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PubMed2001

Phagocytosis and the actin cytoskeleton.

The process of engulfing a foreign particle - phagocytosis - is of fundamental importance for a wide diversity of organisms. From simple unicellular organisms that use phagocytosis to obtain their next meal, to complex metazoans in which phagocytic cells represent an essential branch of the immune system, evolution has armed cells with a fantastic repertoire of molecules that serve to bring about this complex event. Regardless of the organism or specific molecules concerned, however, all phagocytic processes are driven by a finely controlled rearrangement of the actin cytoskeleton. A variety of signals can converge to locally reorganise the actin cytoskeleton at a phagosome, and there are significant similarities and differences between different organisms and between different engulfment processes within the same organism. Recent advances have demonstrated the complexity of phagocytic signalling, such as the involvement of phosphoinostide lipids and multicomponent signalling complexes in transducing signals from phagocytic receptors to the cytoskeleton. Similarly, a wide diversity of 'effector molecules' are now implicated in actin-remodelling downstream of these receptors.

Actins↗

PubMed1984

Brain traits through phylogeny: evolution of neural characters.

We have previously derived a hypothetical tree of the lines of mammalian descent, based upon a comprehensive numerical taxonomic cross-analysis of primitive and derived states of 15 brain traits in 38 representative species. In this communication we use this tree to describe the probable sequence of changes that have taken place in phylogenetic history. 2 characters proved to be multiply convergent, occurring in parallel in several disparate lines of descent. The remaining 9 characters each appeared in ancestors of one or another of the lineages and characterize related progeny.

Animals↗

PubMed1998

Positional behavior and vertebral morphology in atelines and cebines.

Atelines are of particular interest to primate evolutionary studies because they converge with hominoids in postcranial anatomy, including the vertebral column. Currently, our understanding of ateline vertebral morphology is limited to mainly qualitative descriptions and functional interpretations based on general categories of positional behavior. Even less is known about the vertebrae of other platyrrhines. This study more closely examines vertebral form and function in atelines and cebines by combining direct field observations of axial postures and movements, assessments of spinal loading regimes, and a detailed vertebral morphometric analysis. Field observations (Corcovado, Costa Rica) on Ateles geoffroyi, Alouatta palliata, Cebus capucinus, and Saimiri oerstedii were quantified in conjunction with a morphometric analysis of ateline and cebine lumbar vertebrae. Hylobates was also included for comparison. Compared to Cebus and Saimiri, atelines engage more frequently in postures and locomotor behaviors that induce pronounced bending loads on the spine. All atelines share lumbar adaptations for resisting bending, including ventrodorsally elongated vertebral bodies and perpendicularly oriented transverse processes. Among atelines, lumbar region lengths and vertebral bodies are shortest in Ateles and Brachyteles, longest in Alouatta (resembling Cebus), and intermediate in Lagothrix. Compared to Cebus and all atelines, Saimiri has a relatively longer lumbar region, longer and less ventrodorsally expanded vertebral bodies, and more ventrally oriented transverse processes. These features accentuate bending loads, but increase the sagittal flexibility required for leaping. Vertebral convergence between hylobatids and atelines is more readily interpretable as a product of shared spinal loading patterns than shared positional behaviors.

Animals↗

PubMed2002

Singularity in budding: a role for the evolutionarily conserved small GTPase Cdc42p.

The budding yeast Saccharomyces cerevisiae initiates polarized growth or budding once per cell cycle at a specific time of the cell cycle and at a specific location on the cell surface. Little is known about the molecular nature of the temporal and spatial regulatory mechanisms. It is also unclear what factors, if any, among the numerous proteins required to make a bud are involved in the determination of budding frequency. Here we describe a class of cdc42 mutants that produce multiple buds at random locations on the cell surface within one nuclear cycle. The critical mutation responsible for this phenotype affects amino acid residue 60, which is located in a domain required for GTP binding and hydrolysis. This mutation bypasses the requirement for the essential guanine-nucleotide-exchange factor Cdc24p, suggesting that the alteration at residue 60 makes Cdc42p hyperactive, which was confirmed biochemically. This result also suggests that the only essential function of Cdc24p is to activate Cdc42p. Together, these data suggest that the temporal and spatial regulation of polarized growth converges at the level of Cdc42p and that the activity of Cdc42p determines the budding frequency.

