SynBioFromLeukipposInstitute
109.1K views | +20 today
Follow
SynBioFromLeukipposInstitute
Your new post is loading...
Your new post is loading...
Scooped by Gerd Moe-Behrens
Scoop.it!

Enhanced DNA Sensing via Catalytic Aggregation of Gold Nanoparticles

Enhanced DNA Sensing via Catalytic Aggregation of Gold Nanoparticles | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
Herbert M. Huttanusa, Elton Graugnarda, Bernard Yurkea,, William B. Knowltona, Wan Kuangb, William L. Hughesa, Jeunghoon Leec


"Highlights

•Gold nanoparticle-based colorimetric sensing scheme using a DNA reaction network was devised.•In the catalytic aggregation design, a target strand induces multiple inter-particle linkages.•Catalytic aggregation show greater extent of absorption spectrum change.•This work provides a path for applying DNA reaction networks on colorimetric detection.AbstractA catalytic colorimetric detection scheme that incorporates a DNA-based hybridization chain reaction into gold nanoparticles was designed and tested. While direct aggregation forms an inter-particle linkage from only ones target DNA strand, the catalytic aggregation forms multiple linkages from a single target DNA strand. Gold nanoparticles were functionalized with thiol-modified DNA strands capable of undergoing hybridization chain reactions. The changes in their absorption spectra were measured at different times and target concentrations and compared against direct aggregation. Catalytic aggregation showed a multifold increase in sensitivity at low target concentrations when compared to direct aggregation. Gel electrophoresis was performed to compare DNA hybridization reactions in catalytic and direct aggregation schemes, and the product formation was confirmed in the catalytic aggregation scheme at low levels of target concentrations. The catalytic aggregation scheme also showed high target specificity. This application of a DNA reaction network to gold nanoparticle-based colorimetric detection enables highly-sensitive, field-deployable, colorimetric readout systems capable of detecting a variety of biomolecules..."


http://bit.ly/15IE2ou

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Inserting "artificial" chromosome into world's first synthetic yeast

Inserting "artificial" chromosome into world's first synthetic yeast | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
anonymous

"- A UK team is building an “artificial” chromosome to be inserted into the world’s first synthetic yeast.

 Teams worldwide are making the other parts of its genome, which will be assembled to make the yeast strain Saccharomyces cerevisiae. Once complete, new strains of synthetic yeast could help make products such as vaccines, biofuels and chemicals. The UK government has announced a grant of almost £1m towards the project, which aims to be complete by 2017. Synthetic biology involves assembling artificial genes to create new materials in a similar way that engineers build machines using many parts. Some even think it can form the basis of a new industrial revolution. Teams worldwide are making the other parts of its genome, which will be assembled to make the yeast strain Saccharomyces cerevisiae. Once complete, new strains of synthetic yeast could help make products such as vaccines, biofuels and chemicals. The UK government has announced a grant of almost £1m towards the project, which aims to be complete by 2017. Synthetic biology involves assembling artificial genes to create new materials in a similar way that engineers build machines using many parts. Some even think it can form the basis of a new industrial revolution."




http://bit.ly/18iiWRv

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

RNA Tectonics (tectoRNA) for RNA nanostructure design and its application in synthetic biology

RNA Tectonics (tectoRNA) for RNA nanostructure design and its application in synthetic biology | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
Junya Ishikawa, Hiroyuki Furuta, Yoshiya Ikawa

"RNA molecules are versatile biomaterials that act not only as DNA-like genetic materials but also have diverse functions in regulation of cellular biosystems. RNA is capable of regulating gene expression by sequence-specific hybridization. This feature allows the design of RNA-based artificial gene regulators (riboregulators). RNA can also build complex two-dimensional (2D) and 3D nanostructures, which afford protein-like functions and make RNA an attractive material for nanobiotechnology. RNA tectonics is a methodology in RNA nanobiotechnology for the design and construction of RNA nanostructures/nanoobjects through controlled self-assembly of modular RNA units (tectoRNAs). RNA nanostructures designed according to the concept of RNA tectonics are also attractive as tools in synthetic biology, but in vivo RNA tectonics is still in the early stages. This review presents a summary of the achievements of RNA tectonics and its related researches in vitro, and also introduces recent developments that facilitated the use of RNA nanostructures in bacterial cells."


