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51.
Eirini Tsigarida Ioannis S. Boziaris George-John E. Nychas 《Applied microbiology》2003,69(12):7204-7209
The growth and the metabolic activity of Shewanella putrfaciens, Brochothrix thermosphacta, and Pseudomonas sp., when cultured individually or in all possible combinations in gel cassettes system supplemented with 0.1% glucose at 5°C, were investigated. The overall outcome was that the coexistence of the above-mentioned microorganisms affected not only each growth rate but also their type of metabolic end products compared to the control cultures. These effects were varied and depended on the selection of the combination of the tested bacteria. For example, the growth of Pseudomonas sp. strains cocultured with either B. thermosphacta or S. putrefaciens strains resulted in different effects: a promoting one for the first and an inhibitory one for the second. Moreover, the production of formic acid and two unidentified organic acids (peaks a and b) was characteristic in all cases in which S. putrefaciens was cultured. 相似文献
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53.
Dimitris Tsaparis Stelios Katsanevakis Eirini Ntolka Anastasios Legakis 《European Journal of Wildlife Research》2009,55(2):167-172
For elusive species living in concealing habitats (e.g. deer in a forest habitat), indirect methods such as faecal pellet
counts are considered more practical means of estimating population density and abundance. Accurate estimation of deer density
using the faecal standing crop (FSC) method necessitates the reliable estimation of the mean time to decay of pellet groups
present during the survey. Mean time to decay is generally habitat specific, and separate estimations should be made for each
habitat type in the study area. In a confined mountainous area of Greece, the habitat-specific mean time to decay of roe deer
pellet groups was estimated by locating and marking fresh pellet groups on several dates in the lead up to an FSC survey and
returning to the marked signs at the time of the survey to record whether or not each pellet group had survived. Several logistic
models were fitted to the data, and estimations were based on a multi-model inference (MMI) approach according to information
theory. The highest mean time to decay was estimated in coniferous forests, while mid-ranged values were found in maquis shrubs,
and the lowest mean time to decay was observed in open areas. MMI by model averaging, based on Akaike weights, is recommended
for making robust parameter estimations and for dealing with uncertainty in model selection. 相似文献
54.
Papapetrou EP Lee G Malani N Setty M Riviere I Tirunagari LM Kadota K Roth SL Giardina P Viale A Leslie C Bushman FD Studer L Sadelain M 《Nature biotechnology》2011,29(1):73-78
Realizing the therapeutic potential of human induced pluripotent stem (iPS) cells will require robust, precise and safe strategies for genetic modification, as cell therapies that rely on randomly integrated transgenes pose oncogenic risks. Here we describe a strategy to genetically modify human iPS cells at 'safe harbor' sites in the genome, which fulfill five criteria based on their position relative to contiguous coding genes, microRNAs and ultraconserved regions. We demonstrate that ~10% of integrations of a lentivirally encoded β-globin transgene in β-thalassemia-patient iPS cell clones meet our safe harbor criteria and permit high-level β-globin expression upon erythroid differentiation without perturbation of neighboring gene expression. This approach, combining bioinformatics and functional analyses, should be broadly applicable to introducing therapeutic or suicide genes into patient-specific iPS cells for use in cell therapy. 相似文献
55.
Andriana Margariti Hongling Li Ting Chen Daniel Martin Gema Vizcay-Barrena Saydul Alam Eirini Karamariti Qingzhong Xiao Anna Zampetaki Zhongyi Zhang Wen Wang Zhixin Jiang Chan Gao Benyu Ma Ye-Guang Chen Gillian Cockerill Yanhua Hu Qingbo Xu Lingfang Zeng 《The Journal of biological chemistry》2013,288(2):859-872
56.
Eirini Christodoulou Mamunur Rashid Clare Pacini Alastair Droop Holly Robertson Tim van Groningen Amina F. A. S. Teunisse Francesco Iorio Aart G. Jochemsen David J. Adams Remco van Doorn 《Pigment cell & melanoma research》2021,34(1):122-131
Targeting the MAPK signaling pathway has transformed the treatment of metastatic melanoma. CRISPR‐Cas9 genetic screens provide a genome‐wide approach to uncover novel genetic dependencies that might serve as therapeutic targets. Here, we analyzed recently reported CRISPR‐Cas9 screens comparing data from 28 melanoma cell lines and 313 cell lines of other tumor types in order to identify fitness genes related to melanoma. We found an average of 1,494 fitness genes in each melanoma cell line. We identified 33 genes, inactivation of which specifically reduced the fitness of melanoma. This set of tumor type‐specific genes includes established melanoma fitness genes as well as many genes that have not previously been associated with melanoma growth. Several genes encode proteins that can be targeted using available inhibitors. We verified that genetic inactivation of DUSP4 and PPP2R2A reduces the proliferation of melanoma cells. DUSP4 encodes an inhibitor of ERK, suggesting that further activation of MAPK signaling activity through its loss is selectively deleterious to melanoma cells. Collectively, these data present a resource of genetic dependencies in melanoma that may be explored as potential therapeutic targets. 相似文献
57.
