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  1. Content type: Research

    Lignin derivatives are phenylpropanoid biopolymers derived from pulping and biorefinery processes. The possibility to utilize lignin derivatives from different types of processes in advanced enzyme-catalyzed o...

    Authors: Kristin Johansson, Thomas Gillgren, Sandra Winestrand, Lars Järnström and Leif J Jönsson

    Citation: Journal of Biological Engineering 2014 8:1

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  2. Content type: Letters to the Editor

    Many of the gene regulatory networks used within the field of synthetic biology have extensively employed the AraC and LacI inducible transcription factors. However, there is no Escherichia coli strain that provi...

    Authors: Manjunatha Kogenaru and Sander J Tans

    Citation: Journal of Biological Engineering 2014 8:2

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  3. Content type: Methodology

    Synthetic genomic approaches offer unique opportunities to use powerful yeast and Escherichia coli genetic systems to assemble and modify chromosome-sized molecules before returning the modified DNA to the target...

    Authors: Bogumil J Karas, Bhuvan Molparia, Jelena Jablanovic, Wolfgang J Hermann, Ying-Chi Lin, Christopher L Dupont, Christian Tagwerker, Isaac T Yonemoto, Vladimir N Noskov, Ray-Yuan Chuang, Andrew E Allen, John I Glass, Clyde A Hutchison III, Hamilton O Smith, J Craig Venter and Philip D Weyman

    Citation: Journal of Biological Engineering 2013 7:30

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  4. Content type: Research

    Standardized and well-characterized genetic building blocks are a prerequisite for the convenient and reproducible assembly of novel genetic modules and devices. While numerous standardized parts exist for Escher...

    Authors: Jara Radeck, Korinna Kraft, Julia Bartels, Tamara Cikovic, Franziska Dürr, Jennifer Emenegger, Simon Kelterborn, Christopher Sauer, Georg Fritz, Susanne Gebhard and Thorsten Mascher

    Citation: Journal of Biological Engineering 2013 7:29

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  5. Content type: Research

    Among disposable bioreactor systems, cylindrical orbitally shaken bioreactors show important advantages. They provide a well-defined hydrodynamic flow combined with excellent mixing and oxygen transfer for mam...

    Authors: Wolf Klöckner, Riad Gacem, Tibor Anderlei, Nicole Raven, Stefan Schillberg, Clemens Lattermann and Jochen Büchs

    Citation: Journal of Biological Engineering 2013 7:28

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  6. Content type: Research

    Manufacture of MAT a and MAT α yeast cells is required for crossbreeding, a procedure that permits hybridization and the generation of new heterozygous strains. Crossbreeding also can be performed with a- and α-t...

    Authors: Nobuo Fukuda and Shinya Honda

    Citation: Journal of Biological Engineering 2013 7:27

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  7. Content type: Research

    The use of in silico simulations as a basis for designing artificial biological systems (and experiments to characterize them) is one of the tangible differences between Synthetic Biology and “classical” Genetic ...

    Authors: Brendan M Ryback, Dorett I Odoni, Ruben GA van Heck, Youri van Nuland, Matthijn C Hesselman, Vítor AP Martins dos Santos, Mark WJ van Passel and Floor Hugenholtz

    Citation: Journal of Biological Engineering 2013 7:26

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  8. Content type: Research

    Polyhydroxyalkanoates (PHAs) are a group of biodegradable plastics that are produced by a wide variety of microorganisms, mainly as a storage intermediate for energy and carbon. Polyhydroxybutyrate (PHB) is a ...

    Authors: Asif Rahman, Elisabeth Linton, Alex D Hatch, Ronald C Sims and Charles D Miller

    Citation: Journal of Biological Engineering 2013 7:24

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  9. Content type: Research

    The effects of microchannel diameter in hydroxyapatite (HAp) substrates on osteoblast behavior were investigated in this study. Microchannels of 100, 250 and 500 μm diameter were created on hydroxyapatite disk...