http://bit.ly/12w1qVA

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Scientists to build a chromosome for the world's first synthetic yeast

Once all parts of the genome are complete, scientists can design new strains of the yeast Saccharomyces cerevisiae to make products including chemicals, vaccines and biofuels.
more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

BIOCOUTURE

BIOCOUTURE | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:
.....is a pioneering design consultancy focused on bringing living and bio-based materials to fashion, sportswear and luxury brands. We’re passionate about creating a biodesigned future where we grow materials from minimal renewable (or waste) resources.London based, we collaborate with the most innovative creatives in design and science to turn today’s science fiction into tomorrow’s reality. Founder Suzanne Lee is a fashion visionary. Her book ‘Fashioning The Future: tomorrow’s wardrobe’, (Thames & Hudson) was the first to map out the future landscape of technological innovation in fashion from spray on dresses to talking t-shirts..."

http://bit.ly/14M5vo3
more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Multicellular Computing Using Conjugation for Wiring

Multicellular Computing Using Conjugation for Wiring | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by

Angel Goñi-Moreno, Martyn Amos, Fernando de la Cruz

"Recent efforts in synthetic biology have focussed on the implementation of logical functions within living cells. One aim is to facilitate both internal “re-programming” and external control of cells, with potential applications in a wide range of domains. However, fundamental limitations on the degree to which single cells may be re-engineered have led to a growth of interest in multicellular systems, in which a “computation” is distributed over a number of different cell types, in a manner analogous to modern computer networks. Within this model, individual cell type perform specific sub-tasks, the results of which are then communicated to other cell types for further processing. The manner in which outputs are communicated is therefore of great significance to the overall success of such a scheme. Previous experiments in distributed cellular computation have used global communication schemes, such as quorum sensing (QS), to implement the “wiring” between cell types. While useful, this method lacks specificity, and limits the amount of information that may be transferred at any one time. We propose an alternative scheme, based on specific cell-cell conjugation. This mechanism allows for the direct transfer of genetic information between bacteria, via circular DNA strands known as plasmids. We design a multi-cellular population that is able to compute, in a distributed fashion, a Boolean XOR function. Through this, we describe a general scheme for distributed logic that works by mixing different strains in a single population; this constitutes an important advantage of our novel approach. Importantly, the amount of genetic information exchanged through conjugation is significantly higher than the amount possible through QS-based communication. We provide full computational modelling and simulation results, using deterministic, stochastic and spatially-explicit methods. These simulations explore the behaviour of one possible conjugation-wired cellular computing system under different conditions, and provide baseline information for future laboratory implementations." 


http://bit.ly/14LNZQT

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

SynBrick: A crowdsourcing game for Synthetic Biology

SynBrick: A crowdsourcing game for Synthetic Biology | SynBioFromLeukipposInstitute | Scoop.it
SynBrick: A crowdsourcing game for Synthetic Biology
more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Researchers perform DNA computation in living cells

Researchers perform DNA computation in living cells | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

"Chemists from North Carolina State University have performed a DNA-based logic-gate operation within a human cell. The research may pave the way to more complicated computations in live cells, as well as new methods of disease detection and treatment."

http://bit.ly/13OfKu6

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

The biological microprocessor, or how to build a computer with biological parts

The biological microprocessor, or how to build a computer with biological parts | SynBioFromLeukipposInstitute | Scoop.it
h+ Magazine is a new publication that covers technological, scientific, and cultural trends that are changing human beings in fundamental ways.
Gerd Moe-Behrens's insight:

http://hplusmagazine.com/2013/07/03/the-biological-microprocessor-or-how-to-build-a-computer-with-biological-parts/

