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PubMed1980

The traditional system on medicine in Sri Lanka.

Four systems of traditional medicine have been adopted in Sri Lanka: Ayurveda, Siddha, Unani and Deshiya Chikitsa. The Ayurveda and Deshiya Chikitsa systems use mainly plant and herbal preparations for the treatment of diseases--the former uses about 2000 species, the latter about 500. The plants are used singly or as mixtures. The traditional systems of medicine have a vast literature, mainly in the form of manuscripts. The principle of the Ayurvedic system is to consider the body as a whole, ailments of different organs not being treated separately as in modern medicine. Similarly, Ayurveda takes into account the actions of the drug in its entirety. Research therefore must be carried out in hospitals or biological laboratories and not in chemical laboratories where plant extracts are subject inevitably to chemical reactions. Therefore the chemical approach to identify active principles is a complete deviation from the principles of traditional medicine. Research on plants should be carried out for the further development of traditional systems of medicine and not to their detriment. The threat of extinction of certain species of plants and herbs is stressed, the causes being the destruction of jungles, the greater demand for raw materials for increased manufacture of traditional medicinal preparations, the absence of organised cultivation of medicinal plants, and unscientific harvesting. The compilation of encyclopaedias of plants used in traditional medicine is highly recommended for every country interested in preserving the traditional systems of medicine.

Medicine, Ayurvedic↗

PubMed2025

The effects of cryptic diversity on diversification dynamics analyses in Crocodylia.

Incomplete taxon sampling due to underestimation of present-day biodiversity biases diversification analysis by favouring slowdowns in speciation rates towards the recent time. For instance, in diversification dynamics studies in Crocodylia, long-term low net-diversification rates and slowdowns in speciation rates have been suggested to characterize crocodylian evolution. However, crocodylian cryptic diversity has never been considered. Here, we explore the effects of incorporating cryptic diversity into a diversification dynamics analysis of extant crocodylians. We inferred a time-calibrated cryptic-species-level phylogeny using cytochrome b sequences of 45 lineages compared with the formally recognized 26 crocodylian species. Diversification rate estimates using the cryptic-species-level phylogeny show increasing speciation and net-diversification rates towards the present time, which contrasts with previous findings. Cryptic diversity should be considered in future macroevolutionary analyses; however, the representation of cryptic extinct taxa represents a major challenge. Additionally, further investigation of crocodylian diversification dynamics under different underlying genomic data is encouraged upon advances in population genetics. Our case study adds to the diversification dynamics knowledge of extant taxa and demonstrates that cryptic species and robust taxonomic assessment are essential to study recent biodiversity dynamics with broad implications for evolutionary biology and ecology.

Animals↗

PubMed2000

The effect of incubation time distribution on the extinction characteristics of a rabies epizootic.

The continuous model of Anderson et al. (1981), Nature 289, 765-771, is successful in describing certain characteristics of rabies epizootics, in particular, the secondary recurrences which follow the initial outbreak; however, it also predicts the occurrence of exponentially small minima in the infected population, which would realistically imply extinction of the virus. Here we show that inclusion of a more realistic distribution of incubation times in the model can explain why extinction will not occur, and we give explicit parametric estimates for the minimum infected fox density which will occur in the model, in terms of the incubation time distribution.

Animals↗

PubMed2000

Local populations of different sizes, mechanistic rescue effect and patch preference in the Levins metapopulation model.

In this paper three extensions of the Levins metapopulation model are discussed: (1) It is shown that the Levins model is still valid if patches contain local populations of different sizes with different colonization and extinction rates. (2) A more mechanistic formulation of the rescue effect is presented. (3) The addition of preference of dispersers for occupied or empty patches and its consequences for conservation strategies are studied.

Animals↗

PubMed2003

Quasispecies and the development of new antiviral strategies.

RNA virus populations consist of complex and dynamic mutant distributions, rather than defined genomic sequences. This feature confers great adaptability on viruses and is partly responsible for current difficulties of viral disease prevention and control. Mutant distributions, also termed mutant swarms or mutant clouds, were first proposed in a theory of molecular evolution termed quasispecies theory. The theoretical formulation of quasispecies and its links to present day RNA viruses are discussed. The need to accommodate antiviral strategies to the dynamic nature of viral populations is emphasized. In particular, recent results on viral extinction associated with enhanced mutagenesis (virus entry into error catastrophe) are reviewed and presented as an example of how the understanding of viruses as quasispecies could lead to a potential practical application in medicine.

