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At least 919 records · Page 51Linked to original sources
PubMed1984

Nucleotide sequence of a cloned duck hepatitis B virus genome: comparison with woodchuck and human hepatitis B virus sequences.

The nucleotide sequence of an EcoRI duck hepatitis B virus (DHBV) clone was elucidated by using the Maxam and Gilbert method. This sequence, which is 3,021 nucleotides long, was compared with the two previously analyzed hepatitis B-like viruses (human and woodchuck). From this comparison, it was shown that DHBV is derived from an ancestor common to the two others but has a slightly different genomic organization. There was no intergenic region between genes 5 and 8, which were fused into a single open reading frame in DHBV. Genes for the surface and core proteins were assigned to open reading frames 7 and 5/8. Amino acid comparisons showed some structural relationship between gene 6 product and avian reverse transcriptase, suggesting either evolution from a common ancestor or convergence to some particular structure to fulfill a specific function. This should be correlated with the synthesis of an RNA intermediate during DNA replication. This is also taken as an argument in favor of the hypothesis that gene 6 codes for the DNA polymerase that is found within the virion. DNA sequence comparison also showed that the two mammalian hepatitis B viruses are more homologous to each other than they are to DHBV, indicating that DHBV starts to evolve on its own earlier than the two other viruses, as do birds compared with mammals. From this it is proposed that the viruses evolved in a fashion parallel to the species they infect.

Amino Acid Sequence↗
PubMed2006

Evolving concepts in the measurement of treatment effects.

This is an interesting time in the evolution of clinical research, as the convergence of scientific, social, and technological advances influences the development of new measurement strategies and creates new challenges and opportunities in the evaluation of treatment outcomes. The purpose of this paper is to provide a brief overview of the forces of change influencing clinical research in general and measurement, specifically, discuss current challenges in the evaluation of treatment outcomes in chronic obstructive pulmonary disease and propose several areas for further research. Five key challenges are discussed: accuracy in the selection and measurement of endpoints; appropriate timing and recall; measurement efficiencies using aggregation techniques or item response theory; interpretation, including the debate concerning the minimal important difference; and the need for "real world" studies with real-world measures to understand treatment effectiveness. Each of these areas offers interesting challenges and opportunities for further development and research.

Biomedical Research↗
PubMed1997

[Acquisition of human bipedal gait from the viewpoint of the aquatic ape theory].

We are convinced that human bipedalism is better accounted for by the Aquatic Ape Theory than by the hypotheses, now commonly accepted, that the vertical gait is part of an adaptation for life in the savannahs. The advantages of the upright gait are easily understood by the versatility of this locomotion in a semi-aquatic mode of life. Early hominid bipedalism cannot be described as an ideal adaptation for one isolated form of locomotion, since human bipedalism covers a wide range of locomoter behaviours such as diving, swimming, wading, climbing trees and rocks, and moving on land. This locomotor versatility, however, should not be confused with theories that consider humans and their ancestors as "primitive" or "unspecialized" creatures. The pronounced swimming and diving abilities of humans--and the features that make these abilities possible--represents the most striking element of our species locomotor spectrum in comparison with highly specialized "savannah primates". On the one hand baboons and geladas are clearly better-adapted to savannah conditions than humans are, if the acquisitions of modern technology are not taken into consideration. To these adaptations belongs quadrupedalism, which is the most common and successful form of locomotion among terrestrial tetrapods. On the other hand, humans are in most respects much better swimmers and divers than nonhuman primates even without technological help. The only satisfying explanation for these different adaptations of humans and nonhuman primates is provided by the Aquatic Ape Theory. It is the only model of humans evolution that accounts for the numerous examples of convergent features between people and other vertebrates and the only model that explains these convergences in connection with a well-defined ecological niche.

Animals↗
PubMed1992

[Auto-adaptative network separator of sources].

