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PubMed2005

Simultaneous measurement of metabolic and acoustic power and the efficiency of sound production in two mole cricket species (Orthoptera: Gryllotalpidae).

We here report the first simultaneous measurement of metabolic cost of calling, acoustic power and efficiency of sound production in animals--the mole crickets Scapteriscus borellii and S. vicinus (Gryllotalpidae). We measured O(2) consumption, CO(2) production and acoustic power as the crickets called from their burrows in an open room. We utilized their calling burrow as the functional equivalent of a mask. Both species had a respiratory quotient near 0.85, indicative of metabolism based on a mix of carbohydrates and fats. The metabolic rate was significantly higher in S. borellii (11.6 mW g(-1)) than in S. vicinus (9.0 mW g(-1)) and averaged about eight- to fivefold greater, respectively, than resting metabolism. In some individuals, metabolic rate decreased by 20% during calling bouts. Costs of refurbishing calling burrows in S. borellii were less than calling costs, due to the behavior's short duration (ca. 15 min) and its relatively low average metabolic rate (4 mW). Acoustic power was on average sevenfold greater in S. borellii (21.2 vs 2.9 microW) and was more variable within individuals and across species than the metabolic rate. The efficiency of sound production was significantly higher in S. borellii (0.23 vs 0.03%). These values are below published estimates for other insects even though these mole crickets construct acoustic burrows that have the potential to increase efficiency. The cricket/burrow system in both species have an apparent Q(ln decrement) of about 6, indicative of significant internal damping caused by the airspaces in the sand that forms the burrow's walls. Damping is therefore an important cause of the low sound production efficiency. In field conditions where burrow walls are saturated with water and there is less internal damping, calls are louder and sound production efficiency is likely higher. File tooth depths and file tooth-to-tooth distances correlated with interspecific differences in metabolism and acoustic power much better than with wing stroke rates and plectrum-to-file tooth strike rates. To further investigate these correlations, we constructed two models of energy input to the tegminal oscillator. A model based on transfer of kinetic energy based on differences in tegminal velocity and file tooth spacing showed the most promise. Related calculations suggest that if there are no elastic savings, the power costs to accelerate and decelerate the tegmina are greater than the predicted power input to the tegminal oscillator, and that they are similar in the two species even though S. vicinus has a nearly threefold higher wing stroke rate.

Acoustics↗

PubMed1986

Gel electrophoresis of proteoglycan monomers of baboon articular cartilage separated by zonal rate centrifugation in sucrose gradients.

Proteoglycan monomers from articular cartilage of young baboons and of a baboon foetus were submitted to zonal rate centrifugation in sucrose gradients. The peaks obtained were analyzed by gel electrophoresis on polyacrylamide-agarose gels. The proteoglycan monomers corresponding to the bands obtained by gel-electrophoresis of unfractionated proteoglycans were separated in the gradients and the sedimentation distance correlated with the electrophoretic mobility.

Animals↗

PubMed1999

Benign expansile lesions of the sphenoid sinus: differentiation from normal asymmetry of the lateral recesses.

BACKGROUND AND PURPOSE: There is a wide range of normal variation is sphenoid sinus development, especially in the size of the lateral recesses. The purpose of this study was to determine imaging characteristics that may help differentiate between opacification of a developmentally asymmetric lateral recess and a true expansile lesion of the sphenoid sinus. METHODS: Coronal CT was performed in seven patients with expansile or erosive benign lesions of the sphenoid sinus, and results were compared to a control population of 72 subjects with unopacified sphenoid sinuses. The degree of asymmetry of lateral recess development was assessed with particular attention to the separation of vidian's canal and the foramen rotundum (vidian-rotundum distance). The images were also examined for evidence of: erosion, defined as loss of the normal thin bony margin on at least two contiguous sections; apparent thinning of the sinus wall, defined as a focal apparent decrease in thickness again on at least two contiguous sections; and for vidian's canal or foramen rotundum rim erosion or flattening. RESULTS: Of the seven patients with expansile lesions, vidian's canal margin erosion was present in seven, unequivocal sinus expansion in three, wall erosion in three, wall thinning in three, erosion of the foramen rotundum in two, and flattening in the foramen rotundum in four. Forty-one of the 72 controls had lateral recess formation, 28 of which were asymmetric. The distance between vidian's canal and the foramen rotundum (vidian-rotundum distance) relied on the presence or absence of pneumatization, with a significantly larger distance in the presence of greater wing pneumatization. Examination of 24 controls revealed apparent thinning of the sinus wall, typically at the carotid groove, but no flattening, thinning, or erosion of the vidian canal or of the foramen rotundum. CONCLUSION: Examination of controls and patients with expansile or erosive lesions of the sphenoid sinus revealed side-to-side asymmetry in the development of the sinus and lateral recess, making subtle expansion difficult to assess. Furthermore, variability in the vidian-rotundum distance correlated with degree of pneumatization, and did not necessarily reflect expansion. Thus, in the absence of gross sinus wall erosion, flattening or erosion of the rims of vidian's canal or the foramen rotundum provides the most specific evidence of an expansile or erosive process within the sinus.

