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At least 865 records · Page 48Linked to original sources
PubMed2006

Multi-character perspectives on the evolution of intraspecific differentiation in a neotropical hylid frog.

BACKGROUND: Multi-character empirical studies are important contributions to our understanding of the process of speciation. The relatively conserved morphology of, and importance of the mate recognition system in anurans, combined with phylogenetic tools, provide an opportunity to address predictions about the relative role of each in the process of speciation. We examine the relationship among patterns of variation in morphology, call characters, and 16S gene sequences across seven populations of a neotropical hylid frog, Hyla leucophyllata, to infer their relative importance in predicting the early stages of population differentiation. RESULTS: Multivariate analyses demonstrate that both morphological and call characteristics were significantly variable among populations, characterized by significantly lower intra-population dispersion in call space than morphological space, and significantly greater among-population variation in call structure. We found lack of concordance between a 16S DNA phylogeny of Hyla leucophyllata and the significant population-level differentiation evident in both external morphology and male advertisement call. Comparisons of the reconstructed gene trees to simulated lineages support the notion that variation in call cannot be simply explained by population history. CONCLUSION: Discordance among traits may reflect sampling biases (e.g. single genetic marker effects), or imply a decoupling of evolution of different suites of characters. Diagnostic differences among populations in call structure possibly reflect local selection pressures presented by different heterospecific calling assemblages and may serve as a precursor of species-wide differentiation. Differentiation among populations in morphology may be due to ecophenotypic variation or to diversifying selection on body size directly, or on frequency attributes of calls (mediated by female choice) that show a strong relationship to body size.

Animals↗
PubMed2006

Systematic interpretation of microarray data using experiment annotations.

BACKGROUND: Up to now, microarray data are mostly assessed in context with only one or few parameters characterizing the experimental conditions under study. More explicit experiment annotations, however, are highly useful for interpreting microarray data, when available in a statistically accessible format. RESULTS: We provide means to preprocess these additional data, and to extract relevant traits corresponding to the transcription patterns under study. We found correspondence analysis particularly well-suited for mapping such extracted traits. It visualizes associations both among and between the traits, the hereby annotated experiments, and the genes, revealing how they are all interrelated. Here, we apply our methods to the systematic interpretation of radioactive (single channel) and two-channel data, stemming from model organisms such as yeast and drosophila up to complex human cancer samples. Inclusion of technical parameters allows for identification of artifacts and flaws in experimental design. CONCLUSION: Biological and clinical traits can act as landmarks in transcription space, systematically mapping the variance of large datasets from the predominant changes down toward intricate details.

Cluster Analysis↗
PubMedDate not supplied

Bi-national assessment of the Great Lakes: SOLEC partnerships.

Many administrative jurisdictions have authority over parts of the Great Lakes, sometimes with competing purposes as well as governance at differing scales of time and space. As demand increases for high quality information that is relevant to environmental managers, environmental and natural resource agencies with limited budgets must look to interdisciplinary, collaborative approaches for the collection, analysis and reporting of data. The State of the Lakes Ecosystem Conferences (SOLEC) were begun in 1994 in response to reporting requirements of the Great Lakes Water Quality Agreement between Canada and the U.S. The biennial conferences provide independent, science-based reporting on the state of health of the Great Lakes ecosystem components. A suite of indicators necessary and sufficient to assess Great Lakes ecosystem status was introduced in 1998. and assessments based on a subset of the indicators were presented in 2000. Because SOLEC is a multi-agency, multi-jurisdictional reporting venue, the SOLEC indicators require acceptance by a broad spectrum of stakeholders in the Great Lakes basin. The SOLEC indicators list is expected to provide the basis for government agencies and other organizations to collaborate more effectively and to allocate resources to data collection, evaluation and reporting on the state of the Great Lakes basin ecosystem.

Canada↗
PubMed2002

Ecology and biogeography of marine parasites.

