Archive for February, 2010

Virus vectors for cardiovascular gene therapy

Tuesday, February 16th, 2010

Adenovirus Although cardiovascular disease is the second most frequently targeted indication in clinical trials of gene therapy, with 137 studies having received approval by the early part of 2009, this is a distant second to studies of cancer-related pathologies, which account for almost 65% of gene therapy clinical trials with close to 1,000 trials initiated or approved at the time of writing. However cardiovascular disease is the most common cause of mortality in the developed world. But despite two decades of promising pre-clinical research and numerous clinical trials, cardiovascular gene transfer has so far failed to demonstrate convincing benefits in the clinic.

Gene therapy has the potential to deliver novel therapies for diseases of the cardiovascular system (CVS) and numerous gene therapy approaches have been investigated to target the different manifestations of cardiovascular disease. This review discusses the most commonly investigated clinical applications for cardiovascular gene therapy and the potential vector delivery mechanisms for each of these. It considers virus vectors which currently show the most promise for use within the CVS, gives an overview of the current field with regards to clinical studies and concludes with a summary of the current state of clinical cardiovascular gene therapy and the key trials which are ongoing.

Development of Viral Vectors for Use in Cardiovascular Gene Therapy. Viruses 2010, 2(2), 334-371 doi:10.3390/v2020334

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Two-component signal transduction in bacteria

Monday, February 15th, 2010

TCS Two-component signal transduction systems (TCS) are easily identifiable in genomic databases and are present in more than 95% of the bacterial genomes sequenced to date as well as archaea and eukaryotic organisms such as plants and fungi. Cellular processes regulated by TCS are diverse, ranging from pathogenesis and cell development to metabolism and chemotaxis. Because of the widespread nature of TCS, researchers in many disciplines have reason to experimentally probe the molecular details of how a particular TCS functions in a system of interest.

Two-component signal transduction as potential drug targets in pathogenic bacteria. Curr Opin Microbiol. Feb 3 2010
Gene clusters contributing to processes such as cell growth and pathogenicity are often controlled by two-component signal transduction systems (TCSs). Specific inhibitors against TCS systems work differently from conventional antibiotics, and developing them into new drugs that are effective against various drug-resistant bacteria may be possible. Furthermore, inhibitors of TCSs that control virulence factors may reduce virulence without killing the pathogenic bacteria. Previous TCS inhibitors targeting the kinase domain of the histidine kinase sensor suffered from poor selectivity. Recent TCS inhibitors, however, target the sensory domains of the sensors blocking the quorum sensing system, or target the essential response regulator. These new targets are introduced, together with several specific TCSs that have the potential to serve as effective drug targets.

Summary of useful methods for two-component system research. Curr Opin Microbiol. Feb 3 2010
Since the discovery of protein phosphorylation in bacterial nitrogen assimilation and chemotaxis more than 30 years ago, many biochemical techniques for the analysis of two-component signal transduction systems have been developed. Over time the experimental conditions to follow the flow of phosphate groups from histidine kinases to the cognate response regulators in vitro have been fine tuned. Several approaches were applied to circumvent the instability of the phosphorylated form of response regulator proteins to analyze the structures of their activated forms. Recently, a FRET (fluorescence resonance energy transfer) assay was developed to monitor interactions of chemotaxis proteins in vivo. The availability of bacterial genome sequence databases has facilitated the identification of two-component systems and enabled prediction of interacting kinase-response regulators pairs.

Two component systems in the spatial program of bacteria. Curr Opin Microbiol. Feb 3 2010
Despite being considered a relatively simple form of life, bacteria have revealed a high degree of structural organization, with the spatial destination of their components precisely regulated within the cell. Nevertheless, the primary signals that dictate differential distribution of cellular building blocks and physiological processes remain in most cases largely undisclosed. Signal transduction systems are no exception within this three-dimensional organization and two-component systems (TCS) involved in controlling cell division, differentiation, chemotaxis and virulence show specific and/or dynamic localization, engaging in the spatial program of the bacterial cell.

Microbiology Anyone?

Sunday, February 14th, 2010

Over on our Facebook page, Heather Collins asked:
Why do so few University's run microbiology degrees these days? And the ones that do insist on merging them with biochem. Do they not realise people just want to poke about with small squiggly things for a career?

And another question – why do so few (UK) universities have microbiology departments these days? There’s been a trend towards bigger academic units, and disciplines who can’t recruit enough students tend to get merged with other departments into units usually called something like “The School of Life Sciences”. In addition, non-human microbiology is out of favour these days, with most of the money going to medical microbiology, and this killed off some microbiology departments who couldn’t or weren’t willing to adapt.

So why do UK universities find it hard to recruit microbiology students? When the A level syllabus changed a few years ago, microbiology all but disappeared. Actually, there is a little bit still there, but not until the A2 stage and it’s no longer offered by all schools. But A2 students have already filled out their UCAS forms. AS students don’t know what microbiology is, so why would they apply to do a degree in it? (They know what genetics is because there’s lots of that at AS level, so many apply to do that as a degree).