Adolescent↗

PubMed2001

Cell relationship in a Wistar rat model of spontaneous prostatitis.

PURPOSE: Prostatitis in men is a painful, noninfectious inflammatory condition. It is similar to interstitial cystitis which is associated with increased bladder mast cell and sensory nerve fiber density as well as suprapubic pain. Certain strains of rats may provide a useful model for studies of the development of spontaneous prostatitis. We evaluated the time course, and involvement of mast cells and sensory nerve fibers in this process using Wistar rats. MATERIALS AND METHODS: The prostates of 4, 6, 8, 10 and 13-week-old male Wistar rats were examined for the degree of inflammation, innervation, mast cell density and nerve mast cell relationship using histochemical and immunocytochemical studies. Bacterial cultures of tissue were performed at 13 weeks. RESULTS: The inflammatory cell index increased progressively with age. Inflammation was moderate and consisted mostly of lymphocytes and macrophages associated with occasional glandular epithelial necrosis and edema. The density of nerve fibers immunoreacting with the neuronal marker protein gene produce 9.5 increased gradually with age and fibers immuno-positive for the sensory neuropeptide calcitonin gene-related peptide more than doubled by 13 weeks compared with by 4 weeks. The density of visible mast cells declined after 4 weeks in a pattern that corresponded with the increased percent of mast cells undergoing degranulation. For the mast cells with calcitonin gene-related peptide immuno-positive nerve fibers within a distance of 40 microm. distance correlated significantly with the degree of degranulation. Bacterial cultures were negative at 13 weeks. CONCLUSIONS: Our results confirm previous reports of spontaneous prostatitis in Wistar rats and indicate that moderate inflammation may occur in 80% of rats at as early as age 13 weeks. While the correlation of the nerve mast cell axis with mast cell degranulation does not prove our hypothesis of mast cell mediated inflammatory mediator release in the development of nonbacterial prostatitis, it suggests that such a relationship is possible.

Age Factors↗

PubMed2005

[Forest landscape restoration and its affecting factors in burned area of northern Great Xing'an Mountains--taking forest coverage as an example].

Forest landscape restoration has been an attractive issue since the catastrophic fire took place on the northern slope of Great Xing'an Mountains in 1987. Based on the China forest inventory data and employing Kendall Bivariate and Distances Correlation Analyses, an investigation was made to search for what changes of the forest coverage pattern being happened in this area during the past 13 years after fire, and how the fire severity, foster type and terrain factors influenced the restoration of forest coverage. The results showed that the forest coverage in 2000 changed a lot, in comparing with that in 1987 before fire. The percentage of non-stocked land area and coverage grade declined markedly, with lower coverage grade increased. Among all test factors, fire severity which was inversely correlated with forest coverage grade was the key one. Though the regeneration measures didn't markedly affect forest coverage restoration within a short period, they might shorten the cycle of forest succession and promote the productivity of coniferous forest in the future. Among three terrain factors, slope was the strongest one affecting forest coverage, followed by position and aspect.

Biodiversity↗

PubMed2006

Depth of the thoracic epidural space in children.

Thoracic epidural anaesthesia in anaesthetized children requires a meticulous technique and may have an increased success rate when the distance between skin and epidural space is known. The objective of this observational study was to measure the skin to epidural distance (SED) during thoracic epidural puncture in 61 children. The epidural puncture was performed using the loss of resistance technique with saline 0.9%. The distance from the needle tip to the point where the needle emerged from the skin was measured. The post-operative analgesia parameters were also measured. Skin to epidural distance correlated significantly with the age and weight of the children. The equation for the relation between SED (cm) and age was 2.15 + (0.01 x months) and for SED vs weight was 1.95 + (0.045 x kg). Despite considerable variability among individuals, the observed correlation of SED with both age and weight shows that this parameter may be helpful to guide thoracic epidural puncture in anaesthetized children.