A review is given of (mainly recent) work on the biodiversity, ecology, biogeography and practical importance of marine parasites. Problems in estimating species numbers have been thoroughly discussed for free-living species, and the main points of these discussions are reviewed here. Even rough estimates of the richness of most parasite groups in the oceans are premature for the following reasons: species numbers of host groups, in particular in the deep sea and the meiofauna, are not known; most host groups have been examined only insufficiently for parasites or not at all; even in some of the best known groups, latitudinal, longitudinal and depth gradients in species richness are only poorly understood or not known at all; effects of hosts on parasite morphology and geographical variation have been studied only in a few cases; there are few studies using techniques of molecular biology to distinguish sibling species. Estimates of species richness in the best known groups, trematodes, monogeneans and copepods of marine fishes, are given. Parasites are found in almost all taxa of eukaryotes, but most parasitic species are concentrated in a few taxa. Important aspects of the ecology of marine parasites are discussed. It is emphasized that host specificity and host ranges should be distinguished, and an index that permits calculation of host specificity is discussed. The same index can be applied to measure site specificity. Central problems in ecology are the importance of interspecific competition and whether equilibrium or non-equilibrium conditions prevail. Marine parasites are among the few groups of organisms that have been extensively examined in this regard. A holistic approach, i.e. application of many methods, has unambiguously shown that metazoan ecto- (and probably endo-) parasites of marine fish live in largely non-saturated niche space under non-equilibrium conditions, i.e. they live in assemblages rather than in communities structured by competition. Nestedness occurs in such assemblages, but it can be explained by characteristics of the species themselves. There is little agreement on which other factors are involved in "structuring" parasite assemblages. Few studies on metapopulations of marine parasites have been made. A new approach, that of fuzzy chaos modelling, is discussed. It is likely that marine parasites are commonly found in metapopulations consisting of many subpopulations, and they are ideally suited to test the predictions of fuzzy chaos. Some recent studies on functional ecology and morphology--especially with regard to host, site and mate finding--are discussed, and attention is drawn to the amazing variety of sensory receptors in some marine parasites. Effects of parasites on hosts, and some studies on the evolution and speciation of marine parasites are discussed as well. A detailed overview of biogeographical studies is given, with respect to latitudinal gradients in species diversity, reproductive strategies and host ranges/specificity. Studies of marine parasites have contributed significantly to giving a non-equilibrium explanation for latitudinal diversity gradients. Recent studies on longitudinal and depth gradients are discussed, as well as parasites in brackish water, parasites as indicators of zoogeographical regions and barriers, and parasites as biological tags. The practical importance of marine parasites in mariculture, as monitors of pollution, agents of human disease, the use of parasites for controlling introduced marine pests, and some related aspects, are also discussed.

Animals↗
PubMed2005

Conservation and specialization in PAS domain dynamics.

The PAS (Per-ARNT-Sim) superfamily is presented as a well-suited study case to demonstrate how comparison of functional motions among distant homologous proteins with conserved fold characteristics may give insight into their functional specialization. Based on the importance of structural flexibility of the receptive structures in anticipating the signal-induced conformational changes of these sensory systems, the dynamics of these structures were analysed. Molecular dynamics was proved to be an effective method to obtain a reliable picture of the dynamics of the crystal structures of HERG, phy3, PYP and FixL, provided that an extensive conformational space sampling is performed. Other reliable sources of dynamic information were the ensembles of NMR structures of hPASK, HIF-2alpha and PYP. Essential dynamics analysis was successfully employed to extract the relevant information from the sampled conformational spaces. Comparison of motion patterns in the essential subspaces, based on the structural alignment, allowed identification of the specialized region in each domain. This appears to be evolved in the superfamily by following a specific trend, that also suggests the presence of a limited number of general solutions adopted by the PAS domains to sense external signals. These findings may give insight into unknown mechanisms of PAS domains and guide further experimental studies.

Adiantum↗
PubMed1998

Trainees' attitudes to research as part of anaesthetic training.

The formal project has been a requirement for the F.A.N.Z.C.A. diploma for the past few years. A questionnaire was sent to all registrars on a formal program asking questions relating to the formal project, perceived advantages, disadvantages, value of formal research teaching methodology and future career intentions. All years of training were represented. Forty-nine of the fifty-six (86%) respondents replied to the survey. Of these 15% felt the formal project had no value, 54% found it possibly useful whilst 31% perceived is as very useful. Advantages of the formal project included appreciation of research skills and the ability to critically appraise research. Disadvantages included lack of dedicated time, space and funding and production of poor quality research. A majority (63%) favoured formal teaching of research methods for the F.A.N.Z.C.A. diploma, which ideally should be taught before the Primary (30%) or in the Provisional Fellowship year (36%). Few respondents indicated a willingness to undertake a major commitment to research in the future (4%) but 46% wanted some contact with research and teaching as part of their normal work practice. A more structured teaching in research methodology, assessment of published work and presentation skills may be more suited to the longterm goals of the majority of clinical anaesthetists.

Anesthesiology↗
PubMed1993

Magnetic resonance coronary angiography.

