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AllTech McCauley Dig Bio 2015 05 v9

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Raymond McCauley

on 8 July 2016

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Transcript of AllTech McCauley Dig Bio 2015 05 v9

DNA
Sequencing
+1-650-776-4561
for your attention
raymond@singularityu.org
Raymond McCauley
biochemistry
biophysics
electrical engineering
computer science
bioinformatics
nanotechnology
genetic engineering
DNA sequencing
personalized health
DISCLAIMER
These are my opinions and are not intended to reflect the views of any group or organization with which I may be affiliated.
Exponential Biosciences
systems
biology
past:
Biotech Chair: Singularity U
Co-Founder: Playtpus Project
Co-Founder & Chief Architect: BioCurious
Principal: Exponential Biosciences

Current Research Areas:
Personal Genomics
Therapeutic Genetic Engineering
Low Cost Access to Biotech Tools
Cancer Dx and Treatment
Singularity
University
Raymond McCauley
@raymondmccauley
Thank you
Raymond McCauley
Digital Biology:
Life is the New Black
raymond@singularityu.org
@raymondmccauley
+1-650-776-4561
Disruption
is never
Expected
Food
example: Okanagan Fruit Specialties
Not multinational, but family startup
Not implanted, but adjusted
Not labeled, but branded
Disruption
Mother (Nature)
Biotech
or
is the
of all
2020
=
+
2001
=
ApE = A Plasmid Editor
Rise of the
Biotech
Garage
Inventor
bioprinter project
OpenPCR
$599 DNA Copy Machine
+
Biohacking
Cow-Free
Milk & Cheese
Genetic
Engineering
Software Development
=
The
small
future
is
Microbial
Nation
Bacterial Reservoir
Eat ammonia
Eliminate smell
Crowd out
tinea pedis
Keep feet healthy
Peter DiLaura, CEO
Practical Advice
Use antibiotics wisely
Eat like ancestors
Get a dog
Foundations
ZFPs
TALENs
CRISPR/Cas9
$10000
$5000
$1000
Better, Cheaper, Faster
Genetic Engineering Tools
*
The
future
is
coming
fast
2010: discovered
2011: microbes
2012: plants, animals
2013: human cells, company
2014: patent fight
Drag and Drop
Genetic Engineering
TALENs
Transcription
Activator
Like
Effector
Nucleases
TALENs have modified genes in:
yeast
fruitfly
roundworm
cricket
zebrafish
frog
rat
pig
cow
thale cress
rice
silkworm
human somatic cells
pluripotent stem cells
Nature Reviews Molecular Cell Biology 14, 49-55 (January 2013)
http://www.brc.a-star.edu.sg/index.php?sectionID=12
hijacked from plant bacteria that genetically engineer their host plants
discovered by Bogdanove & Moscou, Iowa State University, in 2009
make double stranded breaks to knock-out and knock-in genes
Clustered
Regularly
Interspaced
Short
Palindromic
Repeats
hijacked prokaryotic immune system mechanism
discovered by Horvath & Barrangou, DuPont/Danisco, in 2010
immunize industrial bacteria
gene silencing in stem cells
CRISPRs
RNA-Guided Human Genome Engineering via Cas9
Prashant Mali, Luhan Yang, Kevin M. Esvelt, John Aach, Marc Guell, James E. DiCarlo, Julie E. Norville, and George M. Church
Science 15 February 2013