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Synthetic Biology: Challenging Life in Order to Grasp, Use, or Extend It - Online First - Springer

Synthetic Biology: Challenging Life in Order to Grasp, Use, or Extend It - Online First - Springer | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

Synthetic Biology: Challenging Life in Order to Grasp, Use, or Extend It http://bit.ly/18LKMEZ

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

The scientific meeting format of the future

The scientific meeting format of the future | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

I am watching right now the life stream from this synthetic biology conference:
SB6.0 LIVESTREAM  http://bit.ly/W9Nx9i
All talks are made available via life stream. You can comment on Twitter #sb6conf

This is an awesome concept and works very well. This format democratize scientific meetings. Moreover, professional scientists can participate in important meetings, if they have not the opportunity to travel.

I hope, this concept will be copied by other meeting organizer!

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Synthetic RNA Silencing of Actinorhodin Biosynthesis in Streptomyces coelicolor A3(2)

Synthetic RNA Silencing of Actinorhodin Biosynthesis in Streptomyces coelicolor A3(2) | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by

Gabriel C. Uguru, Madhav Mondhe, Shan Goh, Andrew Hesketh,  Mervyn J. Bibb, Liam Good, James E. M. Stach

"We demonstrate the first application of synthetic RNA gene silencers in Streptomyces coelicolor A3(2). Peptide nucleic acid and expressed antisense RNA silencers successfully inhibited actinorhodin production. Synthetic RNA silencing was target-specific and is a new tool for gene regulation and metabolic engineering studies in Streptomyces."


http://bit.ly/183MqPz

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Reverse Engineering Validation using a Benchmark Synthetic Gene Circuit in Human Cell

Reverse Engineering Validation using a Benchmark Synthetic Gene Circuit in Human Cell | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
Taek Kang Jacob T. White, Zhen Xie , Yaakov Benenson , Eduardo Sontag, and Leonidas Bleris

"Multicomponent biological networks are often understood incompletely, in large part due to the lack of reliable and robust methodologies for network reverse engineering and characterization. As a consequence, developing automated and rigorously validated methodologies for unraveling the complexity of biomolecular networks in human cells remains a central challenge to life scientists and engineers. Today, when it comes to experimental and analytical requirements, there exists a great deal of diversity in reverse engineering methods, which renders the independent validation and comparison of their predictive capabilities difficult. In this work we introduce an experimental platform customized for the development and verification of reverse engineering and pathway characterization algorithms in mammalian cells. Specifically, we stably integrate a synthetic gene network in human kidney cells and use it as a benchmark for validating reverse engineering methodologies. The network, which is orthogonal to endogenous cellular signaling, contains a small set of regulatory interactions that can be used to quantify the reconstruction performance. By performing successive perturbations to each modular component of the network and comparing protein and RNA measurements, we study the conditions under which we can reliably reconstruct the causal relationships of the integrated synthetic network."

http://bit.ly/19fb4gf

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Molecular crowding shapes gene expression in synthetic cellular nanosystems

Molecular crowding shapes gene expression in synthetic cellular nanosystems | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
Cheemeng Tan,Saumya Saurabh,Marcel P. Bruchez,Russell Schwartz& Philip LeDuc

"The integration of synthetic and cell-free biology has made tremendous strides towards creating artificial cellular nanosystems using concepts from solution-based chemistry, where only the concentrations of reacting species modulate gene expression rates. However, it is known that macromolecular crowding, a key feature in natural cells, can dramatically influence biochemical kinetics via volume exclusion effects, which reduce diffusion rates and enhance binding rates of macromolecules. Here, we demonstrate that macromolecular crowding can increase the robustness of gene expression by integrating synthetic cellular components of biological circuits and artificial cellular nanosystems. Furthermore, we reveal how ubiquitous cellular modules, including genetic components, a negative feedback loop and the size of the crowding molecules can fine-tune gene circuit response to molecular crowding. By bridging a key gap between artificial and living cells, our work has implications for efficient and robust control of both synthetic and natural cellular circuits."