Despite the availability of numerous noninvasive tests to identify those with inducible myocardial ischemia, 20% of conventional contrast angiograms demonstrate no significant coronary artery stenoses. Magnetic resonance (MR) imaging is ideally suited for evaluation of the heart, and has already been shown to be highly accurate for the depiction and assessment of cardiac chamber size, ventricular function, and valvular insufficiency. Using conventional spin-echo and gradient-echo techniques, investigators have previously been able to characterize coronary artery bypass grafts as "patent" or "occluded," but visualization of large segments of the native coronary vessels was unsuccessful due to artifacts related to cardiac and respiratory motion. Recently, several new "fast imaging" breath-hold techniques, including k-space segmentation and spiral imaging, have shown great promise for both visualizing the native coronary arteries, assessing vessel patency, and quantifying coronary blood flow. Echo planar MR coronary angiography also appears to be feasible. Further software and hardware improvements are needed, but MR may soon prove to be the premier cardiac imaging technique by providing a comprehensive cardiac evaluation for those with suspected coronary artery disease, including information previously unobtainable by any other noninvasive test.

Coronary Artery Bypass↗
PubMed1994

Pseudocorrelation: a fast, robust, absolute, grey-level image alignment algorithm.

A new image alignment algorithm--pseudocorrelation--has been developed based on the application of Monte Carlo techniques to the calculation of a cross-correlation integral for grey-scale images. It has many advantages over cross-correlation: it is at least a factor of 10 faster than fast-Fourier-transform-based cross-correlation, and requires 8 times less memory. Its high speed allows for the search space of geometric transformations between images to include magnification and rotation as well as translations without the search time becoming too long. It allows noise to be taken into account, making calculation of a robust, absolute probability of good alignment possible. It is relatively insensitive to differences in quality between images. This article describes the pseudocorrelation algorithm in detail and presents the results of tests of the effects of contrast enhancement, resolution differences, and noise on the algorithm's performance. These tests show that the algorithm is well suited to the task of automated alignment of very low contrast images from video electronic portal imaging devices.

Algorithms↗
PubMed1989

Optimal use of the Ommaya reservoir in clinical oncology.

A major obstacle to the effective systemic therapy of intracranial malignancies and infections, the bloodbrain barrier was overcome by the development of the Ommaya reservoir in 1963. Initially used in treating cryptococcal meningitis, this closed system for continued access to the ventricular spaces has a variety of applications. They include treatment of cancer pain, chronic or recurrent CNS infection, prophylaxis of CNS involvement in acute lymphoblastic leukemia, and treatment of leptomeningeal malignancy. The authors outline the rationale, latest indications, surgical technique, and potential complications arising from the use of the Ommaya reservoir and other such subcutaneous reservoirs.

Brain Neoplasms↗
PubMedDate not supplied

A multi-purpose rehabilitation frame: an apparatus for experimental investigations of human balance and postural control.

Moving and rotating platforms are often used in experimental investigations of human balance and postural control. These devices are not well suited for testing elderly and neurologically impaired individuals, because of inherent risk of injury to the experimental subject due to a potential fall. This paper describes a novel mechanical apparatus that generates perturbations to a standing subject by applying pushing forces at the level of the pelvis and can also provide restoring forces in the case of destabilization. The device has two degrees of freedom, which are actuated by hydraulic servo systems, and can deliver a perturbation in any direction comprised within anterio-posterior and medio-lateral postural space. The accuracy and repeatability of the perturbations elicited in eight different directions was evaluated. The results, showing a high degree of correlation between the trajectories in both degrees of freedom of the apparatus, demonstrate that accurate and repeatable perturbations can be imposed on the subjects tested.

Biomechanical Phenomena↗
PubMed2001

Optimization of the step-and-shoot leaf sequence for delivery of intensity modulated radiation therapy using a variable division scheme.

To deliver an intensity modulated radiation therapy (IMRT) plan by multileaf collimator (MLC) it is necessary to convert beam profiles, generated from the inverse treatment planning algorithm, into a series of instructions that the MLC control system can execute. An idealized IMRT beam profile can be regarded as a continuously varying two-dimensional function and is usually represented by an intensity map, i.e., a discretized description in space and in intensity of the beam profile. It is common to assume that the intensity map be defined over a regular grid with N steps and equal increments of intensity levels. In reality, this may not be the optimal representation of the beam profile and may introduce unnecessary discrepancies between the intensity pattern delivered and that ideally required. We have implemented an algorithm capable of minimizing the difference between the two patterns on a beam specific basis. In other words, it can produce optimized intensity maps, individually produced to suit the (continuous function) intensity profile they are intended to approximate. This enhancement in conformation is achieved by allowing variable step size and unconstrained intensity levels in the final leaf sequence.

Algorithms↗
PubMed1998

Reduced space hidden Markov model training.