George A. Margaritopoulos Athina Trachalaki Athol U. Wells Eirini Vasarmidi Eleni Bibaki George Papastratigakis Stathis Detorakis Nikos Tzanakis Katerina M. Antoniou 《BMC pulmonary medicine》2018,18(1):177
Background
Pirfenidone is an antifibrotic compound approved for the treatment of idiopathic pulmonary fibrosis (IPF). We present our real-world experience in terms of Pirfenidone’s effect on mortality and adverse events profile outside the restrictions of a clinical trial.Methods
This is a retrospective observational intention to treat study of 82 consecutive IPF patients (UHH cohort).Results
We observed a high 3-years survival rate of 73% without excluding patients who discontinued treatment for different reasons. The survival was compared to the survival of an IPF cohort from a tertiary referral center (RBH cohort). After exclusion of severe cases (DLco<?30%), in unadjusted analysis, the survival in the UHH cohort was better than in the RBH cohort (HR:0.32, 95% CI: 0.19–0.53, p?<?0.0001). After adjustment for age, gender and FVC, the survival remained higher in the UHH cohort (HR:0.28, 95% CI: 0.16–0.48, p?<?0.0001). We observed a similar safety profile compared to previously published data and a lower rate of drug discontinuation due to photosensitivity reactions. Conclusion: Pirfenidone provides a survival benefit in a real-life IPF cohort compared to previously used medications. Counselling patients and proactively managing possible adverse effects can reduce the necessity to discontinue pirfenidone.58.
María J. Arrizubieta Eirini Kanata Ioanna Keklikoglou Penelope Papasavva-Stylianou Pavlos Toumazos Cynthia H. Panagiotidis Theodoros Sklaviadis 《Analytical biochemistry》2009,393(2):229-233
In sheep, scrapie susceptibility is so strongly associated with single nucleotide polymorphisms (SNPs) in the gene encoding the prion protein (PrP) that this linkage constitutes the basis for selective breeding strategies directed toward controlling the disease. For goats, in contrast, the association between scrapie susceptibility/resistance and variations in the PrP gene is far weaker, with only a few identified SNPs showing an influence on scrapie susceptibility. A recent survey of PrP genotypes in Cypriot goats, however, revealed the existence of a robust association between polymorphisms at codon 146 of the caprine PrP gene and resistance/susceptibility to natural scrapie. Here we describe here a high-throughput assay, based on homogeneous MassExtend technology coupled with mass spectrometry, for genotyping codon 146 of the caprine PrP gene. Our results demonstrate that this assay exhibits high accuracy, reproducibility, and repeatability, thereby making it suitable for large-scale SNP genotyping, as required for scrapie surveillance programs. 相似文献
59.
Marianna Siganaki Anastasios V Koutsopoulos Eirini Neofytou Eleni Vlachaki Maria Psarrou Nikolaos Soulitzis Nikolaos Pentilas Sophia Schiza Nikolaos M Siafakas Eleni G Tzortzaki 《Respiratory research》2010,11(1):46
Abnormal apoptotic events in chronic obstructive pulmonary disease (COPD) subvert cellular homeostasis and may play a primary role in its pathogenesis. However, studies in human subjects are limited.p53 and bcl2 protein expression was measured by western blot on lung tissue specimens from 43 subjects (23 COPD smokers and 20 non-COPD smokers), using beta-actin as internal control. Additionally, p53 and bcl2 expression patterns were evaluated by immunohistochemistry in formalin-fixed, paraffin-embedded lung tissue sections from the same individuals.Western blot analysis showed statistically significant increased p53 protein levels in COPD smokers in comparison with non-COPD smokers (p = 0.038), while bcl2 protein levels were not statistically different between the two groups. Lung immunohistochemistry showed increased ratio of positive p53-stained type II pneumocytes/total type II pneumocytes in COPD smokers compared to non-COPD smokers (p = 0.01), whereas the p53 staining ratio in alveolar macrophages and in lymphocyte-like cells did not differ statistically between the two groups. On the other hand, bcl2 expression did not differ between the two groups in all three cell types.The increased expression of pro-apoptotic p53 in type II pneumocytes of COPD patients not counterbalanced by the anti-apoptotic bcl2 could reflect increased apoptosis in the alveolar epithelium of COPD patients. Our results confirm previous experiments and support the hypothesis of a disturbance in the balance between the pro- and anti-apoptotic mediators in COPD. 相似文献
60.
Eirini Vamva Alex Griffiths Conrad A Vink Andrew M L Lever Julia
C Kenyon 《Nucleic acids research》2022,50(1):430
Clinical usage of lentiviral vectors is now established and increasing but remains constrained by vector titer with RNA packaging being a limiting factor. Lentiviral vector RNA is packaged through specific recognition of the packaging signal on the RNA by the viral structural protein Gag. We investigated structurally informed modifications of the 5′ leader and gag RNA sequences in which the extended packaging signal lies, to attempt to enhance the packaging process by facilitating vector RNA dimerization, a process closely linked to packaging. We used in-gel SHAPE to study the structures of these mutants in an attempt to derive structure-function correlations that could inform optimized vector RNA design. In-gel SHAPE of both dimeric and monomeric species of RNA revealed a previously unreported direct interaction between the U5 region of the HIV-1 leader and the downstream gag sequences. Our data suggest a structural equilibrium exists in the dimeric viral RNA between a metastable structure that includes a U5–gag interaction and a more stable structure with a U5–AUG duplex. Our data provide clarification for the previously unexplained requirement for the 5′ region of gag in enhancing genomic RNA packaging and provide a basis for design of optimized HIV-1 based vectors. 相似文献