Biotech in India

Cover illustration: The Taj Mahal in Agra is one of the brilliantly outstanding buildings in India. This special issue on “Biotech in India” is edited by Pushpa M. Bhargava and Narayanan Suresh. It features highlights, reviews and research articles on numerous aspects of Indian biotech such as drug development, plant breeding and biotech companies. Image © Corbis Digital Stock     

Paper watch

Engineering in Life Sciences From our sister journals Biotech method watch Most accessed article Recently top downloaded biotech articles Book highlight: Biotech funding trends BioEssays highlights     

Biotech news from South Africa (SA)

South Africa: An introduction Biotech in South Africa South Africa National Biotech Audit 2007 Biotech facts and figures in SA GMOs in South Africa The SA Council for Scientific and Industrial Research Blue Gene for Africa initiative to catalyze research activities CSIR research highlights Biopad: Biotechnology Partnership for Africa's Development Global biotech lab in Cape Town Wellcome Trust institutional research capacity strengthening in Africa Cancer on the rise in Africa South African firm wins Global Business Council Award Japan-Africa summit on African science and technology BTJ paper watch: South Africa     

Biotechnology Journal 3/2008

Cover illustration: Spectral karyotype of chromosomes. The BTJ special issue on Methods and Advances in Biotech is not only covering DNA-based methods but also exciting highlights in the fields of imaging, bioluminescent screening methods, plant transformation assays, stem cell differentiation on chips and much more. Image copyright USA Federal Government. http://www.genome.gov , http://doi.wiley.com/biot.200800042     

News from industry

News on the market Network: Life Science Corridor France Biotech industry highlights Recent drug patent expirations     

Musculoskeletal tissue engineering by endogenous stem/progenitor cells

From its inception, tissue engineering has had three tenets: cells, biomaterial scaffolds and signaling molecules. Among the triad, cells are the center piece, because cells are the building blocks of tissues. For decades, cell therapies have focused on the procurement, manipulation and delivery of healthy cells for the treatment of diseases or trauma. Given the complexity and potential high cost of cell delivery, there is recent and surging interest to orchestrate endogenous cells for tissue regeneration. Biomaterial scaffolds are vital for many but not all, tissue-engineering applications and serve to accommodate or promote multiple cellular functions. Signaling molecules can be produced by transplanted cells or endogenous cells, or delivered specifically to regulate cell functions. This review highlights recent work in tissue engineering and cell therapies, with a focus on harnessing the capacity of endogenous cells as an alternative or adjunctive approach for tissue regeneration.     

Biotech in the financial crisis

Cover illustration: Biotech in the financial crisis. This special issue of Biotechnology Journal covers how the current financial turmoil creates problems but also chances for biotech. Forum articles and biotech highlights ask whether biotech can rescue economy and environment (green growth). Image © PhotoDisc, Inc.     

BTJ future topical issues

Next issue: Biotech in Korea The May 2008 issue of BTJ is devoted to Biotech in Korea. Featuring articles on: – Recent progress in microbial genome projects of Korea – Bio-Vision 2016: the 2nd Base Plan for biotechnology promotion in Korea – Strategies for systems-level metabolic engineering – Cell engineering strategies for improved therapeutic protein production in CHO cells – Development of bioadhesives from marine mussels – Dynamical analysis of the calcium signaling pathway in cardiac myocytes – Systems biology of heart and calcium signaling networks – Non-labeled detection of waterborne pathogen Cryptosporidium parvum – Injectable and sustained delivery of human growth hormone: A new method – Exploring sequence space: Screening for ω-aminotransferases Many of these exciting articles are already available online under "Early View"! A sneak preview of other content can be found under “News”. http://www.biotechnology-journal.com     

Sphingosine-1-phosphate receptors: receptor specificity versus functional redundancy

Sphingosine-1-phosphate (S1P) is a bioactive sphingolipid that has recently been shown to bind cell surface S1P receptors (previously called endothelial differentiation gene (Edg) receptors), which are members of the G-protein-coupled family of receptors. Signaling via S1P is a complex process, as cells usually express a number of these receptors on their surfaces. Many of the S1P receptors share common G-proteins, invoking the question of how these receptors are specific in their actions. This review describes the coupling pathways of S1P receptors, and highlights the in vitro and in vivo evidence for the "uniqueness" of each receptor in activating downstream signaling pathways, taking the effect of S1P on migration as an example.     

Cell-surface co-receptors: emerging roles in signaling and human disease

Extracellular signals are transmitted to cells through two classes of cell-surface receptors: signaling receptors that directly transduce signals and signaling co-receptors that bind ligand but that, traditionally, have not been thought to signal directly. Signaling co-receptors modulate the ligand binding and signaling of their respective signaling receptors. In recent years, roles for co-receptors have expanded to include essential functions in morphogen gradient formation, localizing signaling, signaling independently, regulating cell adhesion and orchestrating the signaling of several pathways. The importance of signaling co-receptors is demonstrated by their ubiquitous expression, their conservation during evolution, their prominent role in signaling cascades, their indispensable role during development and their frequent mutation or altered expression in human disease.     