Multiplex Genome Engineering Using CRISPR/Cas Systems
Le Cong, F. Ann Ran, David Cox, Shuailiang Lin, Robert Barretto, Naomi Habib, Patrick D. Hsu, Xuebing Wu, Wenyan Jiang, Luciano A. Marraffini, and Feng Zhang
Science 15 February 2013
Academically (for reference)...
Commerically...
$43 million Series A , Nov 2013
Flagship Ventures
Polaris Partners
Third Rock Ventures
Partners Innovation Fund
TALENs
CRISPRs
Basic Research
Always Pays Off
Mitacs Accelerate's research internship program
NRC’s Industrial Research Assistance Program
CRA's Scientific Research and Experimental Development Tax Incentive
Gov't & Industry Cooperation in Canada
Drag & Drop Tools
DNA Synthesis
Lab Automation
Industrial Biology
Systems Biology
TALENs & CRISPRs
Renaissance in
Genetic Engineering
Industry Materials Energy Agriculture Medicine Research
Microbiomes
Genome
Editing
SynBio
& GMOs
Microbiome Roles
Digest food
Synthesize nutrients
Protect against disease
Mood, sleep, eating behavior
Partnership with Mayo Clinic, 7 Oct 2014
inflammatory bowel diseases
metabolic disorders
colorectal cancer
1. Avoid excess sugary foods
2. Good quality sleep
3. Meditation and relaxation
4. Eat fiber
5. Eat natural probiotic foods
6. Consider probiotic supplements
The Gut Microbiome,
Anxiety and Depression:
6 Steps to Take
by Peter Bongiorno, ND, LAc
November 8, 2014
Phage
Therapy
Use viruses to kill bacteria
Specifically targeted
Alternative to wide spectrum antibiotics
Developed in Russia, new Western interest
Image credit: Bacteriophages and Biotechnology
http://www.pharmainfo.net/luckypharmacist/bacteriophages
But not today...
CRISPR/Cas9
is a toolkit for
Genes
and regulatory regions
Knock-out
Knock-in
Repair
Edit
cheap
highly targeted
improvable
bluebird bio
Editas Medicine
GenSight
Lysogene
Spark
uniQure BV
Voyager Therapeutics
and others
Genetic Engineering
Therapeutics
Companies
they work,
everywhere
Genome Editing with CRISPR-Cas9
Animation created by:
McGovern Institute for
Brain Research at MIT,
Feng Zhang, Sputnik Animation
Shaping the oral microbiota
through intimate kissing
Remco Kort, Martien Caspers, Astrid van de Graaf, Wim van Egmond, Bart Keijser and Guus Roeselers
...we investigated the effects of intimate kissing on the oral microbiota of 21 couples by self-administered questionnaires about their past kissing behavior and by the evaluation of tongue and salivary microbiota samples in a controlled kissing experiment...
"
"
17 Nov 2014, in Amsterdam
brings up many questions...
Ag & Food Applications
good preview
of things to come
Biomimetics / Packaging
Nutrigenomics
environmental impact
food security
Hyperlocal Farming
Vertical Farming
hyperorganic, hyperlocal
pesticide & herbicide free
Fiesta Hypermart, Houston, Texas, 1991
10,000+ sq ft hydroponic produce dept
Houston's biggest tourist attraction
Backed by NASA CELSS research group
6 months
700 000 meals sold
$2+M revenues
biodegradable & delicious
protein-based packaging
Bob's, Brazil
just the beginning...
Making Leather and Meat Better
Courtesy Ruby Gadelrab, Invitae
Personalized & Functional Foods
Now, Near, Next
2015
=
Vanillin
$300M
Cocoa
$2.1B
Chocolate
$131.7B
by 2019...
shifting production
global warming, disease
genetic engineering
shifting consumption
Asian markets
production innovation
health benefits
source:
Cocoa & Chocolate Market - Global Trends & Forecasts to 2019.
The Sugarbelt Bioeconomy
What areas of the world will
drive a green bioeconomy?
x
x
Land prices,
Political stability
Water access
Sunlight access
Argentina
Brazil
Uruguay
=
then
Africa
GMOs

