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  • 1
    Electronic Resource
    Electronic Resource
    Inactivation of interferon mRNA in the shutoff of human interferon synthesis (1978)
    [s.l.] : Nature Publishing Group
    Nature 271 (1978), S. 81-83 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] The translational system consists of the direct application of isolated human RNA to Syrian hamster embryo (SHE) cells. Absolute species specificity between the human and hamster interferons allows for the bioassay of human IF that has been translated in the heterologous SHE cells. Translation is ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/271081a0
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    Paper (German National Licenses)
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  • 2
    Electronic Resource
    Electronic Resource
    Butyric acid suppression of the in vitro neoplastic state of Syrian hamster cells (1978)
    [s.l.] : Nature Publishing Group
    Nature 271 (1978), S. 262-265 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] We studied the effects of butyric acid on BP6T cells and two clonal isolates, BP6T-But 1 and BP6T-But 2, derived from BP6T cells. These two clonal strains were obtained by single colony isolation following two subculturings in medium supplemented with 2 mM butyric acid (final /?H 7.2), and ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/271262a0
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  • 3
    Electronic Resource
    Electronic Resource
    Neoplastic transformation induced by a direct perturbation of DNA (1978)
    [s.l.] : Nature Publishing Group
    Nature 274 (1978), S. 229-232 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] Treatment of Syrian hamster embryo cells with 5-bromodeoxyuridine followed by near ultraviolet irradiation results in neoplastic transformation of these cells. This demonstrates that a direct perturbation of DNA is sufficient to initiate neoplastic ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/274229a0
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  • 4
    Electronic Resource
    Electronic Resource
    Cloning and expression of murine thrombopoietin cDNA and stimulation of platelet production in vivo (1994)
    [s.l.] : Nature Publishing Group
    Nature 369 (1994), S. 565-568 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] The c-mpl proto-oncogene3 5 is a newly described member of the haematopoietin receptor superfamily and its function has been implicated in megakaryocytopoiesis6'7. To aid the cloning of a ligand for c-Mpl, we constructed a c-Mpl ligand-dependent cell line, BaF3/MPLRl.l, for use in a cell ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/369565a0
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  • 5
    Electronic Resource
    Electronic Resource
    Atmospheric chemistry Radicals follow the Sun (2006)
    [s.l.] : Nature Publishing Group
    Nature 442 (2006), S. 145-146 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] In an impressive feat of endurance and analytical skill, Rohrer and Berresheim have obtained a five-year record of the atmospheric concentration of the hydroxyl free radical, OH, at a research station in southern Germany (page 184 of this issue). This is remarkable because, although OH ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/442145a
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  • 6
    Electronic Resource
    Electronic Resource
    Use of Microwave Techniques for the Determination of Bound Water (1964)
    [s.l.] : Nature Publishing Group
    Nature 203 (1964), S. 1169-1170 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] Since water molecules have an appreciable dipole moment, they will tend to follow an applied electric field if not impeded by their environment. During this process of molecular re-alignment energy is expended and subtracted from the incident energy. The sample, an aqueous solution of the ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/2031169a0
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  • 7
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    In silico identification of bacteriocin gene clusters in the gastrointestinal tract, based on the Human Microbiome Project’s reference genome database (2015)
    BioMed Central
    Details
    Publication Date: 2015-09-17
    Description: Background: The human gut microbiota comprises approximately 100 trillion microbial cells which significantly impact many aspects of human physiology - including metabolism, nutrient absorption and immune function. Disturbances in this population have been implicated in many conditions and diseases, including obesity, type-2 diabetes and inflammatory bowel disease. This suggests that targeted manipulation or shaping of the gut microbiota, by bacteriocins and other antimicrobials, has potential as a therapeutic tool for the prevention or treatment of these conditions. With this in mind, several studies have used traditional culture-dependent approaches to successfully identify bacteriocin-producers from the mammalian gut. In silico-based approaches to identify novel gene clusters are now also being utilised to take advantage of the vast amount of data currently being generated by next generation sequencing technologies. In this study, we employed an in silico screening approach to mine potential bacteriocin clusters in genome-sequenced isolates from the gastrointestinal tract (GIT). More specifically, the bacteriocin genome-mining tool BAGEL3 was used to identify potential bacteriocin producers in the genomes of the GIT subset of the Human Microbiome Project’s reference genome database. Each of the identified gene clusters were manually annotated and potential bacteriocin-associated genes were evaluated. Results: We identified 74 clusters of note from 59 unique members of the Firmicutes, Bacteroidetes, Actinobacteria, Fusobacteria and Synergistetes. The most commonly identified class of bacteriocin was the 〉10 kDa class, formerly known as bacteriolysins, followed by lantibiotics and sactipeptides. Conclusions: Multiple bacteriocin gene clusters were identified in a dataset representative of the human gut microbiota. Interestingly, many of these were associated with species and genera which are not typically associated with bacteriocin production.