Animals↗

PubMed2004

Environmental versus genetic sex determination: a possible factor in dinosaur extinction?

This study examined the possibility that genetically based sex-determination mechanisms have evolved to ensure a balanced male/female ratio and that this temperature-independent checkpoint might have been unavailable to long-extinct reptiles, notably the dinosaurs. A review of the literature on molecular and phylogenetic relationships between modes of reproduction and sex determination in extant animals was conducted. Mammals, birds, all snakes and most lizards, amphibians, and some gonochoristic fish use specific sex-determining chromosomes or genes (genetic sex determination, GSD). Some reptiles, however, including all crocodilians studied to date, many turtle and tortoise species, and some lizards, use environmental or temperature-dependent sex determination (TSD). We show that various modes of GSD have evolved many times, independently in different orders. Animals using TSD would be at risk of rapid reproductive failure due to a skewed sex ratio favoring males in response to sustained environmental temperature change and favoring the selection of sex-determining genes. The disadvantage to the evolving male sex-determining chromosome, however, is its decay due to nonrecombination and the subsequent loss of spermatogenesis genes. Global temperature change can skew the sex ratio of TSD animals and might have played a significant role in the demise of long-extinct species, notably the dinosaurs, particularly if the temperature change resulted in a preponderance of males. Current global warming also represents a risk for extant TSD species.

Animals↗

PubMed1997

Coevolution of the Monogenoidea (Platyhelminthes) based on a revised hypothesis of parasite phylogeny.

A revised hypothesis for the phylogeny of the Subclass Polyonchoinea (Monogenoidea) was constructed employing phylogenetic systematics. The Acanthocotylidae (formerly of the Order Capsalidea) is transferred to the Order Gyrodactylidea based on this analysis. The new phylogeny is used to determine coevolutionary relationships of the familial taxa of Monogenoidea with their hosts. The coevolutionary analysis suggests that the Monogenoidea apparently underwent sympatric speciation or dispersal while parasitic on ancestral Gnathostomata, resulting in two primary clades: the Polyonchoinea and the Oligonchoinea + Polystomatoinea. The two parasite clades apparently cospeciated independently with divergence of the Chondrichthyes and Osteichthyes. In the Polyonchoinea, the clade associated with Chondrichthyes experienced primary extinction within the Holocephala, but coevolved into the Loimoidae and Monocotylidae in the Galeomorphii and Squalea (Elasmobranchii), respectively. Within the Osteichthyes, polyonchoineans experienced primary extinction with the divergence of Sarcopterygii, Polypteriformes and Acipenseriformes. They demonstrate primary dispersal from the Neopterygii into the Squalea (as Amphibdellatinea), Actinistia (as Neodactylodiscinea) and Urodela (as Lagarocotylidea). Secondary dispersals of polyonchoineans occurred in the Gyrodactylidae to the Polypteriformes, Urodela and Anura; in the Acanthocotylidae to the Myxinoidea and Squalea; in the Capsalidae to the Acipenseriformes and Elasmobranchii; and in the Monocotylidae to the Holocephala. The Oligonchoinea and Polystomatoinea developed upon divergence of the Chondrichthyes and Osteichthyes. Oligonchoineans cospeciated within the Chondrichthyes, with the Chimaericolidea developing within the Holocephala and the ancestor of the Diclybothriidea + Mazocraeidea within the Elasmobranchii. Two cases of primary dispersal occurred within this clade: the Diclybothriidae to the Acipenseriformes and the ancestor of mazocraeidean families to the Neopterygii (both Osteichthyes). Secondary dispersal within the Oligonchoinea includes host switching of the common ancestor of Callorhynchocotyle (Hexabothriidae) to the Holocephala. Polystomatoineans coevolved within the Osteichthyes, but experienced primary extinctions in the Actinopterygii, Actinistia, Dipnoi and Amniota. Coevolution of the Sphyranuridae and Polystomatidae occurred with divergence of the Urodela and Anura, respectively. Secondary dispersal of Polystomatids to the Urodela, Dipnoi and Amniota is suggested. A preliminary phylogenetic analysis of the Polystomatoinea suggests that primary extinction with secondary dispersal of polystomatids to the Dipnoi may not be necessary to explain extant parasite distributions, since Concinnocotyla (Concinnocotylinae) appears to represent the sister taxon of the remaining Polystomatidae + Sphyranuridae.