Adolescent↗

PubMed1988

Ambulation in the adolescent with spina bifida. II. Oxygen cost of mobility.

This study was designed to determine the energy cost (measured as oxygen use) of walking and wheelchair propulsion in children aged 10 to 15 with myelomeningocele of thoracic to sacral levels, and to determine whether energy cost of mobility could be estimated from clinical measures. Oxygen consumption (measured with open circuit spirometry) and heart rate were measured during treadmill walking by 21 children, wheelchair use by eight children, and, for five children, in both modes. Speeds ranged from 27 to 134 m/min, with slopes up to 15%. Energy consumption for walking was linearly related to speed, slope, heart rate, and body weight (r = .90, p less than .001); for wheelchair propulsion, energy consumption was a linear function of speed, slope, and body weight (r = .90, p less than .001). The same linear function applied for all disabled children; maximum walk/run speed over a 30 m distance correlated highly with both maximal oxygen consumption (r = .87) and speed using 70% of VO2max (r = .82). For both wheelchair use and walking, the relative energy consumption (percentage of VO2max) was highly correlated with heart rate alone (r = .93), and the absolute level of energy consumption was highly correlated with heart rate and maximum walk/run speed (r = .89). Simple clinical measures of maximum ambulatory velocity and heart rate allow accurate prediction (r = .89) of energy consumption in all children with myelomeningocele, regardless of neurologic and functional level.

Adolescent↗

PubMed1996

Spontaneously hypertensive rats develop pulmonary hypertension and hypertrophy of pulmonary venous sphincters.

This study explored the spontaneously hypertensive rat as an animal model of pulmonary hypertension and sought to identify anatomic changes in its pulmonary microvasculature, especially focal constrictions of pulmonary veins (sphincters). The average systemic and pulmonary artery blood pressures were 172/139 (+/- 9/9) and 36/14 (+/- 4/3), respectively, for spontaneously hypertensive Wistar Kyoto rats (SHR), and 134/83 (+/- 8/2) and 20/10 (+/- 2/2) for normotensive Wistar Kyoto rats (WKY) (P < 0.01 for both). Light microscopy of the lungs in SHR showed muscularization of both arteries and veins, but this was more pronounced in the small pulmonary veins. Perivascular edema was also present. There were 20 (+/- 4) leukocytes per 100 microns of capillary length in SHR and 9 (+/- 2) in WKY (P < 0.001). Transmission electron microscopy showed focal venous smooth muscle was greater in SHR than in WKY. Scanning electron microscopy of vascular casts showed the average maximal focal venous contraction (sphincter) was 54% (+/- 10) of its diameter in SHR, but was only 6% (+/- 4) in WKY (P < 0.01). Arterial contraction occurred in the hypertensive rats as bourglass narrowings of the casts, but was less conspicuous than venous constrictions. The mean alveolar capillary diameter was 8.1 microns (+/- 1.6) in SHR, compared with 6.3 microns (+/- 1.0) in WKY (P < 0.01). The central interspace between capillaries was 3.2 microns (+/- 1.6) in SHR and 6.0 microns (+/- 3.6) in WKY (P < 0.01). The venous contraction, capillary size, and capillary interspace distance correlated with the pulmonary blood pressure. The spontaneously hypertensive rat can be a model of pulmonary hypertension with its most notable structural change being increased muscularity in the small pulmonary veins.

Animals↗

PubMed2003

Correlation between geographic distance and genetic similarity in an international collection of bovine faecal Escherichia coli O157:H7 isolates.

Evidence from epidemiological and molecular studies of bovine Escherichia coli O157:H7 suggests that strains are frequently transmitted across wide geographic distances. To test this hypothesis, we compared the geographic and genetic distance of a set of international bovine Escherichia coli O157:H7 isolates using the Mantel correlation. For a measure of genetic relatedness, pulsed-field gel electrophoresis of six different restriction enzyme digests was used to generate an average Dice similarity coefficient for each isolate pair. Geographic distance was calculated using latitude and longitude data for isolate source locations. The Mantel correlation between genetic similarity and the logarithm of geographic distance in kilometers was -0.21 (P<0.001). The low magnitude of the Mantel correlation indicates that transmission over long distances is common. The occurrence of isolates from different continents on the same cluster of the dendrogram also supports the idea that Escherichia coli O157:H7 strains can be transferred with considerable frequency over global distances.

Animals↗

PubMed2005

A simple tool to explore the distance distribution of correlated mutations in proteins.