Amino Acid Substitution↗

PubMed2004

The Bacillus subtilis sin operon: an evolvable network motif.

The strategy of combining genes from a regulatory protein and its antagonist within the same operon, but controlling their activities differentially, can lead to diverse regulatory functions. This protein-antagonist motif is ubiquitous and present in evolutionarily unrelated regulatory pathways. Using the sin operon from the Bacillus subtilis sporulation pathway as a model system, we built a theoretical model, parameterized it using data from the literature, and used bifurcation analyses to determine the circuit functions it could encode. The model demonstrated that this motif can generate a bistable switch with tunable control over the switching threshold and the degree of population heterogeneity. Further, the model predicted that a small perturbation of a single critical parameter can bias this architecture into functioning like a graded response, a bistable switch, an oscillator, or a pulse generator. By mapping the parameters of the model to specific DNA regions and comparing the genomic sequences of Bacillus species, we showed that phylogenetic variation tends to occur in those regions that tune the switch threshold without disturbing the circuit function. The dynamical plasticity of the protein-antagonist operon motif suggests that it is an evolutionarily convergent design selected not only for particular immediate function but also for its evolvability.

Bacillus subtilis↗

PubMed2005

Evolution of sexual isolation during secondary contact: genotypic versus phenotypic changes in laboratory populations.

We monitored the phenotypic and genotypic changes that occur when two behavioral races come into contact in laboratory populations. Drosophila melanogaster from Zimbabwe and nearby regions (Z type) show strong but asymmetric sexual isolation from their cosmopolitan counterparts (M type). Crosses of Z females and M males do not take place readily when other choices are available. At least 15 loci are known to control Z-type mating preferences and performance. By thoroughly mixing the genomes of the two types in laboratory populations, we artificially created maximum secondary contact. Despite the strength of sexual selection favoring Z-type male characters, Z-type behavior is eliminated or greatly diminished in all 12 hybrid populations after only 60 generations. This trend is consistent with the spread of the M-type behavior throughout the world as well as a detailed analysis of fitness components. Surprisingly, in contrast with the phenotypic convergence toward the M-type, genotypic samples broadly covering the genomic regions of mapped behavioral loci show no such trend. The genome appears to be "fine grained," with adjacent loci having different evolutionary dynamics and genealogical histories.

Alleles↗

PubMed2006

Phylogeny of the Procyonidae (Mammalia: Carnivora): molecules, morphology and the Great American Interchange.

