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81.
Ricardo J. Soares Magalh?es Maria S. Salamat Lydia Leonardo Darren J. Gray Hélène Carabin Kate Halton Donald P. McManus Gail M. Williams Pilarita Rivera Ofelia Saniel Leda Hernandez Laith Yakob Stephen T. McGarvey Archie C. A. Clements 《PLoS neglected tropical diseases》2015,9(9)
BackgroundIn order to increase the efficient allocation of soil-transmitted helminth (STH) disease control resources in the Philippines, we aimed to describe for the first time the spatial variation in the prevalence of A. lumbricoides, T. trichiura and hookworm across the country, quantify the association between the physical environment and spatial variation of STH infection and develop predictive risk maps for each infection.Conclusions/SignificanceThis analysis revealed significant spatial variation in STH infection prevalence within provinces of the Philippines. This suggests that a spatially targeted approach to STH interventions, including mass drug administration, is warranted. When financially possible, additional STH surveys should be prioritized to high-risk areas identified by our study in Luzon. 相似文献
82.
Troy G. Hammerstrom Kathryn Beabout Thomas P. Clements Gerda Saxer Yousif Shamoo 《PloS one》2015,10(10)
The evolution of hypermutators in response to antibiotic treatment in both clinical and laboratory settings provides a unique context for the study of adaptive evolution. With increased mutation rates, the number of hitchhiker mutations within an evolving hypermutator population is remarkably high and presents substantial challenges in determining which mutations are adaptive. Intriguingly however, hypermutators also provide an opportunity to explore deeply the accessible evolutionary trajectories that lead to increased organism fitness, in this case the evolution of antibiotic resistance to the clinically relevant antibiotic tigecycline by the hospital pathogen Acinetobacter baumannii. Using a continuous culture system, AB210M, a clinically derived strain of A. baumannii, was evolved to tigecycline resistance. Analysis of the adapted populations showed that nearly all the successful lineages became hypermutators via movement of a mobile element to inactivate mutS. In addition, metagenomic analysis of population samples revealed another 896 mutations that occurred at a frequency greater than 5% in the population, while 38 phenotypically distinct individual colonies harbored a total of 1712 mutations. These mutations were scattered throughout the genome and affected ~40% of the coding sequences. The most highly mutated gene was adeS, a known tigecycline-resistance gene; however, adeS was not solely responsible for the high level of TGC resistance. Sixteen other genes stood out as potentially relevant to increased resistance. The five most prominent candidate genes (adeS, rpsJ, rrf, msbA, and gna) consistently re-emerged in subsequent replicate population studies suggesting they are likely to play a role in adaptation to tigecycline. Interestingly, the repeated evolution of a hypermutator phenotype in response to antibiotic stress illustrates not only a highly adaptive strategy to resistance, but also a remarkably efficient survey of successful evolutionary trajectories. 相似文献
83.
A C Frantz A D McDevitt L C Pope J Kochan J Davison C F Clements M Elmeros G Molina-Vacas A Ruiz-Gonzalez A Balestrieri K Van Den Berge P Breyne E Do Linh San E O ?gren F Suchentrunk L Schley R Kowalczyk B I Kostka D ?irovi? N ?prem M Colyn M Ghirardi V Racheva C Braun R Oliveira J Lanszki A Stubbe M Stubbe N Stier T Burke 《Heredity》2014,113(5):443-453
Although the phylogeography of European mammals has been extensively investigated
since the 1990s, many studies were limited in terms of sampling distribution, the
number of molecular markers used and the analytical techniques employed, frequently
leading to incomplete postglacial recolonisation scenarios. The broad-scale genetic
structure of the European badger (Meles meles) is of interest as it may
result from historic restriction to glacial refugia and/or recent anthropogenic
impact. However, previous studies were based mostly on samples from western Europe,
making it difficult to draw robust conclusions about the location of refugia,
patterns of postglacial expansion and recent demography. In the present study,
continent-wide sampling and analyses with multiple markers provided evidence for two
glacial refugia (Iberia and southeast Europe) that contributed to the genetic
variation observed in badgers in Europe today. Approximate Bayesian computation
provided support for a colonisation of Scandinavia from both Iberian and southeastern
refugia. In the whole of Europe, we observed a decline in genetic diversity with
increasing latitude, suggesting that the reduced diversity in the peripheral
populations resulted from a postglacial expansion processes. Although MSVAR v.1.3
also provided evidence for recent genetic bottlenecks in some of these peripheral
populations, the simulations performed to estimate the method''s power to
correctly infer the past demography of our empirical populations suggested that the
timing and severity of bottlenecks could not be established with certainty. We urge
caution against trying to relate demographic declines inferred using MSVAR with
particular historic or climatological events. 相似文献
84.