The analysis of correlated mutations in protein sequence alignments is of considerable interest, since it may provide useful energetic and even structural information (ideally, residue contacts). However, a number of recent experimental studies support the existence of long-distance communication in proteins, a fact that may lead to correlation between distant residues. We introduce in this work a simple statistical procedure to describe the relation structure--alignments on the basis of the residue--residue distance dependence of the number of residue couples over given thresholds of a correlation measure (such as a covariance value). This procedure may lead to clear pictures of the distance distribution of correlated mutations and may provide a simple but efficient tool to explore the different structural features that are reflected in the sequence alignments.

Amino Acids↗

PubMed2000

Experimental evidence for the correlation of bond distances in peptide groups detected in ultrahigh-resolution protein structures.

The structural analysis of a deamidated derivative of ribonuclease A, determined at 0.87 A resolution, reveals a highly significant negative correlation between CN and CO bond distances in peptide groups. This trend, i.e. the CO bond lengthens when the CN bond shortens, is also found in seven out of eight protein structures, determined at ultrahigh resolution (<0.95 A). In five of them the linear correlation is statistically significant at the 95% confidence level. The present findings are consistent with the traditional view of amide resonance and, although already found in small peptide structures, they represent a new and important result. In fact, in a protein structure the fine details of the peptide geometry are only marginally affected by the crystal field and they are mostly produced by intramolecular and solvent interactions. The analysis of very high-resolution protein structures can reveal subtle information about local electronic features of proteins which may be critical to folding, function or ligand binding.

Carbon↗

PubMed2000

The ecology and genetics of fitness in Chlamydomonas. X. The relationship between genetic correlation and genetic distance.

A necessary condition for the maintenance of genetic variation in heterogeneous environments is that the relative fitnesses of a collection of genotypes vary as conditions of growth change. This can be detected by estimating the amount of gene-by-environment interaction (G x E) when a range of types are tested across a range of conditions. However it is the sign and magnitude of the genetic correlation, which is a component of G x E, that governs the ultimate fate of variation. Whether genetic variation will be preserved, then, depends on how the genetic correlation changes as a function of the ecological differences among environments and the genetic differences among genotypes. To evaluate this, we assayed the performance of 15 chlorophyte species of known genetic relation in 20 environments. We found that the quantity of G x E increased as both the environmental variance across environments and the genetic distance increased. Moreover the genetic correlation declined as the environmental variance between pairs of environments and the genetic distance between pairs of genotypes increased. These results suggest that divergent selection will be more likely to maintain genetic variation when environments are strongly contrasted and genotypes widely divergent.

Animals↗

PubMed2006

History, ocean channels, and distance determine phylogeographic patterns in three widespread Philippine fruit bats (Pteropodidae).

The comparative phylogeography of widespread, codistributed species provides unique insights into regional biodiversity and diversification patterns. I used partial DNA sequences of the mitochondrial genes ND2 and cyt b to investigate phylogeographic structure in three widespread Philippine fruit bats. Ptenochirus jagori is endemic to the oceanic region of the Philippines and is most abundant in lowland primary forest. Macroglossus minimus and Cynopterus brachyotis are most common in disturbed and open habitats and are not endemic. In all three, genetic differentiation is present at multiple spatial scales and is associated to some degree with Pleistocene landbridge island groups. In P. jagori and C. brachyotis, genetic distance is correlated with geographic distance; in C. brachyotis and M. minimus, it is correlated with the sea-crossing distance between islands. P. jagori has the least overall genetic structure of these three species, whereas C. brachyotis and M. minimus have more geographic association among haplotypes, suggesting that phylogeographic patterns are linked to ecology and habitat preference. However, contrary to expectation, the two widespread, disturbed habitat species have more structure than the endemic species. Mismatch distributions suggest rapid changes in effective population size in C. brachyotis and P. jagori, whereas M. minimus appears to be demographically more stable. Geologic and geographic history are important in structuring variation, and phylogeographic patterns are the result of dynamic long-term processes rather than simply reflecting current conditions.

Animals↗

PubMed1989

Correlation between genetic distances based on single loci and on skeletal morphology in inbred mice.