http://bit.ly/12BDMac

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Bridging the gap between systems biology and synthetic biology

Bridging the gap between systems biology and synthetic biology | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
Di Liu, Allison Hoynes-O’Connor and Fuzhong Zhang

"Systems biology is an inter-disciplinary science that studies the complex interactions and the collective behavior of a cell or an organism. Synthetic biology, as a technological subject, combines biological science and engineering, allowing the design and manipulation of a system for certain applications. Both systems and synthetic biology have played important roles in the recent development of microbial platforms for energy, materials, and environmental applications. More importantly, systems biology provides the knowledge necessary for the development of synthetic biology tools, which in turn facilitates the manipulation and understanding of complex biological systems. Thus, the combination of systems and synthetic biology has huge potential for studying and engineering microbes, especially to perform advanced tasks, such as producing biofuels. Although there have been very few studies in integrating systems and synthetic biology, existing examples have demonstrated great power in extending microbiological capabilities. This review focuses on recent efforts in microbiological genomics, transcriptomics, proteomics and metabolomics, aiming to fill the gap between systems and synthetic biology."

http://bit.ly/15DHpNd

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Design of a prototype flow microreactor for synthetic biology in vitro

As a reference platform for in vitro synthetic biology, we have developed a prototype flow microreactor for enzymatic biosynthesis.
Gerd Moe-Behrens's insight:

by
Boehm CR, Freemont PS, Ces O.

"As a reference platform for in vitro synthetic biology, we have developed a prototype flow microreactor for enzymatic biosynthesis. We report the design, implementation, and computer-aided optimisation of a three-step model pathway within a microfluidic reactor. A packed bed format was shown to be optimal for enzyme compartmentalisation after experimental evaluation of several approaches. The specific substrate conversion efficiency could significantly be improved by an optimised parameter set obtained by computational modelling. Our microreactor design provides a platform to explore new in vitro synthetic biology solutions for industrial biosynthesis.'

http://rsc.li/13GcbXU

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Home | synlife

Gerd Moe-Behrens's insight:

Synthetic Life: Molecules, Cells & Tissues student workshop in Synthetic Biology t13-16th October at the Weizmann http://bit.ly/13G9Axe

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

From bricolage to BioBricks™: Synthetic biology and rational design

From bricolage to BioBricks™: Synthetic biology and rational design | SynBioFromLeukipposInstitute | Scoop.it
more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Our IWBDA poster on figshare

Our IWBDA poster on figshare | SynBioFromLeukipposInstitute | Scoop.it
Grow the next generation of ideas
Gerd Moe-Behrens's insight:

We published our IWBDA 2013 poster on figshare. 

SynBio App Selector: an Application Selection Engine forSynthetic Biology http://bit.ly/1550Mwz

SynBrick: A crowdsourcing game for Synthetic Biology

http://bit.ly/130e7aN

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

UK joins project to create synthetic organism from scratch

UK joins project to create synthetic organism from scratch | SynBioFromLeukipposInstitute | Scoop.it
International team will synthesise genome of brewer's yeast with a view to creating strains that make biofuel, vaccines and drugs
Gerd Moe-Behrens's insight:

http://bit.ly/13OhZ0u

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Governance Strategies for Living Technologies: Bridging the Gap between Stimulating and Regulating Technoscience

Gerd Moe-Behrens's insight:

van Est R, Stemerding D.

"The life sciences present a politically and ethically sensitive area of technology development. NBIC convergence-the convergence of nanotechnology, biotechnology, and information and cognitive technology-presents an increased interaction between the biological and physical sciences. As a result the bio-debate is no longer dominated by biotechnology, but driven by NBIC convergence. NBIC convergence enables two bioengineering megatrends: "biology becoming technology" and "technology becoming biology." The notion of living technologies captures the latter megatrend. Accordingly, living technology presents a politically and ethically sensitive area. This implies that governments sooner or later are faced with the challenge of both promoting and regulating the development of living technology. This article describes four current political models to deal with innovation promotion and risk regulation. Based on two specific developments in the field of living technologies-(psycho)physiological computing and synthetic biology-we reflect on appropriate governance strategies for living technologies. We conclude that recent pleas for anticipatory and deliberative governance tend to neglect the need for anticipatory regulation as a key factor in guiding the development of the life sciences from a societal perspective. In particular, when it is expected that a certain living technology will radically challenge current regulatory systems, one should opt for such a more active biopolitical approach."