Fortunately, there is a solution! At the University of Leicester, we offer you not one but two chances to study microbiology. ”Microbiology” is a broadly based course including environmental microbiology, which “Medical Microbiology” is … well, see if you can figure it out ;-)

Of course, if it’s a bit late for you to be thinking about degree choices, we also offer lots of microbiology PhD and postdoctoral places, so check us out for all your microbiology career requirements :-)

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Saturday Cinema – Viruses

Saturday, February 13th, 2010

Not 100% acurate, but pretty and a good starting point if you’re just learning about viruses.

The Virological Synapse

Friday, February 12th, 2010

Synapse As obligate intracellular parasites, viruses have evolved diverse mechanisms to enter and exit from host cells. A requirement that is shared by all animal viruses is the use of cellular receptors for entry into cells to initiate viral infection. Receptors can function in virus attachment to the cell surface and can also mediate virus internalization and penetration of the cell membrane. Receptors are often grouped into “primary receptors” and “secondary receptors” or “co-receptors” depending either on their function in the virus entry process or historical precedence.

Viruses can be classified into two broad groups: enveloped and non-enveloped. Direct cell-to-cell spread has only been described for enveloped viruses. Viruses that spread directly from infected to uninfected cells can avoid the obstacles to infection which occur for for infection via free virus particles (biophysical and immunological). Once the initial infection has occurred, the cell-to-cell mode of virus spread enables direct infection of target cells by adjacent infected cells – a very efficient process.

Direct cell-to-cell spread requires intimate contact between cells and can occur at tight junctions between cells or neurological synapses. Immune cells contain machinery that allows them to polarize their secretory apparatus towards a second cell that is involved in an immunological synapse. This machinery can be subverted by retroviruses such as HTLV-1 and HIV-1 to form a virological synapse. Virions bud from the infected cell into the synapse, from where they fuse with the target-cell plasma membrane. Certain viruses have therefore engineered novel structures in infected cells to promote more efficient spread within the host.

Avoiding the void: cell-to-cell spread of human viruses. 2008 Nature Reviews Microbiology 6: 815-826. doi:10.1038/nrmicro1972
The initial stages of animal virus infection are generally described as the binding of free virions to permissive target cells followed by entry and replication. Although this route of infection is undoubtedly important, many viruses that are pathogenic for humans, including HIV-1, herpes simplex virus and measles, can also move between cells without diffusing through the extracellular environment. Cell-to-cell spread not only facilitates rapid viral dissemination, but may also promote immune evasion and influence disease. This review discusses the various mechanisms by which viruses move directly between cells and the implications of this for viral dissemination and pathogenesis.

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Intracellular bacterial replication at the single cell level

Thursday, February 11th, 2010

Salmonella typhimurium Several important pathogens cause disease by surviving and replicating within host cells. Bacterial proliferation is the product of both replication and killing undergone by the population. However, these processes are difficult to distinguish, and are usually assessed together by determination of net bacterial load. In addition, measurement of net load does not reveal heterogeneity within pathogen populations. This is particularly important in persistent infections in which slow or nongrowing bacteria are thought to have a major impact. This paper reports the development of a reporter system based on fluorescence dilution that enables direct quantification of the replication dynamics of Salmonella enterica serovar Typhimurium (S. Typhimurium) in murine macrophages at both the population and single-cell level. The authors used this technique to demonstrate that a major S. Typhimurium virulence determinant, the Salmonella pathogenicity island 2 type III secretion system, is required for bacterial replication but does not have a major influence on resistance to killing. On entry into macrophages, many of the bacteria do not replicate, but appear to enter a dormant-like state. These could represent an important reservoir of persistent bacteria. The approach could be extended to other pathogens to study the contribution of virulence and host resistance factors to replication and killing, and to identify and characterize nonreplicating bacteria associated with chronic or latent infections.

Dynamics of intracellular bacterial replication at the single cell level. PNAS USA February 2 2010, doi: 10.1073/pnas.1000041107

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Retrovirus Integration Site Selection

Wednesday, February 10th, 2010

Retrovirus replication The stable insertion of a copy of their genome into the host cell genome is an essential step of the life cycle of retroviruses. The site of viral DNA integration, mediated by the viral-encoded integrase enzyme, has important consequences for both the virus and the host cell. The analysis of retroviral integration site distribution was facilitated by the availability of the human genome sequence, revealing the non-random feature of integration site selection and identifying different favored and disfavored genomic locations for individual retroviruses. This new review summarizes the current knowledge about retrovirus differences in their integration site preferences as well as the mechanisms involved in this process.