    Electronic ISSN: 1471-2180
    Topics: Biology
    Published by BioMed Central
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  • 8
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    Unusual genome complexity in Lactobacillus salivarius JCM1046 (2014)
    BioMed Central
    Details
    Publication Date: 2014-09-09
    Description: Background: Lactobacillus salivarius strains are increasingly being exploited for their probiotic properties in humans and animals. Dissemination of antibiotic resistance genes among species with food or probiotic-association is undesirable and is often mediated by plasmids or integrative and conjugative elements. L. salivarius strains typically have multireplicon genomes including circular megaplasmids that encode strain-specific traits for intestinal survival and probiotic activity. Linear plasmids are less common in lactobacilli and show a very limited distribution in L. salivarius. Here we present experimental evidence that supports an unusually complex multireplicon genome structure in the porcine isolate L. salivarius JCM1046. Results: JCM1046 harbours a 1.83 Mb chromosome, and four plasmids which constitute 20% of the genome. In addition to the known 219 kb repA-type megaplasmid pMP1046A, we identified and experimentally validated the topology of three additional replicons, the circular pMP1046B (129 kb), a linear plasmid pLMP1046 (101 kb) and pCTN1046 (33 kb) harbouring a conjugative transposon. pMP1046B harbours both plasmid-associated replication genes and paralogues of chromosomally encoded housekeeping and information-processing related genes, thus qualifying it as a putative chromid. pLMP1046 shares limited sequence homology or gene synteny with other L. salivarius plasmids, and its putative replication-associated protein is homologous to the RepA/E proteins found in the large circular megaplasmids of L. salivarius. Plasmid pCTN1046 harbours a single copy of an integrated conjugative transposon (Tn6224) which appears to be functionally intact and includes the tetracycline resistance gene tetM. Conclusion: Experimental validation of sequence assemblies and plasmid topology resolved the complex genome architecture of L. salivarius JCM1046. A high-coverage draft genome sequence would not have elucidated the genome complexity in this strain. Given the expanding use of L. salivarius as a probiotic, it is important to determine the genotypic and phenotypic organization of L. salivarius strains. The identification of Tn6224-like elements in this species has implications for strain selection for probiotic applications.
