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PubMed1992

Within-subject biological variation of hematological quantities and analytical goals.

For several common hematological quantities, the within-subject biological variation during a 1-year period was estimated in a group of 39 apparently healthy volunteers: 19 women and 20 men. All measurements were performed with a hematological analyzer (Toa E-5000, Toa Medical Electronics, Kobe, Japan). The means of the within-subject biological coefficients of variation, separated by sex when significant difference was shown, were as follows: 2.8% for hemoglobin concentration; 3.0% for erythrocyte concentration; 2.9% for erythrocyte volume fraction; 1.1% for mean erythrocyte volume; 1.9% for arbitrary SD of erythrocyte volume; 1.6% for mean erythrocyte hemoglobin concentration; 1.3% for mean erythrocyte hemoglobin; 10.8% in men and 15.7% in women for leukocyte concentration; and 6.7% in men and 8.6% in women for platelet concentration. The desirable between-day imprecisions for the measurement of each quantity were established as one half of the average of within-subject biological variation.

Adult↗
PubMed1987

Antigenic variation and lentivirus persistence: variations in envelope gene sequences during EIAV infection resemble changes reported for sequential isolates of HIV.

The extent and nature of genomic variation among nine antigenically distinct EIAV isolates recovered during sequential clinical episodes from two experimentally infected ponies were examined by restriction fragment analysis and nucleotide sequencing. Only minor variations in restriction enzyme patterns were observed among the viral genomes. In contrast, env gene sequences of four isolates from one pony revealed numerous clustered base substitutions. Divergence in env gene nucleotide and deduced amino acid sequences between pairs of virus isolates ranged from 0.62 to 3.4% env gene mutation rates for isolates recovered during sequential febrile episodes were calculated to be greater than 10(-2) base substitutions per site per year. The degree and nature of env gene variation in EIAV is remarkably similar to the human immunodeficiency virus, suggesting common mechanisms for env gene variation among lentiviruses.

Amino Acid Sequence↗
PubMedDate not supplied

Sequence diversity and haplotype structure at the human CYP3A cluster.

The four members of the human CYP3A subfamily play important roles in the clearance of xenobiotics, hormones, and environmental compounds. Many SNPs at the CYP3A locus have been characterized, with several showing large allele frequency differences across populations. In addition to the effects of CYP3A SNPs on drug metabolism, recent studies have highlighted the potential for CYP3A variation in susceptibility to several common phenotypes, including hypertension and cancer. We previously showed that the CYP3A4 and CYP3A5 genes have a strong haplotype structure at varying frequencies across ethnic groups. Here, we extend our re-sequencing survey to the remaining CYP3A genes in the same cluster, CYP3A7 and CYP3A43. Our study identified a large number of SNPs in coding and conserved noncoding sequences, several of which are common. The combined data set allows us to investigate patterns of sequence variation and linkage disequilibrium at the entire CYP3A locus for use in future association studies.

Black or African American↗
PubMedDate not supplied

Formation of nucleolar polymorphisms in trisomic chickens and subsequent microevolution of rRNA gene clusters in diploids.

Variations in nucleolar size are common in animals and man, yet the basis and significance of this variation are not well understood. In this report, we describe the generation de novo of individuals that express nucleolar size variations (polymorphisms) and the underlying basis for this phenotype in a vertebrate animal system (Gallus domesticus). Individuals that express nucleolar size polymorphisms were produced from mating chickens trisomic for the nucleolar organizer (NO) chromosome; 10%-18% of progeny demonstrated nucleolar polymorphisms. These progeny were incorporated into a diploid genetic line in which the polymorphic trait was observed to segregate in Mendelian fashion. An even more dramatic nucleolar size polymorphism (one macro- plus one micronucleolus) evolved in one diploid family over the course of only two generations. These individuals were used to ascertain that the polymorphic-nucleoli phenotype was expressed in tissues derived from the three primary embryonic cell layers in embryos and neonates. Image analysis was conducted on cells of these birds to quantitate the size differences between macro- and micronucleoli (5 mu2 versus 1 mu2, respectively). Finally, these birds were studied with the technique of in situ hybridization, which showed that gene number differences between homologous NO chromosomes (i.e., heterozygosity for rRNA gene copy number), underlies the polymorphic-nucleoli phenotype. Thus, the chicken emerges as an experimental system through which heterozygosity for the rRNA gene copy number can be induced, easily identified, transmitted, and expressed in all somatic tissues.(ABSTRACT TRUNCATED AT 250 WORDS)

Animals↗
PubMed1994

Associations of genotypes at the apolipoprotein AI-CIII-AIV, apolipoprotein B and lipoprotein lipase gene loci with coronary atherosclerosis and high density lipoprotein subclasses.