The Procyonidae (Mammalia: Carnivora) have played a central role in resolving the controversial systematics of the giant and red pandas, but phylogenetic relationships of species within the family itself have received much less attention. Cladistic analyses of morphological characters conducted during the last two decades have resulted in topologies that group ecologically and morphologically similar taxa together. Specifically, the highly arboreal and frugivorous kinkajou (Potos flavus) and olingos (Bassaricyon) define one clade, whereas the more terrestrial and omnivorous coatis (Nasua), raccoons (Procyon), and ringtails (Bassariscus) define another clade, with the similar-sized Nasua and Procyon joined as sister taxa in this latter group. These relationships, however, have not been tested with molecular sequence data. We examined procyonid phylogenetics based on combined data from nine nuclear and two mitochondrial gene segments totaling 6534bp. We were able to fully resolve relationships within the family with strongly supported and congruent results from maximum parsimony, maximum likelihood, minimum evolution, and Bayesian analyses. We identified three distinct lineages within the family: a (Nasua, Bassaricyon) clade, a (Bassariscus, Procyon) clade, and a Potos lineage, the last of which is sister to the other two clades. These findings, which are in strong disagreement with prior fossil and morphology-based assessments of procyonid relationships, reemphasize the morphological and ecological flexibility of these taxa. In particular, morphological similarities between unrelated genera possibly reflect convergence associated with similar lifestyles and diets rather than ancestry. Furthermore, incongruence between the molecular supermatrix and a morphological character matrix comprised mostly of dental characters [Baskin, J.A., 2004. Bassariscus and Probassariscus (Mammalia, Carnivora, Procyonidae) from the early Barstovian (Middle Miocene). J. Vert. Paleo. 24, 709-720] may be due to non-independence among atomized dental characters that does not take into account the high developmental genetic correlation of these characters. Finally, molecular divergence dating analyses using a relaxed molecular clock approach suggest that intergeneric and intrageneric splits in the Procyonidae mostly occurred in the Miocene. The inferred divergence times for intrageneric splits for several genera whose ranges are bisected by the Panamanian Isthmus is significant because they suggest diversification well precedes the Great American Interchange, which has long been considered a primary underlying mechanism for procyonid evolution.

Animals↗

PubMed2001

Dendritic Encapsulation of Function: Applying Nature's Site Isolation Principle from Biomimetics to Materials Science.

The convergence of our understanding of structure-property relationships for selected biological macromolecules and our increased ability to prepare large synthetic macromolecules with a structural precision that approaches that of proteins have spawned a new area of research where chemistry and materials science join with biology. While evolution has enabled nature to perfect processes involving energy transfer or catalysis by incorporating functions such as self-replication and repair, synthetic macromolecules still depend on our synthetic skills and abilities to mesh structure and function in our designs. Clearly, we can take advantage of our understanding of natural systems to mimic the structural features that lead to optimized function. For example, numerous biological systems make use of the concept of site isolation whereby an active center or catalytic site is encapsulated, frequently within a protein, to afford properties that would not be encountered in the bulk state. The ability of the dendritic shell to encapsulate functional core moieties and to create specific site-isolated nanoenvironments, and thereby affect molecular properties, has been explored. By utilizing the distinct properties of the dendrimer architecture active sites that have either photophysical, photochemical, electrochemical, or catalytic functions have been placed at the core. Applying the general concept of site isolation to problems in materials research is likely to prove extremely fruitful in the long term, with short-term applications in areas such as the construction of improved optoelectronic devices. This review focuses on the evolution of a natural design principle that contributes to bridging the gap between biology and materials science. The recent progress in the synthesis of dendrimer-encapsulated molecules and their study by a variety of techniques is discussed. These investigations have implications that range from the preliminary design of artificial enzymes, catalysts, or light-harvesting systems to the construction of insulated molecular wires, light-emitting diodes, and fiber optics.

Journal Article↗

PubMed2006

Four-way calibration applied to the simultaneous determination of folic acid and methotrexate in urine samples.

First-, second- and third-order calibration methods were investigated for the simultaneous determination of folic acid and methotrexate. The interest in the determination of these compounds is related to the fact that methotrexate inhibits the body's absorption of folic acid and prolonged treatment with methotrexate may lead to folic acid deficiency, and to the use of folic acid to cope with toxic side effects of methotrexate. Both analytes were converted into highly fluorescent compounds by oxidation with potassium permanganate, and the kinetics of the reaction was continuously monitored by recording the kinetics curves of fluorescence emission, the evolution with time of the emission spectra and the excitation-emission matrices (EEMs) of the samples at different reaction times. Direct determination of mixtures of both drugs in urine was accomplished on the basis of the evolution of the kinetics of EEMs by fluorescence measurements and four-way parallel-factor analysis (PARAFAC) or multiway partial least squares (N-PLS) chemometric calibration. The core consistency diagnostic (CORCONDIA) was employed to determine the correct number of factors in PARAFAC and the procedure converged to a choice of three factors, attributed to folic acid, methotrexate and to the sum of fluorescent species present in the urine.

