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1.
Andrea Parisi Samuel P. C. Brand Joe Hilton Rabia Aziza Matt J. Keeling D. James Nokes 《PLoS computational biology》2021,17(7)
We explore the spatial and temporal spread of the novel SARS-CoV-2 virus under containment measures in three European countries based on fits to data of the early outbreak. Using data from Spain and Italy, we estimate an age dependent infection fatality ratio for SARS-CoV-2, as well as risks of hospitalization and intensive care admission. We use them in a model that simulates the dynamics of the virus using an age structured, spatially detailed agent based approach, that explicitly incorporates governmental interventions and changes in mobility and contact patterns occurred during the COVID-19 outbreak in each country. Our simulations reproduce several of the features of its spatio-temporal spread in the three countries studied. They show that containment measures combined with high density are responsible for the containment of cases within densely populated areas, and that spread to less densely populated areas occurred during the late stages of the first wave. The capability to reproduce observed features of the spatio-temporal dynamics of SARS-CoV-2 makes this model a potential candidate for forecasting the dynamics of SARS-CoV-2 in other settings, and we recommend its application in low and lower-middle income countries which remain understudied. 相似文献
2.
Patricia Rueda Karl Balabanian Bernard Lagane Isabelle Staropoli Ken Chow Angelique Levoye Cedric Laguri Rabia Sadir Thierry Delaunay Elena Izquierdo Jose Luis Pablos Elena Lendinez Antonio Caruz Diego Franco Fran?oise Baleux Hugues Lortat-Jacob Fernando Arenzana-Seisdedos 《PloS one》2008,3(7)
The CXCL12γ chemokine arises by alternative splicing from Cxcl12, an essential gene during development. This protein binds CXCR4 and displays an exceptional degree of conservation (99%) in mammals. CXCL12γ is formed by a protein core shared by all CXCL12 isoforms, extended by a highly cationic carboxy-terminal (C-ter) domain that encompass four overlapped BBXB heparan sulfate (HS)-binding motifs. We hypothesize that this unusual domain could critically determine the biological properties of CXCL12γ through its interaction to, and regulation by extracellular glycosaminoglycans (GAG) and HS in particular. By both RT-PCR and immunohistochemistry, we mapped the localization of CXCL12γ both in mouse and human tissues, where it showed discrete differential expression. As an unprecedented feature among chemokines, the secreted CXCL12γ strongly interacted with cell membrane GAG, thus remaining mostly adsorbed on the plasmatic membrane upon secretion. Affinity chromatography and surface plasmon resonance allowed us to determine for CXCL12γ one of the higher affinity for HS (Kd = 0.9 nM) ever reported for a protein. This property relies in the presence of four canonical HS-binding sites located at the C-ter domain but requires the collaboration of a HS-binding site located in the core of the protein. Interestingly, and despite reduced agonist potency on CXCR4, the sustained binding of CXCL12γ to HS enabled it to promote in vivo intraperitoneal leukocyte accumulation and angiogenesis in matrigel plugs with much higher efficiency than CXCL12α. In good agreement, mutant CXCL12γ chemokines selectively devoid of HS-binding capacity failed to promote in vivo significant cell recruitment. We conclude that CXCL12γ features unique structural and functional properties among chemokines which rely on the presence of a distinctive C-ter domain. The unsurpassed capacity to bind to HS on the extracellular matrix would make CXCL12γ the paradigm of haptotactic proteins, which regulate essential homeostatic functions by promoting directional migration and selective tissue homing of cells. 相似文献
3.
Charlotte Mary Horne Sara Daphne Margaret Marr-Phillips Rabia Jawaid Edward Leigh Gibson Ray Norbury 《Biological Rhythm Research》2017,48(1):151-155
Increasing evidence suggests evening chronotypes are at increased risk for developing depression. Here, we examined if, similar to acutely depressed patients, evening chronotype individuals display biases in emotional face recognition. Two hundred and twenty-six individuals completed an online survey including measures of sleep quality, depression/anxiety and chronotype followed by a simple emotion recognition task presenting male and female faces morphed in 10 steps between 0 (neutral) and 100% sad or happy. Evening chronotype was associated with increased recognition of sad facial expressions independently of sleep quality, mood, age and gender. The current results extend previous work indicating that negative biases in emotional processing are present in evening chronotypes and may have important implications for the prevention and treatment of depression in these vulnerable individuals. 相似文献
4.
Mekki Boussaha Diane Esquerré Johanna Barbieri Anis Djari Alain Pinton Rabia Letaief Gérald Salin Frédéric Escudié Alain Roulet Sébastien Fritz Franck Samson Cécile Grohs Maria Bernard Christophe Klopp Didier Boichard Dominique Rocha 《PloS one》2015,10(8)
High-throughput sequencing technologies have offered in recent years new opportunities to study genome variations. These studies have mostly focused on single nucleotide polymorphisms, small insertions or deletions and on copy number variants. Other structural variants, such as large insertions or deletions, tandem duplications, translocations, and inversions are less well-studied, despite that some have an important impact on phenotypes. In the present study, we performed a large-scale survey of structural variants in cattle. We report the identification of 6,426 putative structural variants in cattle extracted from whole-genome sequence data of 62 bulls representing the three major French dairy breeds. These genomic variants affect DNA segments greater than 50 base pairs and correspond to deletions, inversions and tandem duplications. Out of these, we identified a total of 547 deletions and 410 tandem duplications which could potentially code for CNVs. Experimental validation was carried out on 331 structural variants using a novel high-throughput genotyping method. Out of these, 255 structural variants (77%) generated good quality genotypes and 191 (75%) of them were validated. Gene content analyses in structural variant regions revealed 941 large deletions removing completely one or several genes, including 10 single-copy genes. In addition, some of the structural variants are located within quantitative trait loci for dairy traits. This study is a pan-genome assessment of genomic variations in cattle and may provide a new glimpse into the bovine genome architecture. Our results may also help to study the effects of structural variants on gene expression and consequently their effect on certain phenotypes of interest. 相似文献
5.