Association studies were carried out in a sample of 86 patients from Sweden who had survived a myocardial infarction (MI) at a young age and 93 age-matched healthy individuals, to compare the impact of polymorphisms at the apolipoprotein (apo) AI-CIII-AIV gene cluster on among-individual differences in plasma lipid and lipoprotein traits, the five high density lipoprotein (HDL) subclasses (2b to 3c), lipoprotein lipase (LPL) activity and presence and progression of atherosclerosis. Individuals were genotyped for four polymorphisms; 5'apoAI (G/A-75), 3'apoAI (PstI; P +/-), apoCIII (C/T1100) and apoCIII (PvuII; V +/-), using PCR-based techniques. Allele frequencies were similar in healthy individuals and patients (frequencies of alleles in combined population: 5'apoAI-A-75 = 0.14, 3'apoAI-P- = 0.05, apoCIII-T1100 = 0.27 and apoCIII-V- = 0.18). In the healthy individuals, levels of low density lipoprotein (LDL) triglycerides were significantly associated with genotypes of the apoCIII-PvuII polymorphism (p = 0.02), but no other associations were found between lipids or HDL subclasses and single polymorphisms in the apoAI-CIII-AIV gene cluster. Levels of triglycerides and very low density lipoprotein (VLDL) triglycerides were significantly higher in the presence of the haplotype defined by the presence of apoCIII-T1100 and common alleles of the other three polymorphisms, explaining 5.8% and 7.8% (p = 0.03 and 0.01), respectively, of sample variance. In the patients, no associations were found between lipids or HDL subclasses and variation at the apoAI-CIII-AIV gene cluster. Associations were also examined between levels of HDL subclasses and variation at the apoE (common isoforms), apoB (signal peptide and XbaI polymorphisms) and lipoprotein lipase (PvuII, HindIII and Serine447/Stop polymorphisms) gene loci. In the patient group only, levels of protein in HDL2b, HDL2a and HDL3b subclasses were significantly associated with genotypes of the LPL-HindIII polymorphism (22.1, 19.3 and 11.4%, respectively, of sample variance; p < 0.05). Finally, associations were examined between genotypes at the apoAI-CIII-AIV gene cluster and the extent of coronary atherosclerosis. Global severity of atherosclerosis at the first angiography was weakly associated with genotypes of the apoCIII-C/T1100 polymorphism, presence of the T1100 allele being associated with 53% lower median score (1.6 vs 0.75; p = 0.09).(ABSTRACT TRUNCATED AT 400 WORDS)

Adult↗
PubMed2005

Does testis weight decline towards the Subarctic? A case study on the common frog, Rana temporaria.

Interpopulation comparisons of variation in resource availability and in allocation patterns along altitudinal and latitudinal gradients allow insights into the mechanisms shaping the life history of animals. Patterns of between-population differences in female life history traits have been studied intensively across a wide range of taxa, but similar investigations in males have remained scarce. To study if testis weight-a measure of reproductive investment-varies on a geographical scale in anurans, we focussed on the variation in relative testis weight (RelTW) and asymmetry in 22 populations of the common frog Rana temporaria along a 1,600-km latitudinal transect across the Scandinavian peninsula. We found that RelTW decreased towards the north. Body mass and body length both had independent positive effects on testes mass. We found evidence for directional asymmetry (DA) in testis weight with the right testis being larger than the left. The level of DA in testis weight was not related to latitude, but both body mass and testes mass had independent positive effects on asymmetry. We discuss the northwards decrease in RelTW in terms of a decreased reproductive investment as a possible consequence of harsher environmental conditions, and perhaps also, weaker sexual selection in the north than in the south.

Animals↗
PubMed2005

Indirect interaction between two native thistles mediated by an invasive exotic floral herbivore.