This article defines a new convergence criterion for the modelization of networks with modifiable synapses, as presented by Jutten, Herault, Ans ([1], [2]). The network adaptation law, empirically determined in [1], [2], is reconsidered: a theoretical law concerning the evolution of system coefficients and outputs is demonstrated and validated on simulations. The system always converges towards a unique attractor, as predicted by the theoretical convergence criterion. This system evolution towards a particular stable state enhances the interesting physical aspect of this modelization.

Humans↗
PubMed2000

Plasticity and constraints in development and evolution.

Morphological similarities between organisms may be due to either homology or homoplasy. Homologous structures arise by common descent from an ancestral form, whereas homoplasious structures are independently derived in the respective lineages. The finding that similar ontogenetic mechanisms underlie the production of the similar structures in both lineages is not sufficient evidence of homology, as such similarities may also be due to parallel evolution. Parallelisms are a class of homoplasy in which the two lineages have come up with the same solution independently using the same ontogenetic mechanism. The other main class of homoplasy, convergence, is superficial similarity in morphological structures in which the underlying ontogenetic mechanisms are distinct. I argue that instances of convergence and parallelism are more common than is generally realized. Convergence suggests flexibility in underlying ontogenetic mechanisms and may be indicative of developmental processes subject to phenotypic plasticity. Parallelisms, on the other hand, may characterize developmental processes subject to constraints. Distinguishing between homology, parallelisms and convergence may clarify broader taxonomic patterns in morphological evolution.

Animals↗
PubMed2006

Shape patterns of genital papillae in pinworms (Enterobiinae, Oxyurida, Nematoda) parasite of primates: a landmark analysis.

The Enterobiinae includes 47 species of pinworms parasite of primates. A previous cladistic analysis of this subfamily supported its monophyly and its subdivision into three genera. Based on morphological characters, this cladistic analysis excluded characters describing the shape of the genital papillae of male pinworms, because the corresponding patterns could not be described using discrete characters. In this study, the shape of the genital papillae of the males of 35 within the 47 species is analyzed using geometric morphometric approaches. The aims of this study are to investigate: (i) the relationships between the phylogeny and the shape patterns of the caudal bursa, (ii) the shape differences between and within monophyletic groups, and (iii) the functional implications of the shape patterns observed within the subfamily. Results demonstrate that different patterns of evolution of the caudal bursa, each one characterized by a particular spatial distribution of the phasmids and genital papillae may be recognized, which are consistent with the classification of the Enterobiinae into three groups. On the whole, these patterns may be related to particular mating behavior of the pinworms. When incongruence is observed between shape patterns distribution and species distribution into monophyletic groups, they are found to correspond to homoplasic events. This suggests that convergent selective pressures are involved in the evolution of the shape of the genital papillae. This analysis also confirms that morphometric shape patterns cannot be interpreted unequivocally without the support of a pre-existing phylogenetic framework.

Animals↗
PubMed2002

Evaluating mental health outcomes in an inpatient setting: convergent and divergent validity of the OQ-45 and BASIS-32.

The evolution of managed behavioral health care has led to an increased emphasis on reliable and valid assessment of outcomes in clinical practice. The present study evaluated the convergent, divergent, and concurrent validity and sensitivity to change of two widely used measures: Behavior and Symptom Identification Scale (BASIS-32) and Outcome Questionnaire (OQ-45). Comparisons of the two measures revealed that both were sensitive to change over a relatively short inpatient stay. Both measures also showed evidence of convergent and divergent validity of specific subscales, although the total scores of each measure also were highly correlated. Evidence of concurrent validity was suggested by differences between diagnostic groups on specific subscale scores. Together with previous research, these results suggest that the BASIS-32 and OQ-45 can be useful measures for tracking patient functioning over a range of treatment contexts.

Adult↗
PubMedDate not supplied

On the structural features of fiber suspensions in converging channel flow.