    Authors: Marcello Pilia, Teja Guda, Stefanie M Shiels and Mark R Appleford

    Citation: Journal of Biological Engineering 2013 7:23

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  10. Content type: Research

    Bacillus anthracis is a pathogen that causes life-threatening disease--anthrax. B. anthracis spores are highly resistant to extreme temperatures and harsh chemicals. Inactivation of B. anthracis spores is importa...

    Authors: Xiuli Dong, Yongan Tang, Marvin Wu, Branislav Vlahovic and Liju Yang

    Citation: Journal of Biological Engineering 2013 7:19

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  11. Content type: Research

    Photosynthetic microorganisms that directly channel solar energy to the production of molecular hydrogen are a potential future biofuel system. Building such a system requires installation of a hydrogenase in ...

    Authors: Isaac T Yonemoto, Christopher W Matteri, Thao Amy Nguyen, Hamilton O Smith and Philip D Weyman

    Citation: Journal of Biological Engineering 2013 7:17

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  12. Content type: Research

    The generation of micro- and nano-topography similar to those found in the extra cellular matrix of three-dimensional tissues is one technique used to recapitulate the cell-tissue physiology found in the nativ...

    Authors: Rachel Hatano, Kevin Mercurio, Jesus Isaac Luna, Drew E Glaser, Valerie J Leppert and Kara E McCloskey

    Citation: Journal of Biological Engineering 2013 7:18

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  13. Content type: Research

    We continue our exploration of the large polysaccharide polymer Chitosan as an acute therapy for severe damage to the nervous system. We tested the action of subcutaneously injected nanoparticles (~ 100 – 200 ...

    Authors: Bojun Chen, Debra Bohnert, Richard Ben Borgens and Youngnam Cho

    Citation: Journal of Biological Engineering 2013 7:15

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  14. Content type: Research

    Realizing constructive applications of synthetic biology requires continued development of enabling technologies as well as policies and practices to ensure these technologies remain accessible for research. B...

    Authors: Linda J Kahl and Drew Endy

    Citation: Journal of Biological Engineering 2013 7:13

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  15. Content type: Research

    The chromosomal integration of biological parts in the host genome enables the engineering of plasmid-free stable strains with single-copy insertions of the desired gene networks. Although different integrativ...

    Authors: Susanna Zucca, Lorenzo Pasotti, Nicolò Politi, Maria Gabriella Cusella De Angelis and Paolo Magni

    Citation: Journal of Biological Engineering 2013 7:12

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  16. Content type: Research

    Endothelialization of therapeutic cardiovascular implants is essential for their intravascular hemocompatibility. We previously described a novel nanowell-RGD-nanoparticle ensemble, which when applied to surfa...

    Authors: Katherine E McCracken, Phat L Tran, David J You, Marvin J Slepian and Jeong-Yeol Yoon

    Citation: Journal of Biological Engineering 2013 7:11

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  17. Content type: Research

    Cyanobacteria, prokaryotic cells with oxygenic photosynthesis, are excellent bioengineering targets to convert solar energy into solar fuels. Tremendous genetic engineering approaches and tools have been and s...

    Authors: Hsin-Ho Huang and Peter Lindblad

    Citation: Journal of Biological Engineering 2013 7:10

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  18. Content type: Research

    Embryonic stem cells (ESCs) have been implicated to have tremendous impact in regenerative therapeutics of various diseases, including Type 1 Diabetes. Upon generation of functionally mature ESC derived islet-...

    Authors: Joseph Candiello, Satish S Singh, Keith Task, Prashant N Kumta and Ipsita Banerjee

    Citation: Journal of Biological Engineering 2013 7:9

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  19. Content type: Reviewer acknowledgement

    The editors of the Journal of Biological Engineering thank all our reviewers who have contributed to the journal in volume 5 (2011) and volume 6 (2012).