    Electronic ISSN: 1471-2164
    Topics: Biology
    Published by BioMed Central
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  • 9
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    Lactobacillus ruminis strains cluster according to their mammalian gut source (2015)
    BioMed Central
    Details
    Publication Date: 2015-04-02
    Description: Background: Lactobacillus ruminis is a motile Lactobacillus that is autochthonous to the human gut, and which may also be isolated from other mammals. Detailed characterization of L. ruminis has previously been restricted to strains of human and bovine origin. We therefore sought to expand our bio-bank of strains to identify and characterise isolates of porcine and equine origin by comparative genomics. Results: We isolated five strains from the faeces of horses and two strains from pigs, and compared their motility, biochemistry and genetic relatedness to six human isolates and three bovine isolates including the type strain 27780T. Multilocus sequence typing analysis based on concatenated sequence data for six individual loci separated the 16 L. ruminis strains into three clades concordant with human, bovine or porcine, and equine sources. Sequencing the genomes of four additional strains of human, bovine, equine and porcine origin revealed a high level of genome synteny, independent of the source animal. Analysis of carbohydrate utilization, stress survival and technological robustness in a combined panel of sixteen L. ruminis isolates identified strains with optimal survival characteristics suitable for future investigation as candidate probiotics. Under laboratory conditions, six human isolates of L. ruminis tested were aflagellate and non-motile, whereas all 10 strains of bovine, equine and porcine origin were motile. Interestingly the equine and porcine strains were hyper-flagellated compared to bovine isolates, and this hyper-flagellate phenotype correlated with the ability to swarm on solid medium containing up to 1.8% agar. Analysis by RNA sequencing and qRT-PCR identified genes for the biosynthesis of flagella, genes for carbohydrate metabolism and genes of unknown function that were differentially expressed in swarming cells of an equine isolate of L. ruminis. Conclusions: We suggest that Lactobacillus ruminis isolates have potential to be used in the functional food industry. We have also identified a MLST scheme able to distinguish between strains of L. ruminis of different origin. Genes for non-digestible oligosaccharide metabolism were identified with a putative role in swarming behaviour.
    Electronic ISSN: 1471-2180
    Topics: Biology
    Published by BioMed Central
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  • 10
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    Co-acting gene networks predict TRAIL responsiveness of tumour cells with high accuracy (2014)
    BioMed Central
    Details
    Publication Date: 2014-12-20
    Description: Background: Identification of differentially expressed genes from transcriptomic studies is one of the most common mechanisms to identify tumor biomarkers. This approach however is not well suited to identify interaction between genes whose protein products potentially influence each other, which limits its power to identify molecular wiring of tumour cells dictating response to a drug. Due to the fact that signal transduction pathways are not linear and highly interlinked, the biological response they drive may be better described by the relative amount of their components and their functional relationships than by their individual, absolute expression. Methods: Gene expression microarray data for 109 tumor cell lines with known sensitivity to the death ligand cytokine tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) to identify genes with potential functional relationships determining responsiveness to TRAIL-induced apoptosis. The machine learning technique Random Forest in the statistical environment "R" with backward elimination was used to identify the key predictors of TRAIL sensitivity and differentially expressed genes were identified using the software GeneSpring. Gene co-regulation and statistical interaction was assessed with q-order partial correlation analysis and non-rejection rate. Biological (functional) interactions amongst the co-acting genes were studied with Ingenuity network analysis. Prediction accuracy was assessed by calculating area under the receiver operator curve using an independent dataset. Results: We show that the gene panel identified could predict TRAIL-sensitivity with a very high degree of sensitivity and specificity (AUC = 0 . 84). The genes in the panel are co-regulated and at least 40% of them functionally interact in signal transduction pathways that regulate cell death and cell survival, cellular differentiation and morphogenesis. Importantly, only 12% of the TRAIL-predictor genes were differentially expressed highlighting the importance of functional interactions in predicting the biological response. Conclusions: The advantage of co-acting gene clusters is that this analysis does not depend on differential expression, but able to incorporate direct- and indirect gene interactions as well as tissue- and cell-specific characteristics. This approach (1) identified a descriptor of TRAIL sensitivity which performs significantly better as a predictor of TRAIL sensitivity than any previously reported gene signatures, (2) identified potential novel regulators of TRAIL-responsiveness and (3) provided a systematic view highlighting fundamental differences between the molecular wiring of sensitive and resistant cell types.
    Electronic ISSN: 1471-2164
    Topics: Biology
    Published by BioMed Central
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