The structural features of fiber suspensions are dependent on the fiber alignment in the flows. In this work the orientation distribution function and orientation tensors for semi-concentrated fiber suspensions in converging channel flow were calculated, and the evolutions of the fiber alignment and the bulk effective viscosity were analyzed. The results showed that the bulk stress and the effective viscosity were functions of the rate-of-strain tensor and the fiber orientation state; and that the fiber suspensions evolved to steady alignment and tended to concentrate to some preferred directions close to but not same as the directions of local streamlines. The bulk effective viscosity depended on the product of Reynolds number and time. The decrease of effective viscosity near the boundary benefited the increase of the rate of flow. Finally when the fiber alignment went into steady state, the structural features of fiber suspensions were not dependent on the Reynolds number but on the converging channel angle.

Computer Simulation↗
PubMed2024

The evolution of cnidarian stinging cells supports a Precambrian radiation of animal predators.

Cnidarians-the phylum including sea anemones, corals, jellyfish, and hydroids-are one of the oldest groups of predatory animals. Nearly all cnidarians are carnivores that use stinging cells called cnidocytes to ensnare and/or envenom their prey. However, there is considerable diversity in cnidocyte form and function. Tracing the evolutionary history of cnidocytes may therefore provide a proxy for early animal feeding strategies. In this study, we generated a time-calibrated molecular clock of cnidarians and performed ancestral state reconstruction on 12 cnidocyte types to test the hypothesis that the original cnidocyte was involved in prey capture. We conclude that the first cnidarians had only the simplest and least specialized cnidocyte type (the isorhiza) which was just as likely to be used for adhesion and/or defense as the capture of prey. A rapid diversification of specialized cnidocytes occurred through the Ediacaran (~654-574 million years ago), with major subgroups developing unique sets of cnidocytes to match their distinct feeding styles. These results are robust to changes in the molecular clock model, and are consistent with growing evidence for an Ediacaran diversification of animals. Our work also provides insight into the evolution of this complex cell type, suggesting that convergence of forms is rare, with the mastigophore being an interesting counterexample.

Animals↗
PubMedDate not supplied

[Origin and evolution of the hamuli in the monogeneans].

The hypothesis of the origin and evolution of the hamuli in monogeneans is proposed. It is suggested that the hamuli originated as the adult attachment organs of protomonogeneans inhabited the gills of the first vertebrates. Primarily they were represented by two lateral pairs of large hooks disposed anterior to the larval haptor. The fundamental direction in the evolution of monogeneans was the concentration of all attachment structures on the growing haptor. It the course of this evolutionary process, the hamuli onchoblasts migrated to the haptor, in which they had reached the position in the hind part of the haptor. The neotenic evolution of the Dactylogyridea and Gyrodactyloidea resulted in the forming new hamuli pairs. The hooks of opposite sides of the haptor are joined in a single complex within each side by the transverse plates (bars). So the presence of 4 hamuli is plesiomorphy for all the monogeneans and the presence of the transverse bars and new hamuli pairs are apomorphy for the Dactylogyridea and Gyrodactyloidea, whose evolution was linked with that of the Teleostei. The origin of the new hamuli pairs and transverse bars in the Dactylogyridea and Gyrodactyloidea appears to be a convergence.

Animals↗
PubMedDate not supplied

Terminal addition, the Cambrian radiation and the Phanerozoic evolution of bilaterian form.

We examine terminal addition, the process of addition of serial elements in a posterior subterminal growth zone during animal development, across modern taxa and fossil material. We argue that terminal addition was the basal condition in Bilateria, and that modification of terminal addition was an important component of the rapid Cambrian evolution of novel bilaterian morphology. We categorize the often-convergent modifications of terminal addition from the presumed ancestral condition. Our focus on terminal addition and its modification highlights trends in the history of animal evolution evident in the fossil record. These trends appear to be the product of departure from the initial terminal addition state, as is evident in evolutionary patterns within-fossil groups such as trilobites, but is also more generally related to shifts in types of morphologic change through the early Phanerozoic. Our argument is contingent on dates of metazoan divergence that are roughly convergent with the first appearance of metazoan fossils in the latest Proterozoic and Cambrian, as well as on an inference of homology of terminal addition across bilaterian Metazoa.

