Journal of Biological EngineeringThis is an RSS file. You can use it to subscribe to this data in your favourite RSS reader, such as GoogleReader, or to display this data on your own website or blog. Subscribe to this data using MyMedWorm.Subscribe to this data using GoogleReader.Subscribe to this data using Bloglines.Subscribe to this data using MyYahoo.

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TinkerCell: modular CAD tool for synthetic biologyEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: An ideal CAD application for engineering biological systems would provide features such as: building and simulating networks, analyzing robustness of networks, and searching databases for components that meet the design criteria. At the current state of synthetic biology, there are no established methods for measuring robustness or identifying components that fit a design. The same is true for databases of biological parts. TinkerCell's flexible modeling framework allows it to cope with changes in the field. Such changes may involve the way parts are characterized or the way synthetic networks are modeled and ...
Source: Journal of Biological Engineering - October 29, 2009 Category: Biotechnology Authors: Deepak ChandranFrank BergmannHerbert Sauro Source Type: journals

Puncture mechanics of cnidarian cnidocysts: a natural actuatorEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: Cnidocysts were found to puncture materials up to 1 MPa in hardness, can be discharged in a dry state using water as a stimulant, and bind homogeneously to lectins, a potential means of immobilization. The information gained from this preliminary work will aid in determining the materials and design of the patch that could be used for drug delivery. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - September 27, 2009 Category: Biotechnology Authors: Shawn OppegardPeter AndersonDavid Eddington Source Type: journals

A switchable light-input, light-output system modelled and constructed in yeast.Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: Our model, methods and materials together constitute a novel system for a eukaryotic host with the potential to convert a dynamic pattern of light input into a predictable gene expression response. This system could be applied for the regulation of genetic networks - both known and synthetic. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - September 16, 2009 Category: Biotechnology Authors: Oxana SorokinaAnita KapusKata TerecskeiLaura DixonLaszlo Kozma-BognarFerenc NagyAndrew Millar Source Type: journals

Engineering and validation of a novel lipid thin film for biomembrane modeling in lipophilicity determination of drugs and xenobioticsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: The lipid film signifies a biomimetic artificial biological interface capable of both hydrophobic and specific electrostatic interactions. It captures the hydrophilic-lipophilic balance (HLB) in the determination of lipophilicity of molecules unlike the pure hydrocarbon film of the prior art. The potentials and performance of the bio-device gives the promise of its utility as a predictive analytic tool for early-stage drug discovery science. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - September 6, 2009 Category: Biotechnology Authors: Sunday IdowuMorenikeji AdeyemoUdochi Ogbonna Source Type: journals

Transcriptional effects of CRP* expression in Escherichia coliEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: While the simplest model of CRP*-mediated gene expression assumes insensitivity to glucose (or cAMP), our results show that gene expression in the context of CRP* is very different from that of wild-type in the absence of glucose, and is influenced by the presence of glucose. Most of the transcription changes in response to CRP* expression are difficult to interpret in terms of possible systematic effects on metabolism. Elevated NADPH availability resulting from CRP* expression suggests potential biocatalytic applications of crp* strains that extend beyond relief of catabolite repression. (Source: Journal of B...
Source: Journal of Biological Engineering - August 23, 2009 Category: Biotechnology Authors: Reza KhankalJonathan ChinDebashis GhoshPatrick Cirino Source Type: journals

Enhanced production of bacterial cellulose by using a biofilm reactor and its material property analysisEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
In this study, different types of plastic composite support (PCS) were implemented separately within a fermentation medium in order to enhance bacterial cellulose (BC) production by Acetobacter xylinum. The optimal composition of nutritious compounds in PCS was chosen based on the amount of BC produced. The selected PCS was implemented within a bioreactor to examine the effects on BC production in a batch fermentation. The produced BC was analyzed using X-ray diffraction (XRD), field emission scanning electron microscopy (FESEM), thermogravimetric analysis (TGA), and dynamic mechanical analysis (DMA). Among thirteen types ...
Source: Journal of Biological Engineering - July 23, 2009 Category: Biotechnology Authors: Kuan-Chen ChengJeffrey CatchmarkAli Demirci Source Type: journals