http://1.usa.gov/131tHyg

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

Synthetic biology: biology by design

Gerd Moe-Behrens's insight:

by
M. A. J. Roberts, R. M. Cranenburgh, M. P. Stevens and P. C. F. Oyston

"Synthetic biology can be defined as the design and construction of novel biologically based parts, devices and systems, as well as the redesign of existing natural biological systems, for useful purposes. It builds on genetic engineering, being design-driven genetic engineering encompassing engineering concepts of standardization and abstraction (Endy, 2005). One of the technical advances that has significantly increased the ability to undertake synthetic biology has been to artificially synthesize DNA, and thus create DNA parts. So far, the peak achievement has been the synthesis and assembly of a small bacterial genome which was transferred to a bacterial cell devoid of DNA to create a novel replicating micro-organism (Gibson et al., 2010). A great diversity of synthetic biology applications exists, many in the early research phase, which include using microbes as biofactories or as biological computers (Bonnet et al., 2012; Oldham et al., 2012). In this issue of Microbiology we have assembled a collection of papers to showcase the current state of synthetic biology research, and to convey the potential impact of synthetic biology on biological sciences."

 http://bit.ly/12giQlr ;

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

The Infobiotics Workbench: an integrated in silico modelling platform for Systems and Synthetic Biology

The Infobiotics Workbench: an integrated in silico modelling platform for Systems and Synthetic Biology | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

by
Jonathan Blakes, Jamie Twycross Francisco Jose Romero−Campero and Natalio Krasnogor

"The Infobiotics Workbench is an integrated software suite incorporating model specification, simulation, parameter optimization and model checking for Systems and Synthetic Biology. A modular model specification allows for straightforward creation of large-scale models containing many compartments and reactions. Models are simulated either using stochastic simulation or numerical integration, and visualized in time and space. Model parameters and structure can be optimized with evolutionary algorithms, and model properties calculated using probabilistic model checking."

 http://bit.ly/10LKoBo

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

SB6.0 LIVESTREAM - STARTING 09:00 GMT, 9 JULY 2013

SB6.0 LIVESTREAM - STARTING 09:00 GMT, 9 JULY 2013 | SynBioFromLeukipposInstitute | Scoop.it
Gerd Moe-Behrens's insight:

 http://bit.ly/W9Nx9i

more...
No comment yet.
Scooped by Gerd Moe-Behrens
Scoop.it!

RNA Tectonics (tectoRNA) for RNA nanostructure design and its application in synthetic biology

Gerd Moe-Behrens's insight:

by
Junya Ishikawa, Hiroyuki Furuta, Yoshiya Ikawa

"RNA molecules are versatile biomaterials that act not only as DNA-like genetic materials but also have diverse functions in regulation of cellular biosystems. RNA is capable of regulating gene expression by sequence-specific hybridization. This feature allows the design of RNA-based artificial gene regulators (riboregulators). RNA can also build complex two-dimensional (2D) and 3D nanostructures, which afford protein-like functions and make RNA an attractive material for nanobiotechnology. RNA tectonics is a methodology in RNA nanobiotechnology for the design and construction of RNA nanostructures/nanoobjects through controlled self-assembly of modular RNA units (tectoRNAs). RNA nanostructures designed according to the concept of RNA tectonics are also attractive as tools in synthetic biology, but in vivo RNA tectonics is still in the early stages. This review presents a summary of the achievements of RNA tectonics and its related researches in vitro, and also introduces recent developments that facilitated the use of RNA nanostructures in bacterial cells."

http://bit.ly/14YR4fa

more...
No comment yet.