Spatial and temporal variation in insect floral herbivory is common and often important. Yet, the determinants of such variation remain incompletely understood. Using 12 years of flowering data and 4 years of biweekly insect counts, we evaluated four hypotheses to explain variation in damage by the Eurasian flower head weevil, Rhinocyllus conicus, to the native North American wavyleaf thistle, Cirsium undulatum. The four factors hypothesized to influence weevil impact were variations in climate, weevil abundance, phenological synchrony, and number of flower heads available, either on wavyleaf thistle or on the other cooccurring, acquired native host plant (Platte thistle, Cirsium canescens), or on both. Climate did not contribute significantly to an explanation of variation in R. conicus damage to wavyleaf thistle. However, climate did influence weevil synchrony with wavyleaf flower head initiation, and phenological synchrony was important in determining R. conicus oviposition levels on wavyleaf thistle. The earlier R. conicus was active, the less it oviposited on wavyleaf thistle, even when weevils were abundant. Neither weevil abundance nor availability of wavyleaf flower heads predicted R. conicus egg load. Instead, the strongest predictor of R. conicus egg load on wavyleaf thistle was the availability of flower heads on Platte thistle, the more common, earlier flowering native thistle in the sand prairie. Egg load on wavyleaf thistle decreased as the number of Platte thistle flower heads at a site increased. Thus, wavyleaf thistle experienced associational defense in the presence of flowering by its now declining native congener, Platte thistle. These results demonstrate that prediction of damage to a native plant by an exotic insect may require knowledge of both likely phenological synchrony and total resource availability to the herbivore, including resources provided by other nontarget native species.

Animals↗
PubMed1999

Antibiotic prescribing for respiratory tract infections in general practice.

OBJECTIVES: (1) To describe interpractice variation in diagnosis of respiratory infections at consultation. (2) To test the hypotheses that: (a) The decision to prescribe an antibiotic in respiratory infection is influenced by the diagnosis, the perceived certainty of diagnosis, and whether or not a consultation takes place. (b) The choice of antibiotic is influenced by the diagnosis. DESIGN: A regional survey of prescribing and associated morbidity in general practice, over a 2-week period in April 1994. SETTING: Stratified quota sample of 22 Northern Ireland practices. RESULTS: There was wide interpractice variation in diagnosis of common respiratory infections at consultation, especially tonsillitis (5.0-157.5/1000 consultations). Overall, different diagnoses predicted the decision to prescribe an antibiotic at different levels (coryza 42.3%, tonsillitis 84.8%), but there was wide interpractice variation in the decision to prescribe for most diagnoses. With the exception of coryza and sinusitis, the perceived certainty of diagnosis did not significantly influence the decision to prescribe. The decision to prescribe was not significantly influenced by whether or not a consultation took place. Overall, broad spectrum penicillins were the therapeutic group most frequently prescribed for a given diagnosis with the exception of tonsillitis (phenoxymethylpenicillin) and sinusitis (tetracyclines), but there was wide interpractice variation in choice of antibiotic. CONCLUSIONS: Little consensus exists among practices regarding rational prescribing decisions in respiratory illness. The absence of a consultation was no deterrent to antibiotic prescribing. At one extreme, it is suggested that some practices are avoiding consultations for respiratory infections. There is wide variation in choice of antibiotic, despite existing guidelines.

Journal Article↗
PubMed2001

Population genetics and colony structure of the Argentine ant (Linepithema humile) in its native and introduced ranges.

Introduced species often possess low levels of genetic diversity relative to source populations as a consequence of the small population sizes associated with founder events. Additionally, native and introduced populations of the same species can possess divergent genetic structuring at both large and small geographic scales. Thus, genetic systems that have evolved in the context of high diversity may function quite differently in genetically homogeneous introduced populations. Here we conduct a genetic analysis of native and introduced populations of the Argentine ant (Linepithema humile) in which we show that the population-level changes that have occurred during introduction have produced marked changes in the social structure of this species. Native populations of the Argentine ant are characterized by a pattern of genetic isolation by distance, whereas this pattern is absent in introduced populations. These differences appear to arise both from the effects of recent range expansion in the introduced range as well as from differences in gene flow within each range. Relatedness within nests and colonies is lower in the introduced range than in the native range as a consequence of the widespread genetic similarity that typifies introduced populations. In contrast, nestmates and colony-mates in the native range are more closely related, and local genetic differentiation is evident. Our results shed light on the problem posed for kin selection theory by the low levels of relatedness that are characteristic of many unicolonial species and suggest that the loss of genetic variation may be a common mechanism for the transition to a unicolonial colony structure.

Animals↗
PubMedDate not supplied

[The influence of examination stress on psychophysiological characteristics and heart rate in students].

