Artificial gene synthesis
Institute of Bioorganic Chemistry, NAS of Belarus
Aliaksei Yantsevich, researcher
Yaroslav Dichenko, researcher
EPIGRAPH
DNA is like a computer program
but far, far more advanced than
any software ever created.
- Bill Gates -
What is a GENE
Gene – autonomous module of hereditary information.
Information
DNA (4 types of elements):
A, T, G, C
Realization
Protein (20 types of elements):
G, L, Y, S, E, Q, D, N, F, A,
K, R, H, C, V, P, W, I, M, T
Genetic code properties:
UAA=UUG=CUU=CUC=CUA=CUG=L
What is artificial (synthetic) gene
Synthetic biology –
development of biological systems
with given properties and functions,
which have no analogues in
nature.
Synthetic gene –
DNA sequence, obtained de novo by
a complex of chemical, physical and
enzymatic methods.
Genes application
Artificial genes
for ordinary person???
Stive, but why would an
ordinary person have a
computer.
2017 г.
1976 г.
But for now:
Perhaps,
in 20 years on Mars…
What is the price for a gene
World market
 Equipment for combinatorial chemistry:
• 5.0 million $ (2012 г.)
Oligonucleotides:
• 500 million $ (2006 г.)
• 776 million $ (2010 г.)
Synthetic biology products:
0.6 billion $ (2006 г.)
1.1 billion $ (2010 г.)
1.6 billion $ (2011 г.)
2.4 billion $ (2013 г.)
10.8 billion $ (2016 г.)
Synthetic biology market structure
How to print genes
(DNA-printing)
Oligonucleotides
synthesis
Planning Gene seq. optimization
Gene assemblyGene cloning DNA purification
Gene seq. fragmentation
5' 3'
5'
3'
3'
5'
5'3'
Oligonucleotides
Gene
It would be good to have
Gene Synthesizing Black Box
Episode1
“IHaveAnIdea.”
Episode2
(final)
“IHaveTheGene.”
If it works…
………2021
What is next step?
Lab-On-Chip gene synthesizer
And, finally:
………2025
Current problems
 Last 30 years equipment and software were subjected to
minor changes and this is the reason for synthetic gene
price retention.
 Software to control equipment:
• desk-top programs;
• closely connected to computer architecture;
• unstable work.
 There is no full cycle artificial gene synthesizer on world
market.
Aim of the project
 Development of the prototype for full cycle automatic
artificial gene synthesis system, controlled by cross-
platform web-software.
 Development of first IoSE (Internet of Scientific Equipment)
system
 Subtasks:
• Gene sequence optimization
• Gene sequence fragmentation
• Calculation of synthetic program
• Oligonucleotide synthesis
• Oligonucleotide preparation/purification
• Gene assembly
How to realize prototype:
general structure of system
Hardware
Interface 01
.
.
.
.
.
Deep tuning and
configuration
Hardware
interface 02
Emdedded-computer
1. Control
2. Web-server
3. WIFI hot-spot
REST API
Oligonucleotide synthesis
hardware
(CDS ABI 380)
Additional equipment -
gene synthesis
(solenoid valves, sensors, pumps,
thermostats etc.
Cloud service
1.Gene sequence fragmentation
2.Synthesis optimization
3.Additional calculations
4.Process control
5.System monitoring
Software structure
Module Function
Gene editor Optimization of gene sequences for synthesis.
Function editor Function – state of the equipment during synthetic cycle.
Synthetic cycle editor Cycle – sequence of functions, activated during stated
period of time.
Synthetic method editor Synthetic method – sequence of equipment states
intended for gene synthesis.
Diagnostics Connection check, status check for different modules.
Direct control Control of individual hardware modules: on-off, set/change
desired state.
System monitor Process monitoring, system monitoring.
In stock
Interest
Old oligosynthesizer
Odds and ends
Raspberry PiAim
Time
DIY parts and components
Small team
Necessary:
Financial support for development and prototyping
JS-programmer
UI/UX designer
Anyone:
who feels that interested and
who can and wants to contribute to the project
The END
Thank you for your
attention
Aliaksei Yantsevich, al.yantsevich@gmail.com
Yaroslav Dichenko, yaroslavd@tut.by

Artificial gene synthesis

  • 1.