Animals↗
PubMed1998

Pair-bonding, female aggression and the evolution of lemur societies.

Lemur societies have been described as convergent with those of anthropoids, including Papio-like female-bonded multi-male groups. Recent research, however, shows at least 5 pair-bonded species among the Lemuridae and Indriidae. Three more, Eulemur mongoz, Eulemur fulvus and Varecia variegata, have societies combining aspects of pairing with aspects of troop life. The best-known female-bonded societies, those of Lemur catta, Propithecus diadema edwardsi and Propithecus verreauxi, may be assemblages of mother-daughter dyads, capable of high aggression towards other females, but derived from more solitary female ancestors, perhaps also living as pairs. The internal structure of such lemur groups differs from the more extensive kin groups of catarrhines. This in turn may relate to the lemurs' level of social intelligence and to lemur female dominance over males.

Aggression↗
PubMed2007

Conservation, convergence, and divergence of light-responsive, circadian-regulated, and tissue-specific expression patterns during evolution of the Arabidopsis GATA gene family.

In vitro analyses of plant GATA transcription factors have implicated some proteins in light-mediated and circadian-regulated gene expression, and, more recently, the analysis of mutants has uncovered further diverse roles for plant GATA factors. To facilitate function discovery for the 29 GATA genes in Arabidopsis (Arabidopsis thaliana), we have experimentally verified gene structures and determined expression patterns of all family members across adult tissues and suspension cell cultures, as well as in response to light and signals from the circadian clock. These analyses have identified two genes that are strongly developmentally light regulated, expressed predominantly in photosynthetic tissue, and with transcript abundance peaking before dawn. In contrast, several GATA factor genes are light down-regulated. The products of these light-regulated genes are candidates for those proteins previously implicated in light-regulated transcription. Coexpression of these genes with well-characterized light-responsive transcripts across a large microarray data set supports these predictions. Other genes show additional tissue-specific expression patterns suggesting novel and unpredicted roles. Genome-wide analysis using coexpression scatter plots for paralogous gene pairs reveals unexpected differences in cocorrelated gene expression profiles. Clustering the Arabidopsis GATA factor gene family by similarity of expression patterns reveals that genes of recent descent do not uniformly show conserved current expression profiles, yet some genes showing more distant evolutionary origins have acquired common expression patterns. In addition to defining developmental and environmental dynamics of GATA transcript abundance, these analyses offer new insights into the evolution of gene expression profiles following gene duplication events.

Amino Acid Motifs↗
PubMed2001

Mutualists and parasites: how to paint yourself into a (metabolic) corner.

Eukaryotes have developed an elaborate series of interactions with bacteria that enter their bodies and/or cells. Genome evolution of symbiotic and parasitic bacteria multiplying inside eukaryotic cells results in both convergent and divergent changes. The genome sequences of the symbiotic bacteria of aphids, Buchnera aphidicola, and the parasitic bacteria of body louse and humans, Rickettsia prowazekii, provide insights into these processes. Convergent genome characteristics include reduction in genome sizes and lowered G+C content values. Divergent evolution was recorded for amino acid and cell wall biosynthetic genes. The presence of pseudogenes in both genomes provides examples of recent gene inactivation events and offers clues to the process of genome deterioration and host-cell adaptation.

Adaptation, Physiological↗
PubMed2006

Protein-structure prediction by recombination of fragments.

The field of protein-structure prediction has been revolutionized by the application of "mix-and-match" methods both in template-based homology modeling and in template-free de novo folding. Consensus analysis and recombination of fragments copied from known protein structures is currently the only approach that allows the building of models that are closer to the native structure of the target protein than the structure of its closest homologue. It is also the most successful approach in cases in which the target protein exhibits a novel three-dimensional fold. This review summarizes the recent developments in both template-based and template-free protein structure modeling and compares the available methods for protein-structure prediction by recombination of fragments. A convergence between the "protein folding" and "protein evolution" schools of thought is postulated.

Peptide Fragments↗
PubMed1994

Origins of the parasitic habit in the nematoda.