Calibration↗

PubMed1997

Pigment cell signalling for physiological color change.

The cellular signalling pathways participating in physiological color change are reviewed, particularly in crustaceans, teleosts, amphibians, and reptiles. This review is an attempt to summarize what is known and to raise some hypotheses about basic questions still to be elucidated. The first picture that emerges from the literature is that the transduction pathways are identical in the various types of chromatophores of a single species, except for the iridophore. The cAMP-dependent pathway has been well conserved throughout evolution: cAMP increase is the pigment dispersion signal whereas the nucleotide decrease leads to granule aggregation. On the other hand, the Ca(-2)-dependent pathways evoke pigment aggregation in teleosts and crustaceans, and dispersion in amphibians and probably reptiles as well. Another interesting point is the ultimate convergence of the signalling pathways of different agonists inducing the same response in one chromatophore type. A hypothesis is raised about why different chromatophores behave differently in the absence of agonists, that is, why some are punctate, whereas others are stellate.

Animals↗

PubMed2002

From following edges to pursuing objects.

Primates can generate accurate, smooth eye-movement responses to moving target objects of arbitrary shape and size, even in the presence of complex backgrounds and/or the extraneous motion of non-target objects. Most previous studies of pursuit have simply used a spot moving over a featureless background as the target and have thus neglected critical issues associated with the general problem of recovering object motion. Visual psychophysicists and theoreticians have shown that, for arbitrary objects with multiple features at multiple orientations, object-motion estimation for perception is a complex, multi-staged, time-consuming process. To examine the temporal evolution of the motion signal driving pursuit, we recorded the tracking eye movements of human observers to moving line-figure diamonds. We found that pursuit is initially biased in the direction of the vector average of the motions of the diamond's line segments and gradually converges to the true object-motion direction with a time constant of approximately 90 ms. Furthermore, transient blanking of the target during steady-state pursuit induces a decrease in tracking speed, which, unlike pursuit initiation, is subsequently corrected without an initial direction bias. These results are inconsistent with current models in which pursuit is driven by retinal-slip error correction. They demonstrate that pursuit models must be revised to include a more complete visual afferent pathway, which computes, and to some extent latches on to, an accurate estimate of object direction over the first hundred milliseconds or so of motion.

Eye Movements↗

PubMed2005

Correlated firing in a feedforward network with Mexican-hat-type connectivity.

We report on deterministic and stochastic evolutions of firing states through a feedforward neural network with Mexican-hat-type connectivity. The prevalence of columnar structures in a cortex implies spatially localized connectivity between neural pools. Although feedforward neural network models with homogeneous connectivity have been intensively studied within the context of the synfire chain, the effect of local connectivity has not yet been studied so thoroughly. When a neuron fires independently, the dynamics of macroscopic state variables (a firing rate and spatial eccentricity of a firing pattern) is deterministic from the law of large numbers. Possible stable firing states, which are derived from deterministic evolution equations, are uniform, localized, and nonfiring. The multistability of these three states is obtained where the excitatory and inhibitory interactions among neurons are balanced. When the presynapse-dependent variance in connection efficacies is incorporated into the network, the variance generates common noise. Then the evolution of the macroscopic state variables becomes stochastic, and neurons begin to fire in a correlated manner due to the common noise. The correlation structure that is generated by common noise exhibits a nontrivial bimodal distribution. The development of a firing state through neural layers does not converge to a certain fixed point but keeps on fluctuating.

Artifacts↗

PubMed1989

Immunoproteins in evolution.