Genetic and morphometric distances between 12 inbred strains of mice ranging from closely related substrains to a sub-species were estimated using published data on single locus polymorphisms, and on the basis of up to 44 measurements on seven different bones, respectively. Simulation was also used to investigate sampling effects for the single loci. There were strong and statistically highly significant correlations among all measures of genetic distance ranging from 0.58 for the comparison of single loci with the logarithm of the Mahalanobis distance based on 24 measurements on four bones, to 0.72 for estimates of genetic distance based on single loci and the morphology of the mandible. These findings are in sharp contrast with those of Wayne & O'Brien (1986) who claimed that 'structural gene and morphometric variation of mandible traits are uncoupled between mouse strains'. Their failure to find such a correlation is probably because their sample of inbred strains included only a single pair of closely related substrains, and no substrains separated for less than 40 years, and because they failed to correct for non-linearity between morphometric and single-locus measurement scales. Simulations and regression analysis suggested that genetic distances could be estimated with approximately equal precision using morphological data on bone measurements or about 10 cladistically informative single loci, which would usually involve sampling about 50 loci. Data based on single-gene markers is usually more informative than morphometric data for studying the similarity of independently-derived strains. However, similarities among closely related populations such as sublines of an inbred strain can usually be studied more efficiently using morphometry.

Animals↗

PubMed2001

1H-1H MAS correlation spectroscopy and distance measurements in a deuterated peptide.

In this Communication, we demonstrate the use of deuteration together with back substitution of exchangeable protons as a means of attenuating the strong 1H-1H couplings that broaden 1H magic angle spinning (MAS) spectra of solids. The approach facilitates 15N-1H correlation experiments as well as experiments for the measurement of 1H-1H distances. The distance measurement relies on the excellent resolution in the 1H MAS spectrum and homonuclear double quantum recoupling techniques. The 1H-1H dipolar recoupling can be analyzed in an analytical fashion by fitting the data to a 2- or 3-spin system. The experiments are performed on a sample of the dipeptide N-Ac-Val-Leu-OH, which was synthesized from uniformly [2H, 15N] labeled materials and back-exchanged in H2O.

Deuterium↗

PubMed1987

[Genetic structure of aboriginal populations of northeastern USSR. VI. Correlations of genetic and geographic distances between populations and subpopulations].

Significant correlation of genetic distances (estimated for 17 polymorphic loci) between populations of Asia and Alaska Eskimos, coast and reindeer chuckchies, Kamchatka koryaks and Chuckotka even with geographic distances (r = 0.650; P less than 0.01) is shown. Also, significant correlation of genetic and geographic distances between 5 coast chuckchies subpopulations have been revealed (r = 0.871; P less than 0.001). The findings can indicate some ecological conditionality of population and subpopulation genetic structure's features.

Alaska↗

PubMed2006

Partial correlation coefficient between distance matrices as a new indicator of protein-protein interactions.

MOTIVATION: The computational prediction of protein-protein interactions is currently a major issue in bioinformatics. Recently, a variety of co-evolution-based methods have been investigated toward this goal. In this study, we introduced a partial correlation coefficient as a new measure for the degree of co-evolution between proteins, and proposed its use to predict protein-protein interactions. RESULTS: The accuracy of the prediction by the proposed method was compared with those of the original mirror tree method and the projection method previously developed by our group. We found that the partial correlation coefficient effectively reduces the number of false positives, as compared with other methods, although the number of false negatives increased in the prediction by the partial correlation coefficient. AVAILABILITY: The R script for the prediction of protein-protein interactions reported in this manuscript is available at http://timpani.genome.ad.jp/~parco/

Amino Acid Sequence↗

PubMed1999

Using sequence motifs for enhanced neural network prediction of protein distance constraints.

Correlations between sequence separation (in residues) and distance (in Angstrom) of any pair of amino acids in polypeptide chains are investigated. For each sequence separation we define a distance threshold. For pairs of amino acids where the distance between C alpha atoms is smaller than the threshold, a characteristic sequence (logo) motif, is found. The motifs change as the sequence separation increases: for small separations they consist of one peak located in between the two residues, then additional peaks at these residues appear, and finally the center peak smears out for very large separations. We also find correlations between the residues in the center of the motif. This and other statistical analysis are used to design neural networks with enhanced performance compared to earlier work. Importantly, the statistical analysis explains why neural networks perform better than simple statistical data-driven approaches such as pair probability density functions. The statistical results also explain characteristics of the network performance for increasing sequence separation. The improvement of the new network design is significant in the sequence separation range 10-30 residues. Finally, we find that the performance curve for increasing sequence separation is directly correlated to the corresponding information content. A WWW server, distanceP, is available at http://www.cbs.dtu.dk/services/distanceP/.

Algorithms↗