MOTIVATION: Complete forward-backward (Baum-Welch) hidden Markov model training cannot take advantage of the linear space, divide-and-conquer sequence alignment algorithms because of the examination of all possible paths rather than the single best path. RESULTS: This paper discusses the implementation and performance of checkpoint-based reduced space sequence alignment in the SAM hidden Markov modeling package. Implementation of the checkpoint algorithm reduced memory usage from O(mn) to O (m square root n) with only a 10% slowdown for small m and n, and vast speed-up for the larger values, such as m = n = 2000, that cause excessive paging on a 96 Mbyte workstation. The results are applicable to other types of dynamic programming. AVAILABILITY: A World-Wide Web server, as well as information on obtaining the Sequence Alignment and Modeling (SAM) software suite, can be found at http://www.cse.ucsc. edu/research/compbio/sam.html. CONTACT: rph@cse.ucsc.edu

Algorithms↗
PubMed1988

Thermal comparison of aircrew clothing aboard OV-10 aircraft.

Thermal evaluation of aircrew clothing in the field usually involves conditions which make it difficult to distinguish clothing effects from other, confounding factors. This paper reports a field study designed to solve this problem. The question concerned possible heat stress effects caused by adding an oxygen mask, an anti-g suit, or both to the usual clothing worn by pilots of OV-10 (twin turboprop) aircraft during 20 hot-weather flights (actual experimental temperatures of Tdb = 28-38 degrees C, rh = 18-20%). The four test ensembles were flown simultaneously, allowing side-by-side comparison to compensate for variations in flight profile and weather. Subjects (n = 10) encountered noticeable heat stress in flight, with rectal temperature = 37.4-37.6 degrees C, skin temperature = 35.0-35.5 degrees C, and weight losses = 2.1-2.4 kg. There were no measurable differences among the four clothing outfits, indicating that the anti-g suit does not present a heat stress problem. The mask and anti-g suit did contribute to aircrew discomfort as their impermeable materials prevented evaporation of sweat and caused 100% skin wetting in covered areas. Under these dry, desert conditions, the body was apparently able to compensate for the loss of evaporative surface area.

Gravitation↗
PubMed1996

Analysis of localized quadratic encoding and reconstruction.

Localized quadratic (LQ) encoding is a method of collecting multislice MRI data sets with greatly overlapping excited slices in such a way that the slice overlap can be deconvolved. This results in reconstructed data with resolution equal to the center-to-center slice spacing, regardless of the amount of excited slice overlap. LQ encoding is analyzed using the modulation transfer function of the encoding and reconstruction process. This allows analysis of many aspects of the technique in a well established theoretical framework. Many different characteristics of the method are explored, including excited slice profiles, required RF magnitudes and specific absorption rate, signal to noise ratio, signal dynamic range, reconstruction artifacts, sensitivity to motion, saturation and inflow effects, modulation transfer function shifting, and off-resonance artifacts. It is suggested that this technique is best suited for applications currently using multiple thin-slab three-dimensional encoding.

Absorption↗
PubMed1997

A methodology for specifying PET VOI's using multimodality techniques.

Volume-of-interest (VOI) extraction for radionuclide and anatomical measurements requires correct identification and delineation of the anatomical feature being studied. We have developed a toolset for specifying three-dimensional (3-D) VOI's on a multislice positron emission tomography (PET) dataset. The software is particularly suited for specifying cerebral cortex VOI's which represent a particular gyrus or deep brain structure. A registered 3-D magnetic resonance image (MRI) dataset is used to provide high-resolution anatomical information, both as oblique two-dimensional (2-D) sections and as volume renderings of a segmented cortical surface. VOI's are specified indirectly in two dimensions by drawing a stack of 2-D regions on the MRI data. The regions are tiled together to form closed triangular mesh surface models, which are subsequently transformed into the observation space of the PET scanner. Quantification by this method allows calculation of radionuclide activity in the VOI's, as well as their statistical uncertainties and correlations. The methodology for this type of analysis and validation results are presented.

Brain↗
PubMed1981

Ileofemoral thromboendarterectomy through retroperitoneal approach.

Seven years' experience with retroperitoneal thromboendarterectomy for ileofemoral obstruction has been reviewed. Eighty-five limbs in 75 patients were operated upon. Thirty-four limbs received simultaneous femoropopliteal bypass graft. Operative mortality (3.5%) and morbidity rates were low. The average postoperative hospital stay was 11 days. Only four ileofemoral segments thrombosed for cumulative 1-month and 5-year patency rates of 98.8% and 93.8%, respectively. In addition two femoropopliteal grafts became occluded, leaving, however, the proximal reconstructions patent. The safety, effectiveness, and smooth postoperative course of this operation in both good risk and poor risk patients suggest that it is a most satisfactory alternative to other reconstructive procedures. It is well suited for the treatment of both unilateral and-as a staged operation-bilateral ileofemoral occlusions, and it can ideally be combined with a femoropopliteal bypass. Advantages compared to conventional transabdominal operations and extra-anatomic bypass grafts are discussed.