With the aim to assess the influence of pre-examination psychoemotional stress on the level of centralization of the heart rate control, mathematical analysis of ECG of students was performed in normal condition (a common day of academic semester), before, and after an examination. The ECG was recorded and processed with the help of IBM-486 PC. R-R cardiointevalograms were processed by the method of variational pulsometry after Baevsky. Common quantitative heart rate indices were studied. The level of anxiety of students was assessed by Spilberger, and subjective estimations of general condition, activity and mood were obtained from the respective questionnaire. Three types of heart rate reactions on the examination stress were revealed. The reactions depended on the individual typological characteristics and the state of autonomic nervous system.

Autonomic Nervous System↗
PubMed2003

Differential expression and haplotypic variation of two interleukin-1beta genes in the common carp (Cyprinus carpio L.).

Interleukin-1beta (IL-1beta) is a central component in innate immunity and the inflammatory response of mammals. Only recently, the first non-mammalian IL-1beta sequences were published. In this study, we describe a second IL-1beta sequence (IL-1beta2) in carp with 74% amino acid identity to the carp IL-1beta1 sequence. The existence of two IL-1beta copies in the carp genome probably originates from the tetraploid nature of the species. In contrast to the first carp IL-1beta sequence, IL-1beta2 is represented by multiple genes with 95-99% identity. Detection of several IL-1beta2 sequences within individual homozygous fish suggests the presence of multiple copies of the IL-1beta2 gene in the carp genome, possibly as a result of subsequent gene duplication of IL-1beta2. In vivo, constitutive mRNA expression of both IL-1beta genes was found in healthy carp. IL-1beta2 mRNA expression could be up-regulated in head kidney cells similar to carp IL-1beta1, in vivo by infection with Trypanoplasma borreli and in vitro by stimulation with lipopolysaccharide (LPS). Cortisol, the major glucocorticoid in fish, is an endocrine-derived fator mediating IL-1beta expression. Although constitutive IL-1beta expression was inhibited by a physiological dose of cortisol, cortisol synergistically enhanced LPS-induced IL-1beta expression in carp. Involvement of the transcription factor nuclear factor (NF)-kappaB in expression of IL-1beta1 and IL-1beta2 was demonstrated. Ratio of IL-1beta expression was determined and this showed IL-1beta1 mRNA expression to be at least tenfold higher compared with IL-1beta2. The possibilities of IL-1beta2 being a functional gene or approaching pseudogene status are discussed.

Amino Acid Sequence↗
PubMed2006

After-rape among three populations in the Southwest: a time of mourning, a time for recovery.

Narrative analysis of open-ended interviews with 62 female survivors of rape from three populations in the Southwest (Native American, Mexican American, Anglo) uncovered commonalities and dissimilarities in women's description of their experience of afterrape (rape survival). Although all three groups reported experiences that confirm aspects of prior analyses of reactions to rape, the narrative analysis highlights variations in reactions to rape across the three groups. These variations, and more established commonalities, provide baseline material for strengthening primary and secondary interventions for women who have experienced sexual violence.

Adult↗
PubMed1996

Bacterial diversity at surface water in three locations within the Baltic sea as revealed by culture-dependent molecular techniques.

Diversity of culturable bacteria inhabiting the Baltic sea surface waters was studied in three separate locations. Based on electrophoretically separated whole cell proteins the number of operational taxonomic units (OTU) within each sampling location was high. Most of the OTUs were unique to single locations. Within each sampling location 8-22% of isolates belonged to a single OTU. Rarefaction analysis revealed that the bacterial community was more divergent at a polluted location than at clean areas. Also the most common OTUs were different in clean locations compared to the polluted site suggesting that both diversity and species composition of the bacterial community is greatly affected by pollution. The partial 16S rRNA gene sequences of the isolates of the most common OTUs are unique. Intragroup variation and an OTU-specific bacteriocin system was observed among the isolates of the second common OTU. The bacteriocin activity was linked to restriction fragment length polymorphism grouping, although additional variation correlating to geographic origin of isolates was observed.

Bacteria↗
PubMed2002

Phylogeographic analysis of the brooding brittle star Amphipholis squamata (Echinodermata) along the coast of New Zealand reveals high cryptic genetic variation and cryptic dispersal potential.