    Authors: Mark Eiteman

    Citation: Journal of Biological Engineering 2013 7:4

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  20. Content type: Research

    The pluripotency and self renewing properties of human embryonic stem cells (hESC) make them a valuable tool in the fields of developmental biology, pharmacology and regenerative medicine. Therefore, there exi...

    Authors: Nikolai Eroshenko, Rukmani Ramachandran, Vamsi K Yadavalli and Raj R Rao

    Citation: Journal of Biological Engineering 2013 7:7

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  21. Content type: Research

    Self organization of the kinesin-microtubule system was implemented as a novel template to create percolated nanofiber networks. Asters of microtubule seeds were immobilized on glass surfaces and their growth ...

    Authors: Vivek Verma, Jeffrey M Catchmark, Nicole R Brown and William O Hancock

    Citation: Journal of Biological Engineering 2013 6:23

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  22. Content type: Research

    Stink bugs represent a major agricultural pest complex attacking more than 200 wild and cultivated plants, including cotton in the southeastern US. Stink bug feeding on developing cotton bolls will cause boll ...

    Authors: Adnan Mustafic, Erin E Roberts, Michael D Toews and Mark A Haidekker

    Citation: Journal of Biological Engineering 2013 7:5

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  23. Content type: Review

    Among the important principles in biology that should be taught in biological engineering educational programs is the principle of optimization, what it means, why it is important, and how it comes about. This...

    Authors: Arthur T Johnson

    Citation: Journal of Biological Engineering 2013 7:6

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  24. Content type: Research

    Like other bacteria, Escherichia coli must carefully regulate the intracellular concentration of sodium ion (Na+). During the bacterial production of any organic acid, cations like Na+ invariably accumulate durin...

    Authors: Xianghao Wu, Ronni Altman, Mark A Eiteman and Elliot Altman

    Citation: Journal of Biological Engineering 2013 7:3

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  25. Content type: Methodology

    There is growing demand for robust DNA assembly strategies to quickly and accurately fabricate genetic circuits for synthetic biology. One application of this technology is reconstitution of multi-gene assembl...

    Authors: Mariana Leguia, Jennifer AN Brophy, Douglas Densmore, Angel Asante and J Christopher Anderson

    Citation: Journal of Biological Engineering 2013 7:2

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  26. Content type: Research

    Sweet sorghum is a domesticated grass containing a sugar-rich juice that can be readily utilized for ethanol production. Most of the sugar is stored inside the cells of the stalk tissue and can be difficult to...

    Authors: Fei Jia, Jeerwan Chawhuaymak, Mark R Riley, Werner Zimmt and Kimberly L Ogden

    Citation: Journal of Biological Engineering 2013 7:1

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  27. Content type: Research

    Bistability is a fundamental property in engineered and natural systems, conferring the ability to switch and retain states. Synthetic bistable switches in prokaryotes have mainly utilized transcriptional comp...

    Authors: Daniel Huang, William J Holtz and Michel M Maharbiz

    Citation: Journal of Biological Engineering 2012 6:9

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  28. Content type: Review

    Controlling gene expression via small interfering RNA (siRNA) has opened the doors to a plethora of therapeutic possibilities, with many currently in the pipelines of drug development for various ocular diseas...

    Authors: Ajit Thakur, Scott Fitzpatrick, Abeyat Zaman, Kapilan Kugathasan, Ben Muirhead, Gonzalo Hortelano and Heather Sheardown

    Citation: Journal of Biological Engineering 2012 6:7

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  29. Content type: Research

    Biological Computer Aided Design (bioCAD) assists the de novo design and selection of existing genetic components to achieve a desired biological activity, as part of an integrated design-build-test cycle. To mee...

    Authors: Joanna Chen, Douglas Densmore, Timothy S Ham, Jay D Keasling and Nathan J Hillson

    Citation: Journal of Biological Engineering 2012 6:1

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  30. Content type: Research

    Traumatic spinal cord injury ( SCI) leads to serious neurological and functional deficits through a chain of pathophysiological events. At the molecular level, progressive damage is initially revealed by collapse...