The new fossil locality of El Kohol is located on the southern flank of the Saharan Altas, near Brezina (Algeria). It has been discovered in a thick Palaeogene continental series divided into 4 members: a transitional gypsiferous member, a lower red detritic member, a middle marly-calcareous member, and an upper red detritic member. The new flora and fauna have been obtained by excavation and washing-screening of a marly level of the middle member. The main finds are charophytes, lower vertebrates, a marsupial and eutherian mammals (lipotyphlan Insectivora, hyracoids, creodonts and Proboscidea). Geological and palaeontological data allow to refer these fossil remains, at least provisorily, to the end of the early Eocene. Palaeobiogeographical comments are made about forms with Holarctic affinities. 相似文献
6.
Perveen Sumera Khan Tehmina Ahsan Shaheen Humaira Naz Rabia Hyder Muhammad Zeeshan Ijaz Bushra Naqvi S. M. Saqlan Yasmin Tayyaba 《In vitro cellular & developmental biology. Plant》2021,57(6):907-922
In Vitro Cellular & Developmental Biology - Plant - The OsRGLP1 gene was overexpressed under the control of CaMV 35S promoter in tomato (Solanum lycopersicum L.) plants using... 相似文献
7.
Post-Human Genome Project progress has enabled a new wave of population genetic research, and intensified controversy over the use of race/ethnicity in this work. At the same time, the development of methods for inferring genetic ancestry offers more empirical means of assigning group labels. Here, we provide a systematic analysis of the use of race/ethnicity and ancestry in current genetic research. We base our analysis on key published recommendations for the use and reporting of race/ethnicity which advise that researchers: explain why the terms/categories were used and how they were measured, carefully define them, and apply them consistently. We studied 170 population genetic research articles from high impact journals, published 2008-2009. A comparative perspective was obtained by aligning study metrics with similar research from articles published 2001-2004. Our analysis indicates a marked improvement in compliance with some of the recommendations/guidelines for the use of race/ethnicity over time, while showing that important shortfalls still remain: no article using 'race', 'ethnicity' or 'ancestry' defined or discussed the meaning of these concepts in context; a third of articles still do not provide a rationale for their use, with those using 'ancestry' being the least likely to do so. Further, no article discussed potential socio-ethical implications of the reported research. As such, there remains a clear imperative for highlighting the importance of consistent and comprehensive reporting on human populations to the genetics/genomics community globally, to generate explicit guidelines for the uses of ancestry and genetic ancestry, and importantly, to ensure that guidelines are followed. 相似文献
8.
Rajakumar P Mohammed Abdul Rasheed A Iman Rabia A Chamundeeswari D 《Bioorganic & medicinal chemistry letters》2006,16(23):6019-6023
Macrocyclic di- and tetra-amides with thia- and oxylinkages were synthesized and screened for in vitro anti-inflammatory activity. Cyclophane diamide 15 showed a dose-dependent activity, while the other cyclophane amides 16-20 exhibited mild activity. 相似文献
9.
Lijun Ji Junli Zhou Rabia Zafar Svetlana Kantorovich Ruixin Jiang Paul R. Carney Huabei Jiang 《PloS one》2012,7(9)
While functional imaging is widely used in studies of the brain, how well the hemodynamic signal represents the underlying neural activity is still unclear. And there is a debate on whether hemodynamic signal is more tightly related to synaptic activity or action potentials. This study intends to address these questions by examining neurovascular coupling driven by pyramidal cells in the motor cortex of rats. Pyramidal cells in the motor cortex of rats were selectively transduced with the light sensitive cation channel channelrhodopsin-2 (ChR2). Electrophysiological recordings and optical intrinsic signal imaging were performed simultaneously and synchronously to capture the neural activity and hemodynamics induced by optical stimulation of ChR2-expressing pyramidal cells. Our results indicate that both synaptic activity (local field potential, LFP) and action potentials (multi-unit activity, MUA) are tightly related to hemodynamic signals. While LFPs in γ band are better in predicting hemodynamic signals elicited by short stimuli, MUA has better predictions to hemodynamic signals elicited by long stimuli. Our results also indicate that strong nonlinearity exists in neurovascular coupling. 相似文献
10.
Poliovirus causes flaccid paralysis through the destruction of motor neurons in the CNS. Susceptibility to its infection is mainly due
to the interaction in between the surface capsid proteins and its receptors on the host cell surface, important for binding,
penetration and other necessary events during early infection. Receptor modification is a new approach to treat viral diseases by
the modification of target proteins structure. Binding domains are modified in an effective way to make it difficult for the virus to
recognize it. In this study, tolerant and intolerant induced mutations in the poliovirus receptor, VP1 and VP2 were identified and
substituted in the seed sequence to get the modified versions. Substitutions causing changes in initial folding were short listed and
further analyzed for high level folding, physiochemical properties and interactions. Highest RMSD values were observed in
between the seed and the mutant K90F (3.265 Å) and Q130W (3.270Å) respectively. The proposed substitutions were found to have
low functional impact and thus can be further tested and validated by the experimental researchers. Interactions analyses proved
most of the substitutions having decreased affinity for both the VP1 and VP2 and thus are of significant importance against
poliovirus. This study will play an important role for bridging computational biology to other fields of applied biology and also
will provide an insight to develop resistance against viral diseases. It is also expected that same approach can also be applicable
against other viruses like HCV, HIV and other in near future. 相似文献