Retroviral Integration Site Selection. Viruses 2010, 2(1) 111-130. doi:10.3390/v2010111

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Protective immunity against influenza

Tuesday, February 9th, 2010

Immunity against Influenza A viruses Influenza epidemics are the cause of three to five million cases of severe illness every year and approximately 250,000 to 500,000 of these cases are fatal. Epidemics occur during autumn and winter in regions with a temperate climate, while in some tropical countries influenza viruses circulate throughout the year with one or two peaks during the rainy seasons. Mainly the young, elderly and subjects with chronical medical conditions are at risk for developing severe disease after seasonal influenza virus infection. Therefore, the World Health Organization (WHO) recommends annual vaccination of these subjects, which is an effective measure to protect them against influenza and its complications.

The genome of influenza viruses consists of eight gene segments of negative sense RNA and since these viruses lack proofreading activity during their replication, they can accumulate mutations under selective pressure. This way, influenza viruses can escape from recognition by virus-neutralizing antibodies that are induced by previous infections or vaccinations. Indeed, the highest degree of variations is observed in the antigenic sites of the hemagglutinin against which virus neutralizing antibodies are directed. As a result of this antigenic variation, the influenza vaccine that contains components of three currently circulating influenza viruses (A/H1N1, A/H3N2 and B viruses) has to be updated almost every year to match the circulating strains. Since the selection of the vaccine strains and vaccine production has to be carried out before the start of the influenza season, there is some uncertainty in this prediction and mismatches do occur occasionally. In addition to the small gradual antigenic changes of currently circulating influenza virus strains (antigenic drift), occasionally new influenza viruses of novel subtypes are introduced into the human population. The subtypes of these viruses are defined by the envelope glycoproteins of these viruses, the hemagglutinin (HA) and the neuraminidase (NA). Wild aquatic birds are the natural reservoir of all subtypes of influenza from which there is spillover to other (domestic) birds and mammalian species, like pigs, horses and men.

Because antibodies against these viruses are virtually absent in the human population, these viruses may cause pandemic outbreaks of influenza affecting a substantial proportion of the human population. In the last century, three pandemics occurred, which were caused by influenza A viruses of the H1N1, H2N2 and H3N2 subtypes. Recently, influenza A viruses of swine origin have caused the first pandemic of the 21st century. These new pandemic viruses are the result of the exchange of gene segments originating from human, classical swine and avian-like influenza viruses and have emerged and spread worldwide within a few months. As of 30 December 2009 at least 12220 people have been killed due to infection with the influenza A/H1N1(2009) virus. Since not all fatal cases are reported, the real number of fatal cases is most likely much higher.

The current pandemic caused by the new influenza A(H1N1) virus and the current pandemic threat caused by the highly pathogenic avian influenza A viruses of the H5N1 subtype have renewed the interest in the development of vaccines that can induce broad protective immunity. Preferably, vaccines not only provide protection against the homologous strains, but also against heterologous strains, even of another subtype. This paper describes viral targets and the arms of the immune response involved in protection against influenza virus infections such as antibodies directed against the hemagglutinin, neuraminidase and the M2 protein and cellular immune responses directed against the internal viral proteins.

Targets for the Induction of Protective Immunity Against Influenza A Viruses. Viruses 2010, 2(1), 166-188; doi:10.3390/v2010166

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Expression strategies of ambisense viruses

Monday, February 8th, 2010

Among the negative RNA viruses, ambisense RNA viruses occupy a distinct niche. Ambisense viruses contain at least one ambisense RNA segment, i.e. an RNA that is in part of positive and in part of negative polarity. Because of this unique gene organization, one might expect ambisense RNA viruses to borrow expression strategies from both positive and negative RNA viruses. However, they have little in common with positive RNA viruses, but possess many features of negative RNA viruses. Transcription and/or replication of their RNAs appear generally to be coupled to translation. Such coupling might be important to ensure temporal control of gene expression, allowing the two genes of an ambisense RNA segment to be differently regulated. Ambisense viruses can infect one host asymptomatically and in certain cases, they can lethally infect two hosts of a different kingdom. A possible model to explain the differential behavior of a given virus in different hosts could be that perturbation of the translation machinery would lead to differences in the severity of symptoms.

Ambisense

The ambisense coding strategy is an unusual way of encoding genes that presumably allows the virus to temporally control expression of the viral proteins, in particular if coupling of translation to transcription enhances the level of vc-encoded versus v-encoded protein expression. In any event, translation itself and/or translational control appear to play an important role in regulation of gene expression of ambisense viruses. Ambisense viruses have two hosts in which they can replicate. In their vector or reservoir host, infection is usually asymptomatic. However, in another host, multiplication of the virus can be lethal. Replication/transcription experiments in different host cell types would be helpful to shed further light on the differences observed in different hosts. At present, there are many complementary ways to study ambisense virus replication/ transcription such as cell culture, in vitro assays and reverse genetics systems. Since ambisense viruses are the meeting point of different viral families and are able to replicate in different hosts whether plants or animals and have different behaviors depending on the host, it would be particularly important to better understand the complex replicative cycle of ambisense viruses, in order to find the means to alleviate the lethal aspects of these pathogens.

Expression strategies of ambisense viruses. Virus Research 93: 141-150, 2003. doi: 10.1016/S0168-1702(03)00094-7

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