Laith Yakob Ricardo J. Soares Magalhães Darren J. Gray Gabriel Milinovich Nicola Wardrop Rebecca Dunning Jan Barendregt Franziska Bieri Gail M. Williams Archie C.A. Clements 《International journal for parasitology》2014
The overdispersion in macroparasite infection intensity among host populations is commonly simulated using a constant negative binomial aggregation parameter. We describe an alternative to utilising the negative binomial approach and demonstrate important disparities in intervention efficacy projections that can come about from opting for pattern-fitting models that are not process-explicit. We present model output in the context of the epidemiology and control of soil-transmitted helminths due to the significant public health burden imposed by these parasites, but our methods are applicable to other infections with demonstrable aggregation in parasite numbers among hosts. 相似文献
85.
Reuben Clements Darmaraj Mark Rayan Abdul Wahab Ahmad Zafir Arun Venkataraman Raymond Alfred Junaidi Payne Laurentius Ambu Dionysius Shankar Kumar Sharma 《Biodiversity and Conservation》2010,19(4):1115-1136
Three of Malaysia’s endangered large mammal species are experiencing contrasting futures. Populations of the Sumatran rhino
(Dicerorhinus sumatrensis) have dwindled to critically low numbers in Peninsular Malaysia (current estimates need to be revised) and the state of Sabah
(less than 40 individuals estimated). In the latter region, a bold intervention involving the translocation of isolated rhinos
is being developed to concentrate them into a protected area to improve reproduction success rates. For the Asian elephant
(Elephas maximus), recently established baselines for Peninsular Malaysia (0.09 elephants/km2 estimated from one site) and Sabah (between 0.56 and 2.15 elephants/km2 estimated from four sites) seem to indicate globally significant populations based on dung count surveys. Similar surveys
are required to monitor elephant population trends at these sites and to determine baselines elsewhere. The population status
of the Malayan tiger (Panthera tigris jacksoni) in Peninsular Malaysia, however, remains uncertain as only a couple of scientifically defensible camera-trapping surveys
(1.66 and 2.59 tigers/100 km2 estimated from two sites) have been conducted to date. As conservation resources are limited, it may be prudent to focus
tiger monitoring and protection efforts in priority areas identified by the National Tiger Action Plan for Malaysia. Apart
from reviewing the conservation status of rhinos, elephants and tigers and threats facing them, we highlight existing and
novel conservation initiatives, policies and frameworks that can help secure the long-term future of these iconic species
in Malaysia. 相似文献
86.
87.
Ernest J. Freeman Maria L. Sheakley Robert J. Clements 《Archives of biochemistry and biophysics》2010,498(1):50-56
Angiotensin (Ang) II stimulates vascular smooth muscle cell (VSMC) growth via activation of cytosolic phospholipase A2 (cPLA2), release of arachidonic acid (ArAc) and activation of mitogen-activated protein kinase (MAPK). The mechanism linking AT1 receptor stimulation of ArAc release with MAPK activation may involve transactivation of the epidermal growth factor receptor (EGFR). In this study, Ang II increased phosphorylation of the EGFR and MAPK in cultured VSMC and these effects were attenuated by the cPLA2 inhibitor arachidonyl trifluoromethyl ketone (AACOCF3), and restored by addition of ArAc. Ang II- or ArAc-induced phosphorylation of the EGFR and MAPK were abolished by the EGFR kinase inhibitor AG1478. Ang II or ArAc also stimulated VSMC growth that was blocked by AG1478 or the MAPK kinase (MEK) inhibitor PD98059. Thus, it appears that the cPLA2-dependent release of ArAc may provide a mechanism for the transactivation between the AT1 receptor and the EGFR signaling cascade. 相似文献
88.
89.
ProServer: a simple, extensible Perl DAS server 总被引:1,自引:0,他引:1
Finn RD Stalker JW Jackson DK Kulesha E Clements J Pettett R 《Bioinformatics (Oxford, England)》2007,23(12):1568-1570
SUMMARY: The increasing size and complexity of biological databases has led to a growing trend to federate rather than duplicate them. In order to share data between federated databases, protocols for the exchange mechanism must be developed. One such data exchange protocol that is widely used is the Distributed Annotation System (DAS). For example, DAS has enabled small experimental groups to integrate their data into the Ensembl genome browser. We have developed ProServer, a simple, lightweight, Perl-based DAS server that does not depend on a separate HTTP server. The ProServer package is easily extensible, allowing data to be served from almost any underlying data model. Recent additions to the DAS protocol have enabled both structure and alignment (sequence and structural) data to be exchanged. ProServer allows both of these data types to be served. AVAILABILITY: ProServer can be downloaded from http://www.sanger.ac.uk/proserver/ or CPAN http://search.cpan.org/~rpettett/. Details on the system requirements and installation of ProServer can be found at http://www.sanger.ac.uk/proserver/. 相似文献
90.