Adult↗
PubMed2001

Oxygen atom transfer from nitrogenous ReVO reagents to diphosphines and subsequent transformations. Rhenium(III) products and reaction models.

The concerned diphosphines are Ph2P(CH2)nPPh2 (1), abbreviated PnP, and the ReVO reagents are ReOCl3L (2) and ReOCl3L' (3), where L and L' are the azopyridine and pyridine-imine ligands p-ClC6H4N=NC5H4N and p-MeC6H4N=CHC5H4N, respectively. One atom transfer from 2 to 1 has afforded Re(OPnP)Cl3L (4a, n = 1; 4b, n = 2; 4c, n = 3). Of these 4b and 4c are stable, but 4a undergoes spontaneous isomerization to Re(PlPO)Cl3L (5) in solution. Two-atom transfer studied with both 2 and 3 has afforded binuclear LCl3Re(OPnPO)ReCl3L (8a, n = 2; 8b, n = 3) and L'Cl3Re(OPnPO)ReCl3L' (9a, n = 2; 9b, n = 3) for n = 2, 3 and mononuclear Re(OP1PO)Cl3L (11) and Re(OP1PO)Cl3L' (12) for n = 1. The mixed system L'Cl3Re(OP2PO)ReCl3L (10) has been prepared from 3 and 4b. The complex Re(PPh3)Cl3L (7a) is furnished by the reaction of Re(OPPh3)Cl3L (6a) or 4b or 11 with PPh3. The species have been characterized with the help of spectral, electrochemical, and X-ray structural data. All the complexes have mer geometry except 5 and 7a, which have fac geometry. The latter is best suited for concurrent Re-N and Re-P back-bonding. Variable-temperature rate data of the reaction 4a-->5 are consistent with an intramolecular strongly associative transition state (delta S++, -22.6 eu) in which the dangling phosphine function lies close to the metal. Two-atom transfer to P1P is believed to proceed via a transient binuclear intermediate which undergoes cleavage at one end due to steric crowding, affording 11 and 12. Crystal data for the complexes are as follows: 5.1.5 C6H6, empirical formula C45H39Cl4N3OP2Re, crystal system triclinic, space group P1, a = 10.034(2) A, b = 10.737(2) A, c = 20.357(4) A, alpha = 89.38(3) degrees, beta = 87.79(3) degrees, gamma = 80.22(3) degrees, V = 2159.7(7) A3, Z = 2; 7a.CH2Cl2, empirical formula C30H25Cl6N3PRe, crystal system monoclinic, space group P2(1)/n, a = 11.695(6) A, b = 17.745(7) A, c = 15.459(9) A, beta = 100.94(5) degrees, V = 3150(3) A3, Z = 4; 9a, empirical formula C52H48Cl6N4O2P2Re2, crystal system monoclinic, space group C2/c, a = 19.769(12) A, b = 12.864(6) A, c = 22.20(2) A, beta = 101.76(6) degrees, V = 5530(6) A3, Z = 4; 11, empirical formula C36H30Cl4N3O2P2Re, crystal system monoclinic, space group I2/a, a = 16.866(6) A, b = 12.583(6) A, c = 34.78(2) A, beta = 99.22(4) degrees, V = 7285(7) A3, Z = 8.

Journal Article↗
PubMed1994

Working patterns of male and female dentists in the UK.

A random selection of male (250) and female (250) dentists in the Dentists Register 1992 were sent a postal self-administered questionnaire to determine their working patterns, places of work and whether or not they had children of school age or younger. There was also space for free comment. Responses from 75% of males and 81% of females were received. Results show that 79% of males, compared with 46% of females, work in full-time dentistry, chiefly in general dental practice. Family commitments were the principal reason for 30% of female dentists working part-time. A small number (14%) of male dentists work in a second career alongside part-time dentistry. As a female dentist's family becomes older and less dependent so the number of sessions worked increases. Overall, female dentists felt well suited and satisfied with their chosen profession. A small, but worrying group (4%) of male full-time general dental practitioners were very dissatisfied with dentistry as a career and showed clear signs of severe psychological stress expressed in the style and nature of free comments made.

Career Choice↗