Direct development in benthic marine invertebrates is usually associated with narrow geographical range, low rates of colonization, and low levels of gene flow. Paradoxically, the small brittle star Amphipholis squamata broods its larvae to a crawl-away juvenile stage, yet has a cosmopolitan distribution. Using sequence and restriction-fragment-length-polymorphisms (RFLP) analyses of nuclear and mitochondrial DNA from 16 coastal populations throughout New Zealand, we tested whether the species is indeed a poor disperser, as may be expected from its brooding habit. We predicted that local and regional populations would be genetically structured according to isolation by distance. We also suspected that this ubiquitous "species" is composed of a variety of cryptic taxa in different geographic areas, as has been discovered in an increasing number of marine invertebrates. We found evidence of four genetically divergent and reproductively isolated lineages that can exist in syntopy. Lineages vary in abundance, haplotype diversity, and geographic distribution. The partitioning of genetic variation within the most common lineage, as well as the geographic distribution of the four lineages, suggest a north/south split. This pattern is consistent with known New Zealand marine biogeographic zones and appears to be linked to the regime of oceanic circulation, which is characterized by subtropical, southward-moving water masses in the north, and sub-Antarctic, northward-moving water in the south. We conclude that the dispersal ability of A. squamata is regionally restricted but with sporadic long-distance dispersal, which serves to increase local genetic variation. Our results support the idea that dispersal occurs through passive transport by drifting or rafting on macroalgae, which A. squamata commonly inhabits, and emphasize that poor dispersal ability is not necessarily a corollary of direct development.

Analysis of Variance↗
PubMed2005

Quantifying and addressing parameter indeterminacy in the classical twin design.

The classical twin design (CTD) is the most common method used to infer genetic and environmental causes of phenotypic variation. As has long been acknowledged, different combinations of the common environment/assortative mating, and additive, dominant, and epistatic genetic effects can lead to the same observed covariation between twin pairs, meaning that there is an inherent indeterminacy in parameter estimates arising from the CTD. The CTD circumvents this indeterminacy by assuming that higher-order epistasis is negligible and that the effects of either dominant genetic variation or the common environment are nonexistent. These assumptions, however, lead to consistent biases in parameter estimation. The current paper quantifies these biases and discusses alternative strategies for dealing with parameter indeterminacy in twin designs. One strategy is to model the similarity among other relatives in addition to twins (extended twin-family designs), which reduces but does not eliminate indeterminacy in parameter estimates. A more general strategy, applicable to all twin designs, is to present the parameter indeterminacy explicitly, as in a graph. Presenting the space of mathematically equally likely parameter values is important, not only because it aids the proper interpretation of twin design findings, but also because it keeps behavioral geneticists themselves mindful of methodological assumptions that can easily go unexamined.

Humans↗
PubMed2003

High-throughput SNP analysis for genetic association studies.

Single nucleotide polymorphisms (SNPs) are the most common type of genetic variation, and millions of SNPs are now documented. Because of their dense distribution across the genome, SNPs are viewed as ideal markers for large-scale genome-wide association studies to discover genes in common complex diseases, such as cancer. To enable such studies, researchers have constructed appropriate sets of SNP markers, by selecting SNPs that are common in major human populations and by charting the patterns of co-occurrence of SNPs, which could further guide marker selection. High-throughput SNP analysis technologies have also been developed, which can analyze thousands of SNPs in thousands of samples. As SNP analysis techniques and SNP marker sets are improving, researchers have begun to carry out large-scale genome scans for disease genes, with encouraging first results.

Animals↗
PubMed1985

Aquatic prey capture in ambystomatid salamanders: patterns of variation in muscle activity.

Functional morphologists commonly study feeding behavior in vertebrates by recording electrical activity from head muscles during unrestrained prey capture. Rarely are experiments designed to permit a partitioning variation in muscle electrical activity patterns. Analysis of muscle activity during aquatic prey capture in two morphologically distinct species of salamanders, Ambystoma dumerilii and A. mexicanum, is conducted to assess variation at four levels: between species, among individuals within species, among experiments conducted on different days, and among feedings. The results show that 1) mean correlations among the 11 electromyographic variables measured for each feeding are low and vary considerably among individuals, 2) many of the variables show significant differences among experimental days, 3) only one variable, the difference in timing between the depressor mandibulae and sternohyoideus muscles, showed significant variation between species, and 4) seven of the 11 variables showed significant variation among individuals within species. Overall, the variation between feedings (trials) was high, and there was some variation between days on which the experiments were conducted. Neither electrode position within the muscle nor satiation contributed to the high trial variance. The results suggest that functional analyses of feeding behavior should include an assessment of variation due to individuals, days, and trials, because the amount of variation at these levels may render differences between species nonsignificant.

Activity Cycles↗