Solving a Hamiltonian Path Problem with a bacterial computerEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: We successfully designed, constructed, and tested a bacterial computer capable of finding a Hamiltonian path in a three node directed graph. This proof-of-concept experiment demonstrates that bacterial computing is a new way to address NP-complete problems using the inherent advantages of genetic systems. The results of our experiments also validate synthetic biology as a valuable approach to biological engineering. We designed and constructed basic parts, devices, and systems using synthetic biology principles of standardization and abstraction. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - July 23, 2009 Category: Biotechnology Authors: Jordan BaumgardnerKaren AckerOyinade AdefuyeSamuel CrowleyWill DeLoacheJames DicksonLane HeardAndrew MartensNickolaus MortonMichelle RitterAmber ShoecraftJessica TreeceMatthew UnzickerAmanda ValenciaMike WatersA. CampbellLaurie HeyerJeffrey PoetTodd Eckda Source Type: journals

Morphogen-defined patterning of Escherichia coli enabled by an externally tunable band-pass filterEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: Our system offers a convenient, well-defined model system for fundamental studies on how multiple morphogen gradients can affect cell fate and lead to pattern formation. Our design principles could be applied to eukaryotic cells to develop other models systems for studying development or for enabling the patterning of cells for applications such as tissue engineering and biomaterials. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - July 7, 2009 Category: Biotechnology Authors: Takayuki SohkaRichard HeinsMarc Ostermeier Source Type: journals

Antimicrobial activities of commercial nanoparticles against an environmental soil microbe, Pseudomonas putida KT2440Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: The "as-made" NP of Ag, CuO and ZnO have toxic effects on a beneficial soil microbe, leading to bactericidal or bacteriostatic effects depending on the metal-oxide NP employed. Aggregation of the NP into larger particles by factors present in the environment may reduce their nontarget antimicrobial activity. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - June 25, 2009 Category: Biotechnology Authors: Priyanka GajjarBrian PetteeDavid BrittWenjie HuangWilliam JohnsonAnne Anderson Source Type: journals

Engineering fusogenic molecules to achieve targeted transduction of enveloped lentiviral vectorsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: The fusion domain of Sindbis virus glycoprotein is amenable for engineering and the engineered proteins provide elevated capacity to mediate lentiviral vectors for targeted transduction. Our data suggests that application of such an engineering strategy can optimize the two-molecular targeting method of lentiviral vectors for gene delivery to predetermined cells. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - June 2, 2009 Category: Biotechnology Authors: Yuning LeiKye-il JooPin Wang Source Type: journals

Mapping the moral boundaries of biological engineeringEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
The following essay was written by a sophomore undergraduate student majoring in Bioengineering at the University of Maryland, Mr. Zachary Russ. Mr. Russ was one of 174 students who submitted a 1000-1200 word essay to the 4th Annual Bioethics Contest sponsored by the Institute of Biological Engineering (IBE). A group of professionals in Biological Engineering assessed and ranked the essays in a blinded process. Five semi-finalists were invited to present their essays at a session at the annual meeting of IBE in Santa Clara, CA on March 21, 2009. Five judges scored all the presentation at the annual meeting and selected Mr....
Source: Journal of Biological Engineering - May 8, 2009 Category: Biotechnology Authors: Zachary N Russ Source Type: journals

Soluble aggregates of the amyloid-beta peptide are trapped by serum albumin to enhance amyloid-beta activation of endothelial cellsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: These results demonstrate that inhibitors of Abeta self-assembly have the potential to trap small soluble aggregates resulting in an elevation rather than a reduction of cellular responses. These findings provide further support that small soluble aggregates possess high levels physiological activity and underscore the importance of resolving the effect of Abeta aggregation inhibitors on aggregate size. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - April 27, 2009 Category: Biotechnology Authors: Adriana A. Reyes Barcelo, Francisco J. Gonzalez-Velazquez and Melissa A. Moss Source Type: journals