Biotech Methods and Advances

Cover illustration: Biotech Methods and Advances. This BTJ special issue highlights articles on high-throughput protein production, a phage display method for fully in vitro recombinant antibody screening and a bioreactor setup to optimize biocatalysis. Image: Representative florescent micrograph depicting a living microdroplet of primary heart muscle cells containing therapeutic payloads for delivery through living cells, © Suwan Jayasinghe, London, UK.     

TGF-β and BMP signaling in osteoblast differentiation and bone formation

Transforming growth factor-beta (TGF-β)/bone morphogenic protein (BMP) signaling is involved in a vast majority of cellular processes and is fundamentally important throughout life. TGF-β/BMPs have widely recognized roles in bone formation during mammalian development and exhibit versatile regulatory functions in the body. Signaling transduction by TGF-β/BMPs is specifically through both canonical Smad-dependent pathways (TGF-β/BMP ligands, receptors and Smads) and non-canonical Smad-independent signaling pathway (e.g. p38 mitogen-activated protein kinase pathway, MAPK). Following TGF-β/BMP induction, both the Smad and p38 MAPK pathways converge at the Runx2 gene to control mesenchymal precursor cell differentiation. The coordinated activity of Runx2 and TGF-β/BMP-activated Smads is critical for formation of the skeleton. Recent advances in molecular and genetic studies using gene targeting in mice enable a better understanding of TGF-β/BMP signaling in bone and in the signaling networks underlying osteoblast differentiation and bone formation. This review summarizes the recent advances in our understanding of TGF-β/BMP signaling in bone from studies of genetic mouse models and human diseases caused by the disruption of TGF-β/BMP signaling. This review also highlights the different modes of cross-talk between TGF-β/BMP signaling and the signaling pathways of MAPK, Wnt, Hedgehog, Notch, and FGF in osteoblast differentiation and bone formation.     

Bayesian analysis of signaling networks governing embryonic stem cell fate decisions

MOTIVATION: Signaling events that direct mouse embryonic stem (ES) cell self-renewal and differentiation are complex and accordingly difficult to understand in an integrated manner. We address this problem by adapting a Bayesian network learning algorithm to model proteomic signaling data for ES cell fate responses to external cues. Using this model we were able to characterize the signaling pathway influences as quantitative, logic-circuit type interactions. Our experimental dataset includes measurements for 28 signaling protein phosphorylation states across 16 different factorial combinations of cytokine and matrix stimuli as reported previously. RESULTS: The Bayesian network modeling approach allows us to uncover previously reported signaling activities related to mouse ES cell self-renewal, such as the roles of LIF and STAT3 in maintaining undifferentiated ES cell populations. Furthermore, the network predicts novel influences such as between ERK phosphorylation and differentiation, or RAF phosphorylation and differentiated cell proliferation. Visualization of the influences detected by the Bayesian network provides intuition about the underlying physiology of the signaling pathways. We demonstrate that the Bayesian networks can capture the linear, nonlinear and multistate logic interactions that connect extracellular cues, intracellular signals and consequent cell functional responses.     

Cell signaling networks ontology

Although databases for cell signaling pathways include numbers of reaction data of the pathways, the reaction data cannot be used yet to deduce biological functions from them. For the deduction, we need systematic and consistent interpretation of biological functions of reactions in cell signaling pathways in the context of "information transmission". To address this issue, we have developed a functional ontology for cell signaling pathways, Cell Signaling Network Ontology (CSN-Ontology), which provides framework for the functional interpretation presenting some important concepts as information, selectivity, movability, and signaling rules including passage of time.     

Biotech news and views

Biotech news and views: Up-scaled vaccine production Biodiesel synthesis by biotechnological methods Biological particles in ice clouds Microorganisms producing nanoparticles Nanotechnology boost: MIT-INL Book highlight: Systems biology and biotechnology of Escherichia coli Most accessed articles in BTJ: Bacteria biosensors Tomography of malaria parasites New scaffold for artificial skin New on the market: Millipore's disposable bioreactor Olympus' all-in-one microscope family Engineering in Life Sciences: Increasing your yields Biosensing ethylene dibromide Modeling cellulose formation BioEssays highlights: SNPing the RNAi connection Stem, but not equal Folding metal     

Signaling from the far side

Signaling by cell surface receptors is often turned off by receptor endocytosis and downregulation. However, it appears that some signaling pathways continue to fire from within cells. A recent study now suggests that a late endosomal p14/MP1-MAPK scaffold complex is critical for the ERK signaling pathway.     

The alliance for cellular signaling plasmid collection: a flexible resource for protein localization studies and signaling pathway analysis

Cellular responses to inputs that vary both temporally and spatially are determined by complex relationships between the components of cell signaling networks. Analysis of these relationships requires access to a wide range of experimental reagents and techniques, including the ability to express the protein components of the model cells in a variety of contexts. As part of the Alliance for Cellular Signaling, we developed a robust method for cloning large numbers of signaling ORFs into Gateway entry vectors, and we created a wide range of compatible expression platforms for proteomics applications. To date, we have generated over 3000 plasmids that are available to the scientific community via the American Type Culture Collection. We have established a website at www.signaling-gateway.org/data/plasmid/ that allows users to browse, search, and blast Alliance for Cellular Signaling plasmids. The collection primarily contains murine signaling ORFs with an emphasis on kinases and G protein signaling genes. Here we describe the cloning, databasing, and application of this proteomics resource for large scale subcellular localization screens in mammalian cell lines.