30 July 2008

wellcome to DNA network

In order to better reach that hidden niche of passionates, Reportergene will proudly broadcast its specialized view in reportergenomics to the DNA network, a group of up to 50 entusiast bloggers joined together in a feedburner network. If you’re looking for information regarding DNA, genes, genomes and (of course) any reporter gene, subscribe the DNA Network RSS feed that aggregates all these amazing blogs into one power packed feed source.

27 July 2008

reporter gene statistic

According to my site meter, in the first 2008 semester, Reportergene received visits mainly from US, and most of them were from California. However, US visitors were speed-readers: they spend about 58 seconds on site, while Norvegians stay more than 4 minutes. 10% of visitors come back again at least three times, and two companies really involved in reporter assay development showed their loyalty at the top ten (according to network IP locations). Comparing biological sciences sites of similar size, Reportergene benchmarks more visits (4x) and more pageviews (3x).

Together, the data show that there is a hidden niche of people interested in functional reporter-genomic and my goal for 2009 is to pull out this community. Does anyone would help me?

22 July 2008

ATP bioluminescence (BLI and cancer #2)

Read also BLI and cancer #1

This is the post topic selected in the first Reportergene poll. Enjoy it!

Within a cell, ATP is both the energy currency inside and an extracellular messenger outside. Recent data show that adenosine concentration is much higher in the insterstitium (outside) of solid tumors compared to healthy tissues, and this information corroborates the growing awareness that tumor cells build up a 'self-advantage' micro-environment that limits the anti-tumor immune response. Thus, understanding ATP concentration dynamics outside the cells is a must for upcoming cancer research, particularly if this can be done in the context of the natural tissue.
The italian researcher Patrizia Pellegatti and colleagues from Ferrara University, have engineered a chimeric plasma membrane-targeted luciferase that allows in vivo real-time imaging of extracellular ATP. With this novel probe, they have measured the ATP concentration within the niche of several experimentally-induced tumors. How they did it?

They previously engineered a chimeric luciferase-folate receptor construct in which they appended to luciferase cDNA the targeting sequences (leader sequence and GPI anchor) derived from the folate receptor. This novel probe, named pmeLUC (plasma membrane luciferase) is in fact targeted to and retained at the plasma membrane thus detecting ATP in the aqueous layer close to the cell surface.

So-called "reporter genes" are in fact reporting more than transcriptional activity, and some companies are exploring this new market sector.


---/ citation /--- --- ---
Pellegatti, P., Raffaghello, L., Bianchi, G., Piccardi, F., Pistoia, V., & Di Virgilio, F. (2008). Increased Level of Extracellular ATP at Tumor Sites: In Vivo Imaging with Plasma Membrane Luciferase PLoS ONE, 3 (7) DOI: 10.1371/journal.pone.0002599

16 July 2008

Luciferase: new strategies to make it a biosensor

Monitoring gene expression it is just one piece of the big reporter gene cake. In a recent issue of ACS Chemical Biology, the group of Keith Wood from Promega introduces new covalent, non-covalent and allosteric design configurations to turn firefly luciferase in a biosensor to detect different intermolecular interactions trough modulation of its luminescence activity. Basically the group aims to branch new strategies for luciferases as intracellular probes: not only "genetic reporters", but even reporters (biosensors) of intracellular molecules and events.

Some years ago Promega was working on design of luciferin (the luciferase substrate) to make biosensors. Moving the design from the substrate to the enzyme it’s a big paradigm shift inside the company: it means that to date it’s easier to design (and then market at lower price) a genetic entity like luciferase instead of a chemical entity like the luciferin substrate. Genetic engineering is still in its early stages: how much “copy and paste” we have to do yet with reporter sequences!


---/ citation /--- --- ---
Fan, F., Binkowski, B., Butler, B., Stecha, P., Lewis, M., & Wood, K. (2008). Novel Genetically Encoded Biosensors Using Firefly Luciferase ACS Chemical Biology, 3 (6), 346-351 DOI: 10.1021/cb8000414

15 July 2008

Ca2+ regulated photoprotein

Some days ago I was wondering if there was any correlation between the colour of reporter proteins (katushka, red luciferase) and the country of the researchers. The paper from Ludmila Frank and colleagues reporting the development of violet and greenish photoproteins definitively deny my past speculations. Coming back to science, the mutant obelins developed at the Russian Academy of Science, is a photoprotein that emits light once stimulated by calcium. The usefulness of such reporters was discussed in the context of a dual-color immunoassay of two gonadotropic hormones: FSH and LH. Bioluminescence of the reporters was simultaneously triggered by single injection of Ca2+ solution, divided using band-pass optical filters and measured with a two-channel photometer. The sensitivity of simultaneous bioluminescence assay was close to that of a separate radioimmunoassay, but obviously reporter assays are safer and cheaper.

---/ citation /--- --- ---
Frank, L., Borisova, V., Markova, S., Malikova, N., Stepanyuk, G., & Vysotski, E. (2008). Violet and greenish photoprotein obelin mutants for reporter applications in dual-color assay Analytical and Bioanalytical Chemistry, 391 (8), 2891-2896 DOI: 10.1007/s00216-008-2223-5

4 July 2008

Primary rodent neural stem cell lines

Millipore Corporation’s MilliTrace primary rodent neural stem cell (NSC) lines express green fluorescent protein (GFP) constitutively. GFP expression in these stem cells allows researchers to monitor the behavior of specific populations of cells as they proliferate, migrate, and differentiate into various cell lineages, depending on developmental context. The MilliTrace cell lines are the first commercially available, GFP-expressing, karyotypically normal stem cell lines, and are supplied with optimized expansion medium. Millipore Corporation www.millipore.com

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