Large naturally-produced electric currents and voltage traverse damaged mammalian spinal cordEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: The enormous bioelectric current, carried in part by free calcium, is the major initiator of secondary injury processes and causes significant damage after breach of the membranes of vulnerable cells adjacent to the injury site. The large intra-cellular voltages, polarized along the length of axons in particular, are believed to be associated with zones of organelle death, distortion, and asymmetry observed in acutely injured nerve fibers. These data enlarge our understanding of secondary mechanisms and provide new ways to consider interfering with this catabolic and progressive loss of tissue. (Source: Journa...
Source: Journal of Biological Engineering - December 30, 2008 Category: Biotechnology Authors: Mahvash Zuberi, Peishan Liu-Snyder, Aeraj ul Haque, David M. Porterfield and Richard B. Borgens Source Type: journals

Review of Career Development in Bioengineering and Biotechnology by Guruprasad Madhavan, Barbara Oakley, and Luis Kun (editors), Springer Science+Business Media, LLC, 2008Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Book details Guruprasad Madhavan, Barbara Oakley, and Luis Kun (editors) Career Development in Bioengineering and Biotechnology, published by Springer, Series in Biomedical Engineering an official publication of the International Federation for Medical and Biological Engineering, 2008. ISBN 978-0-387-76494-8; DOI 10.1007/978-0-387-76495-5. Web: http://www.springer.com/engineering/biomedical+eng/book/978-0-387-76494-8 (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - November 25, 2008 Category: Biotechnology Authors: Mark R Riley Source Type: journals

Review of Career Development in Bioengineering and Biotechnology by Guruprasad Madhavan, Barbara Oakley, and Luis Kun (editors)Email this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Book details Guruprasad Madhavan, Barbara Oakley, and Luis Kun (editors) Career Development in Bioengineering and Biotechnology, published by Springer, Series in Biomedical Engineering an official publication of the International Federation for Medical and Biological Engineering, 2008. ISBN 978-0-387-76494-8; DOI 10.1007/978-0-387-76495-5. Web: http://www.springer.com/engineering/biomedical+eng/book/978-0-387-76494-8 (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - November 25, 2008 Category: Biotechnology Authors: Mark R Riley Source Type: journals

Fast quantitative determination of microbial rhamnolipids from cultivation broths by ATR-FTIR spectroscopyEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: ATR-FTIR was found to be suitable for the rapid analysis of rhamnolipids in a biotechnological process with a good reproducibility in sample determination and a sufficient accuracy. An improvement of the accuracy by continuous expansion and validation of the reference spectra set seems to be very likely. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - October 7, 2008 Category: Biotechnology Authors: Frank Leitermann, Christoph Syldatk and Rudolf Hausmann Source Type: journals

In vivo analysis of fracture toughness of thyroid gland tumorsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: The qualitative method described here, though subject to some operator bias, identifies a previously unreported in vivo approach to classify fracture toughness of a solid tumor that can be correlated with malignancy, and paves the way for the development of a mechanical device that can accurately quantify the tissue toughness of a human tumor. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - October 6, 2008 Category: Biotechnology Authors: Nagesh Ragavendra, J W Ju, James W Sayre, Sharon Hirschowitz, Michael W Yeh and Inder Chopra Source Type: journals

Characterization of seed nuclei in glucagon aggregation using light scattering methods and field-flow fractionationEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusions: The results of this study indicate that initial glucagon solutions are predominantly monomeric, but contain small quantities of large aggregates. These results suggest that the initial aggregates are seed nuclei, or intermediates which catalyze the aggregation process, even at low concentrations. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - July 9, 2008 Category: Biotechnology Authors: Cindy C. Hoppe, Lida T. Nguyen, Lee E. Kirsch and John M. Wiencek Source Type: journals

Synthetic biology: enormous possibility, exaggerated perilsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
The following essay was written by a freshman undergraduate student majoring in Bioengineering at the University of Maryland, Mr. Zachary Russ. Mr. Russ was one of 94 students who submitted a 1000 to 1200 word essay to the 3rd Annual Bioethics Essay Contest sponsored by the Institute of Biological Engineering (IBE). A group of professionals in Biological Engineering assessed and ranked the essays in a blinded process. Five semi-finalists were invited to present their essays at a session at the annual meeting of IBE in Chapel Hill, NC on March 8, 2008. Five judges scored the presentations at the annual meeting and selected ...
Source: Journal of Biological Engineering - April 25, 2008 Category: Biotechnology Authors: Zachary N Russ Source Type: journals