All vertebrates respond to antigenic challenge by specific cellular reactions and by producing circulating antibodies, and they also contain recognition molecules that are evolutionary relics of primitive non-immune recognition. One such ancient recognition molecule is C-reactive protein (CRP), a member of the pentraxin family, that has homologs occurring in species as diverse as vertebrates, tunicates and the horseshoe crab (an ancient arachnoid). This molecule has lectin-like properties, can act as an opsonin and interact with complement and cells in a manner paralleling immunoglobulins (Igs). The horseshoe crab lectin and CRP, although unrelated to Igs, share functional idiotopes with classical antibodies. This finding reflects either an evolutionary convergence or a mechanism of "mini gene insertion" that allows molecules of distinct evolutionary histories to react to the same ligands. Serum antibodies of all vertebrates are polydisperse in charge and are composed of polypeptide chains comparable in mass to those of mammalian light and heavy chains. Molecular genetic studies of placoderm derived vertebrates are incomplete but are sufficient to allow the conclusion that Igs of these species are specified by variable (V), joining (J) and constant (C) gene segments and that rearrangement are an essential feature for the generation of antibody diversity. Here we present new evidence following from the use of antibodies directed against synthetic joining region peptides as probes in the study of rearranging Igs in evolution, the use of recombinant DNA technology to study T cell receptor V beta genes in a goldfish genomic library and the isolation and characterization of a gene fragment specifying sandbar shark light chain C region. We reached the following conclusions: (1) J region segments are the most conserved in evolution, and this most probably reflects the essential requirements for these gene segments in the formation of intact Ig genes by rearrangement; (2) the framework segments of V regions are highly conserved in vertebrate evolution for both T cell receptors and classical Igs; and (3) although C region segments of light chains of lower vertebrates are homologous to their mammalian counterparts, the degree of conservation of C region structure in phylogeny is apparently less than that for V regions. Essentially, phylogenetic trees can be built using C regions but not V regions. We have identified a molecule of approximate mass of 26 kDa in the hemolymph of the tunicate, Boltenia ovipera, that is serologically cross-reactive with shark heavy chain and with J region peptides.(ABSTRACT TRUNCATED AT 400 WORDS)

Amino Acid Sequence↗

PubMed2005

Anthropometric relationships between parents and children throughout childhood: the Fleurbaix-Laventie Ville Santé Study.

BACKGROUND: The study of parent-child anthropometric relationships and their evolution over time may help to better understand familial risk factors for childhood obesity. METHODS: In a population-based cohort of 124 nuclear families (Fleurbaix-Laventie Ville Santé Study (FLVS) I and II), various anthropometric parameters were measured in both parents and their children, first when the children were prepubescent and again at the end of puberty. Troncular adiposity repartition was estimated by calculating troncular to peripheral skinfolds ratio and waist-to-hip circumferences ratio. Birth and infancy heights and weights were also obtained from the children's health booklets. Parent-child correlations were estimated in infancy, before and at the end of the child's puberty. A prospective analysis was performed to predict the changes in the children's measurements over puberty according to their parents' corresponding baseline values. RESULTS: BMI and weight correlations at birth were high (>0.30) with the mother and low (<0.10) with the father, then they converged to an intermediate level at 2 y and remained between 0.2 and 0.3 thereafter. Correlations for waist circumference were already present at the prepubertal period and persisted on the same level at the postpubertal period, whereas correlations for subcutaneous adiposity - measured by four skinfolds - and for adiposity distribution - measured by ratios - were higher at the postpubertal period. Moreover, the prospective approach showed that mother's BMI predicted the evolution of her children's BMI over puberty, whereas this relationship was observed more specifically with the father concerning adiposity distribution parameters. CONCLUSION: Maternal adiposity may act early in life on the adiposity of the child. Maternal and paternal adiposities seem to have quite distinct effects at two key periods of the child's adiposity development such as the prenatal and pubertal periods.

Adiposity↗

PubMed2006

Evolution of declarative memory.

