: Joseph Henry, 2002.

Web

en.wikipedia.org/wiki/Neolithic

CHAPTER 8

Campbell, A. Malcolm. “Meeting Report: Synthetic Biology Jamboree for Undergraduates.”
Cell Biology Education
4 (2005): 19–23.

Davis, J. “Microvenus.”
Art Journal
55, no. 1 (1996).
www.jstor.org/pss/777811
.

Donnell, David. Emails to Ed Regis, September 14, 2010; October 1, 2010; January 28, 2011.

Elowitz, Michael, and Stan Leibler. “A Synthetic Oscillatory Network of Transcriptional Regulators.”
Nature
403 (2000): 335–338.

Endy, Drew. “Foundations for Engineering Biology.”
Nature
, November 24, 2005, 449–453.

Ferber, Dan. “Microbes Made to Order.”
Science
, January 9, 2004, 158–161.

Gibbs, W. Wayt. “Art as a Form of Life.”
Scientific American
, April 2001, 37–39.

Gustafsson, Claes. “For Anyone Who Ever Said There's No Such Thing as a Poetic Gene.”
Nature
, April 8, 2009, 703.

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