    Authors: Bojun Chen, Mahvash Zuberi, Richard Ben Borgens and Youngnam Cho

    Citation: Journal of Biological Engineering 2012 6:18

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  31. Content type: Research

    Fluorescent reporter proteins have revolutionized our understanding of cellular bioprocesses by enabling live cell imaging with exquisite spatio-temporal resolution. Existing fluorescent proteins are predomina...

    Authors: Arnab Mukherjee, Kevin B Weyant, Joshua Walker and Charles M Schroeder

    Citation: Journal of Biological Engineering 2012 6:20

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  32. Content type: Research

    Evolution has selected for organisms that benefit from genetically encoded cell-cell communication. Engineers have begun to repurpose elements of natural communication systems to realize programmed pattern for...

    Authors: Monica E Ortiz and Drew Endy

    Citation: Journal of Biological Engineering 2012 6:16

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  33. Content type: Methodology

    Plant biotechnology can be leveraged to produce food, fuel, medicine, and materials. Standardized methods advocated by the synthetic biology community can accelerate the plant design cycle, ultimately making p...

    Authors: Patrick M Boyle, Devin R Burrill, Mara C Inniss, Christina M Agapakis, Aaron Deardon, Jonathan G DeWerd, Michael A Gedeon, Jacqueline Y Quinn, Morgan L Paull, Anugraha M Raman, Mark R Theilmann, Lu Wang, Julia C Winn, Oliver Medvedik, Kurt Schellenberg, Karmella A Haynes…

    Citation: Journal of Biological Engineering 2012 6:8

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  34. Content type: Methodology

    AC Biosusceptometry (ACB) was previously employed towards recording gastrointestinal motility. Our data show a reliable and successful evaluation of gastrointestinal transit of liquid and solid meals in rats, ...

    Authors: Caio C Quini, Madileine F Américo, Luciana A Corá, Marcos FF Calabresi, Matheus Alvarez, Ricardo B Oliveira and JoseRicardo A Miranda

    Citation: Journal of Biological Engineering 2012 6:6

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  35. Content type: Research

    Biohydrogen from cyanobacteria has attracted public interest due to its potential as a renewable energy carrier produced from solar energy and water. Anabaena siamensis TISTR 8012, a novel strain isolated from ri...

    Authors: Wanthanee Khetkorn, Peter Lindblad and Aran Incharoensakdi

    Citation: Journal of Biological Engineering 2012 6:19

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  36. Content type: Letters to the Editor

    Modeling various neuronal functions in search of emergent properties may achieve success when the gold standard of replicating the models in physical systems starts exhibiting some of these properties. Since v...

    Authors: Kunjumon I Vadakkan

    Citation: Journal of Biological Engineering 2012 6:21

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  37. Content type: Research

    Temperature-sensitive (Ts) plasmids are useful tools for genetic engineering, but there are currently none compatible with the gram positive, thermophilic, obligate anaerobe, Clostridium thermocellum. Traditional...

    Authors: Daniel G Olson and Lee R Lynd

    Citation: Journal of Biological Engineering 2012 6:5

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  38. Content type: Research

    Synthetic biology is an emerging field that combines molecular biology with engineering principles, which requires abstraction levels applied to a modular biological componentry. The Registry of Standard Biolo...

    Authors: Matthijn C Hesselman, Jasper J Koehorst, Thijs Slijkhuis, Dorett I Odoni, Floor Hugenholtz and MarkW J van Passel

    Citation: Journal of Biological Engineering 2012 6:14

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  39. Content type: Letters to the Editor

    Building synthetic gene networks with highly transient dynamics requires rapid protein degradation. We show that the degradation conferred by two commonly used ssrA tags is highly temperature dependent. Synthe...

    Authors: Oliver Purcell, Claire S Grierson, Mario di Bernardo and Nigel J Savery

    Citation: Journal of Biological Engineering 2012 6:10

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