The present review considers research on the hippocampus and related areas from humans and experimental animals and makes three main points. First, many of the anatomical details of the hippocampus and adjacent cortical areas in the parahippocampal region are conserved across mammals. Second, the functional role of these areas in declarative memory is also conserved across species. Third, an evolutionary approach will be key to understanding exactly how the local circuitry of the hippocampus and parahippocampal region supports declarative memory. To highlight the utility of this approach, a schematic model is described in which separate streams of spatial and nonspatial information converge on the hippocampus. By this view, a fundamental function of the mammalian hippocampus is to combine incoming information about spatial context from the postrhinal (parahippocampal in primates) cortex and medial entorhinal area with incoming information about nonspatial items from the perirhinal cortex and lateral entorhinal area. The underlying neurobiological computations that arise from local circuitry enable item-in-context memory and are proposed to be fundamental to many examples of declarative memory, including episodic memory in humans and spatial memory in experimental animals.

Animals↗

PubMed2000

Weak Lensing by Large-Scale Structure: A Dark Matter Halo Approach.

Weak gravitational lensing observations probe the spectrum and evolution of density fluctuations and the cosmological parameters that govern them, but they are currently limited to small fields and subject to selection biases. We show how the expected signal from large-scale structure arises from the contributions from and correlations between individual halos. We determine the convergence power spectrum as a function of the maximum halo mass and so provide the means to interpret results from surveys that lack high-mass halos either through selection criteria or small fields. Since shot noise from rare massive halos is mainly responsible for the sample variance below 10&arcmin;, our method should aid our ability to extract cosmological information from small fields.

Journal Article↗

PubMed1995

Chromosomal painting shows that "marked chromosomes" in lesser apes and Old World monkeys are not homologous and evolved by convergence.

Cytogeneticists have long held that the single pair of metacentric, NOR-bearing "marked chromosomes" in lesser apes (Hylobatidae) and Old World monkeys (Cercopithecidae) are homologous. Hylobatids have sometimes been excluded from Hominoidea (great apes and humans) and phylogenetically allied with the lower primates, primarily on the basis of this shared "trait." However, in situ hybridization of human chromosome-specific DNA probes to chromosomes of Hylobates lar, H. syndactylus, H. concolor, Cercopithecus aethiops, Macaca fuscata, Colobus guereza, and Presbytis cristata showed that the so-called "marked chromosomes" in Hylobatidae and Cercopithecidae evolved by convergence. Therefore, "marked chromosomes" cannot be used to exclude gibbons from Hominoidea or to link Hylobatidae with monkeys. Chromosomal painting is a powerful tool to resolve problems of chromosomal homology and helps eliminate phylogenetic errors due to confusing convergence with homology. Chromosomal painting improves the confidence in using cytogenetic data for evolutionary studies, especially in phylogeny and taxonomy.

Animals↗

PubMed1994

Evolution of antigen drift/switching: continuously evading pathogens.

Following infection to a host, some pathogens repeatedly alter their antigen expression, and thereby escape the immune defense (antigen drift/switching). This paper examines the evolutionarily stable mutation rate of pathogens which maximizes the stationary pathogen density in a host. Assumptions are: (i) most mutations are deleterious but a minor fraction, p, of mutations can contribute to the alternation of antigenic property of the pathogen; and. (ii) potential antigen types can be indexed in a one-dimensional lattice (the stepping-stone model). The model reveals that: (a) if the mutation rate is higher than a threshold mu(c) = R0/(1-p), where R0 is the per capita growth rate of pathogen before the immune system is activated, pathogens cannot maintain themselves because too many progeny are lost by lethal mutations; (b) if the mutation rate lies between zero and mu(c), the system converges to a traveling wave of antigen variants with a constant wave speed; (c) the evolutionarily stable mutation rate microESS is unexpectedly high: more than 0.25 per genome per replication even if most mutations are lethal. Hence more than a fourth of progeny are born defective in the evolutionarily stable state; (d) the microESS is even higher if multiple infections by pathogens are common. The paper also studies the evolutionarily stable mutation rate if every mutant antigen belongs to a different type (the infinite allele model), and the evolution of antigen switching between a finite number of antigen variants stored in the pathogen genome.

Alleles↗