Effects of Dielectrophoresis on Growth, Viability and Immuno-reactivity of Listeria monocytogenesEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
In this study, we investigated the effects of DEP manipulation on the characteristics of Listeria monocytogenes cells, including the immuno-reactivity to several Listeria-specific antibodies, the cell growth profile in liquid medium, and the cell viability on selective agar plates. It was found that a 1-h DEP treatment increased the cell immuno-reactivity to the commercial Listeria species-specific polyclonal antibodies (from KPL) by ~31.8% and to the C11E9 monoclonal antibodies by ~82.9%, whereas no significant changes were observed with either anti-InlB or anti-ActA antibodies. A 1-h DEP treatment did not cause any chang...
Source: Journal of Biological Engineering - April 16, 2008 Category: Biotechnology Authors: Liju Yang, Padmapriya P Banada, Arun K Bhunia and Rashid Bashir Source Type: journals

Cellular automata simulation of topological effects on the dynamics of feed-forward motifsEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: It was shown for classes of structural motifs with feed-forward architecture that network topology affects the overall rate of a process in a quantitatively predictable manner. These fundamental results can be used as a basis for simulating larger networks as combinations of smaller network modules with implications on studying synthetic gene circuits, small regulatory systems, and eventually dynamic whole-cell models. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - February 27, 2008 Category: Biotechnology Authors: Advait A Apte, John W Cain, Danail G Bonchev and Stephen S Fong Source Type: journals

A co-fermentation strategy to consume sugar mixtures effectivelyEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
We report a new approach for the simultaneous conversion of xylose and glucose sugar mixtures into products by fermentation. The process simultaneously uses two substrate-selective strains of Escherichia coli, one which is unable to consume glucose and one which is unable to consume xylose. The xylose-selective (glucose deficient) strain E. coli ZSC113 has mutations in the glk, ptsG and manZ genes while the glucose-selective (xylose deficient) strain E. coli ALS1008 has a mutation in the xylA gene. By combining these two strains in a single process, xylose and glucose are consumed more quickly than by a single-organism app...
Source: Journal of Biological Engineering - February 27, 2008 Category: Biotechnology Authors: Mark A Eiteman, Sarah A Lee and Elliot Altman Source Type: journals

Measuring variability in trophic status in the Lake Waco/Bosque River WatershedEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
Conclusion: Seasonality played a significant role in the trophic class and sensitivity of each site to nutrients. Managing rivers and streams for nutrients will require methods for measuring in situ responses and sensitivities to nutrient enrichment. Nutrient enrichment periphytometers show significant potential for use in nutrient gradient studies. (Source: Journal of Biological Engineering)
Source: Journal of Biological Engineering - January 11, 2008 Category: Biotechnology Authors: Angela D Rodriguez and Marty D Matlock Source Type: journals

Fractionation of the rice bran layer and quantification of vitamin E, oryzanol, protein, and rice bran saccharideEmail this article to a colleague. Save this article to My Clippings. Discuss or comment on this article.
The objectives of this study were to quantify the amount of rice bran removed at pre-selected milling times and to correlate the amount of rice bran removed at each milling time with the concentration of vitamin E, gamma-oryzanol, rice bran saccharide, and protein obtained. The ultimate goal of this research is to show that rice bran fractionation is a useful method to obtain targeted, nutrient-rich bran samples for value-added processing. Two long grain rice cultivars, Cheniere and Cypress, were milled at discrete times between 3 and 40 seconds using a McGill mill to obtain bran samples for analysis. Results showed that t...
Source: Journal of Biological Engineering - December 28, 2007 Category: Biotechnology Authors: Rebecca Schramm, Alicia Abadie, Na Hua, Zhimin Xu and Marybeth Lima Source Type: journals