3.0
Genetically
Modified
Organisms
better yield
better nutrition
better digestion
drought tolerance
saline soil tolerance
fungus resistance
virus resisitance
Not conglomerate, but family startup
Not implanted genes, but adjusted genes
Not labeled, but branded
Trends: Urbanization, Food Security 3.0
Trends: DNA, Ubi-Sensors
Trends: Disruption, Eco Foods, Food Security 3.0
Consumer acceptance
Food Security 3.0
Yield at Scale
Extraction
Displacement
Artificiality
Voluntary labeling
Market standards
IP & licensing
GMOs
Synthetic
Biology
Digital Agriculture
Issues
2020 - the global population consumes
120 more million tons of meat
220 more million tons of milk
290 more million tons of cereals
2030 - 8 billion people
2050 - 9 billion people
2050 - 2 X milk and meat demand
more food
more feed
less water
less land
less greenhouse gases
=
yogurt = finger food
WikiFood, WikiPearl
Dave Edwards, Harvard bioengineer
color changing flowers
public-friendly, designer-y GE
tools, circadian rhythm & bloom IP
Okanagan Specialty Fruits
E. coli
yeast
algae
Industrial
Microbiology
Trends: Eco Foods, Food Security 3.0
Livestock Genotyping
trait prediction
breed, pedigree, parentage
identification
outbreak traceability
Trends: Eco Foods
In Vivo Fermentation
limit methanogenesis
increase meat yield
biofuels - hydroxylation of methane to methanol
Implications for
ruminant digestion incubator simulator
Citizen Science
& Crowd-Sourced
Metagenomics
Jessica
Richman,
CEO
microbiome hacking
& fecal transplants
Dental Microbiome
Clinical Services / CLIA Lab
DNA
Origami
biology
as
nanotechnology
Genus PLC
Jerry Thompson, COO
David Hunt,
Co-Founder
Trends: Big Data, Ubi-Sensors, Robotics, DNA, Microbiomics
For a copy of these slides,
biohacking resources for kids,
or other inquiries, email
raymond@singularityu.org
Subject:
Alltech & Digital Biology

Digitizing Agriculture
In Summary...
Democratization
of
Biotechnology
How fast can you get to
"Hello World"
with 2 guys & a laptop in a garage?
A hackerspace for biotech

First biohacker lab in the world

Committed to making biotech
accessible, affordable, and open to everyone

Located in Sunnyvale, California

501c3 all-volunteer community lab, supported by monthly memberships and classes
Let's do that for biotech!
We teach
classes...
We mentor the
next generation
of scientists
and technologists
We support inventors
and entrepreneurs
We build
community
BioCurious/FBI
Joint Conference on
Biohacking
June 12-16, 2012
More tools in more hands
=
More Breakthroughs
We are
everywhere
...
currently tracking
23 community labs
200+ individual labs
on 6 continents
You let
kids go hands-on
with blowtorches?!?
Why, yes!
Yes we do!
5 year old Harlan
makes Calcium burn
red
.
Boston
Paris
San Diego
Seattle
Oakland
Portland
Manchester UK
Biologigaragen
Biospace
Victoria, Canada
Denmark
Switzerland
50+ companies out of BioCurious
Startups & schools copying model
Worldwide hackerspaces
Rise of the
Biotech
Garage
Inventor
Let's do that for biotech!
near-zero capital costs
outsourcing ecosystem
no IP taken
new players
new uses
new markets

BGI/DIY
Shenzhen
BioGarage
Tokyo
Brooklyn
SYNBIO
Brasil
Drag & Drop Tools
DNA Synthesis
Lab Automation
Industrial Biology
Systems Biology
TALENs & CRISPRs
Renaissance in
Digital Biology
Industry Materials Energy Agriculture Medicine Research
2020
=
small
The
future
is
The future is
cheap
The future is
coming
fast
The future is
bringing
Big
Things
The
future
is
Inside
Us
Microbial
Nation
The future is
All Around Us
Please remember this...
Industrial
Microbiology
$200 qPCR
20 min sample prep + readout
Matternet ONE
Acquired by Intrexeon, Feb 2015, $41M
Full transcript