Circumstances that probably attended and influenced the adoption and development of the parasitic habit amongst the Nematoda are examined. Features that allowed early terrestrial nematodes to exploit discontinuous habitats such as decomposing organic matter, are considered to have been advantageous to microbivorous Secernentea that became parasites of animals and plants. This development followed the appearance of a land flora and that the Amphibia were the first vertebrate hosts of nematodes. Life cycles involving intermediate hosts were essential in drier environments and in a aquatic ones where intermediate hosts preserve the infective stages; keeps them "in circulation", and makes them attractive to predators. It is concluded that the parasitic habit was adopted repeatedly in both Secernentea and Adenophorea, though the latter did not diversify as much. Convergence is a common feature of nematode evolution, and the typical life history pattern of 5 stadia separated by 4 moults is often greatly modified by suppression, extension and diversification of stages and their roles. There is a need to examine the nematodes, especially of invertebrates in the remaining rain forests of Gondwanaland before they disappear.

Adenophorea↗
PubMed2006

Genomic analysis of carbon source metabolism of Shewanella oneidensis MR-1: Predictions versus experiments.

Genomic sequences have been used to find the genetic foundation for carbon source metabolism in Shewanella oneidensis MR-1. Annotated S. oneidensis MR-1 gene products were examined for their sequence similarity to enzymes participating in pathways for utilization of carbon and energy as described in the BioCyc database (http://www.biocyc.org/) or in the primary literature. A picture emerges that relegates five- and six-carbon sugars to minor roles as carbon sources, whereas multiple pathways for utilization of up to three-carbon carbohydrates seem to be present. Capacity to utilize amino acids for carbon and energy is also present. A few contradictions emerged in which enzymes appear to be present by annotations but are not active in the cell according to physiological experiments. Annotations are based on close sequence similarity and will not reveal inactivity due to deleterious mutations or due to lack of coordination of regulation and transport. Genes for a few enzymes known by experiment to be active are not found in the genome. This may be due to extensive divergence after duplication or convergence of function in separate lines in evolution rendering activities undetectable by sequence similarity. To minimize false predictions from protein sequences, we have been conservative in predicting pathways. We did not predict any pathway when, although a partial pathway was seen it was composed largely of enzymes already accounted for in any other complete pathway. This is an example of how a biochemically oriented sequence analysis can generate questions and direct further experimental investigation.

Bacterial Proteins↗
PubMed2003

Modulation of ingested water absorption by Palestine sunbirds: evidence for adaptive regulation.

Nectarivorous birds feed on dilute sugar solutions containing trace amounts of amino acids and electrolytes. To meet their high mass-specific energy demands they must often deal with exceptionally high proportionate water fluxes. Despite nectar intake rates that may reach more than five times body mass per day, hummingbirds appear to absorb all ingested water. Here, we report the results of experiments designed to examine the relationship between nectar intake and water turnover in nectar-feeding Palestine sunbirds (Nectarinia osea). Like hummingbirds, sunbirds ingested large amounts of water. At the lowest sucrose concentration (292 mmol l(-1)), food intake rates reached 2.2 times body mass. Fractional and total water turnover increased linearly with water ingestion, but the fraction of ingested water absorbed by sunbirds decreased from 100% to 36% with increasing water intake rate. Palestine sunbirds may therefore avoid absorbing, and thus having to eliminate, up to 64% of their ingested water load when feeding on dilute nectars. To our knowledge, this is the first documentation of regulation of water flux across the gastrointestinal tract to the body. Our data suggest that sunbirds regulate transepithelial water flux independently of sugar absorption. These intriguing results open the door to many questions about how water transport is regulated in the vertebrate gastrointestinal tract. We suggest that intestinal water and body water form two separate but interacting pools in nectar-feeding birds. Convergence in diet has led to the evolution of many similar traits in hummingbirds and sunbirds. The physiological traits of these two groups that allow the processing of a water and sugar diet, however, may be very different.

Adaptation, Physiological↗