    Artificial gene synthesis Instituteof Bioorganic Chemistry, NAS of Belarus Aliaksei Yantsevich, researcher Yaroslav Dichenko, researcher
  • 2.
    EPIGRAPH DNA is likea computer program but far, far more advanced than any software ever created. - Bill Gates -
  • 3.
    What is aGENE Gene – autonomous module of hereditary information. Information DNA (4 types of elements): A, T, G, C Realization Protein (20 types of elements): G, L, Y, S, E, Q, D, N, F, A, K, R, H, C, V, P, W, I, M, T Genetic code properties: UAA=UUG=CUU=CUC=CUA=CUG=L
  • 4.
    What is artificial(synthetic) gene Synthetic biology – development of biological systems with given properties and functions, which have no analogues in nature. Synthetic gene – DNA sequence, obtained de novo by a complex of chemical, physical and enzymatic methods.
  • 5.
  • 6.
    Artificial genes for ordinaryperson??? Stive, but why would an ordinary person have a computer. 2017 г. 1976 г.
  • 7.
  • 8.
  • 9.
    What is theprice for a gene
  • 10.
    World market  Equipmentfor combinatorial chemistry: • 5.0 million $ (2012 г.) Oligonucleotides: • 500 million $ (2006 г.) • 776 million $ (2010 г.) Synthetic biology products: 0.6 billion $ (2006 г.) 1.1 billion $ (2010 г.) 1.6 billion $ (2011 г.) 2.4 billion $ (2013 г.) 10.8 billion $ (2016 г.)
  • 11.
  • 12.
    How to printgenes (DNA-printing) Oligonucleotides synthesis Planning Gene seq. optimization Gene assemblyGene cloning DNA purification Gene seq. fragmentation 5' 3' 5' 3' 3' 5' 5'3' Oligonucleotides Gene
  • 13.
    It would begood to have Gene Synthesizing Black Box Episode1 “IHaveAnIdea.” Episode2 (final) “IHaveTheGene.”
  • 14.
  • 15.
    What is nextstep? Lab-On-Chip gene synthesizer
  • 16.
  • 17.
    Current problems  Last30 years equipment and software were subjected to minor changes and this is the reason for synthetic gene price retention.  Software to control equipment: • desk-top programs; • closely connected to computer architecture; • unstable work.  There is no full cycle artificial gene synthesizer on world market.
  • 18.
    Aim of theproject  Development of the prototype for full cycle automatic artificial gene synthesis system, controlled by cross- platform web-software.  Development of first IoSE (Internet of Scientific Equipment) system  Subtasks: • Gene sequence optimization • Gene sequence fragmentation • Calculation of synthetic program • Oligonucleotide synthesis • Oligonucleotide preparation/purification • Gene assembly
  • 19.
    How to realizeprototype: general structure of system Hardware Interface 01 . . . . . Deep tuning and configuration Hardware interface 02 Emdedded-computer 1. Control 2. Web-server 3. WIFI hot-spot REST API Oligonucleotide synthesis hardware (CDS ABI 380) Additional equipment - gene synthesis (solenoid valves, sensors, pumps, thermostats etc. Cloud service 1.Gene sequence fragmentation 2.Synthesis optimization 3.Additional calculations 4.Process control 5.System monitoring
  • 20.
    Software structure Module Function Geneeditor Optimization of gene sequences for synthesis. Function editor Function – state of the equipment during synthetic cycle. Synthetic cycle editor Cycle – sequence of functions, activated during stated period of time. Synthetic method editor Synthetic method – sequence of equipment states intended for gene synthesis. Diagnostics Connection check, status check for different modules. Direct control Control of individual hardware modules: on-off, set/change desired state. System monitor Process monitoring, system monitoring.
  • 21.
    In stock Interest Old oligosynthesizer Oddsand ends Raspberry PiAim Time DIY parts and components Small team
  • 22.
    Necessary: Financial support fordevelopment and prototyping JS-programmer UI/UX designer Anyone: who feels that interested and who can and wants to contribute to the project
  • 23.
    The END Thank youfor your attention Aliaksei Yantsevich, al.yantsevich@gmail.com Yaroslav Dichenko, yaroslavd@tut.by