Animals↗

PubMed2000

Comparison of deterministic and stochastic SIS and SIR models in discrete time.

The dynamics of deterministic and stochastic discrete-time epidemic models are analyzed and compared. The discrete-time stochastic models are Markov chains, approximations to the continuous-time models. Models of SIS and SIR type with constant population size and general force of infection are analyzed, then a more general SIS model with variable population size is analyzed. In the deterministic models, the value of the basic reproductive number R0 determines persistence or extinction of the disease. If R0 < 1, the disease is eliminated, whereas if R0 > 1, the disease persists in the population. Since all stochastic models considered in this paper have finite state spaces with at least one absorbing state, ultimate disease extinction is certain regardless of the value of R0. However, in some cases, the time until disease extinction may be very long. In these cases, if the probability distribution is conditioned on non-extinction, then when R0 > 1, there exists a quasi-stationary probability distribution whose mean agrees with deterministic endemic equilibrium. The expected duration of the epidemic is investigated numerically.

Disease Outbreaks↗

PubMed1993

Chaos reduces species extinction by amplifying local population noise.

In the mid-1970s, theoretical ecologists were responsible for stimulating interest in nonlinear dynamics and chaos. Ironically, the importance of chaos in ecology itself remains controversial. Proponents of ecological chaos point to its ubiquity in mathematical models and to various empirical findings. Sceptics maintain that the models are unrealistic and that the experimental evidence is equally consistent with stochastic models. More generally, it has been argued that interdemic selection and/or enhanced rates of species extinction will eliminate populations and species that evolve into chaotic regions of parameter space. Fundamental to this opinion is the belief that violent oscillations and low minimum population densities are inevitable correlates of the chaotic state. In fact, rarity is not a necessary consequence of complex dynamical behaviour. But even when chaos is associated with frequent rarity, its consequences to survival are necessarily deleterious only in the case of species composed of a single population. Of course, the majority of real world species (for example, most insects) consist of multiple populations weakly coupled by migration, and in this circumstance chaos can actually reduce the probability of extinction. Here we show that although low densities lead to more frequent extinction at the local level, the decorrelating effect of chaotic oscillations reduces the degree of synchrony among populations and thus the likelihood that all are simultaneously extinguished.

Ecology↗

PubMed2002

Extinction of the Edinburgh lineage of the allopolyploid neospecies, Senecio cambrensis Rosser (Asteraceae).

Senecio cambrensis is a new allopolyploid species, which originated independently in North Wales and in Edinburgh, Scotland. Despite extensive searches, the species has not been found growing at any of its previously recorded sites in Edinburgh or at other potential sites in the area since 1993. We have concluded that the Edinburgh lineage of S. cambrensis is now extinct and discuss possible causes of its extinction. The lineage was present in Edinburgh from at least 1974 and therefore survived in the wild for a minimum of 19 years. The species remains well established in parts of North Wales.

Biological Evolution↗

PubMed1999

The fossil record of North American mammals: evidence for a Paleocene evolutionary radiation.

Paleontologists long have argued that the most important evolutionary radiation of mammals occurred during the early Cenozoic, if not that all eutherians originated from a single common post-Cretaceous ancestor. Nonetheless, several recent molecular analyses claim to show that because several interordinal splits occurred during the Cretaceous, a major therian radiation was then underway. This claim conflicts with statistical evidence from the well-sampled latest Cretaceous and Cenozoic North American fossil record. Paleofaunal data confirm that there were fewer mammalian species during the latest Cretaceous than during any interval of the Cenozoic, and that a massive diversification took place during the early Paleocene, immediately after a mass extinction. Measurement data show that Cretaceous mammals were on average small and occupied a narrow range of body sizes; after the Cretaceous-Tertiary mass extinction, there was a rapid and permanent shift in the mean. The fact that there was an early Cenozoic mammalian radiation is entirely compatible with the existence of a few Cretaceous splits among modern mammal lineages.

Animals↗

PubMed2004

Influence of food availability on demography and local population dynamics in a long-lived seabird.

Few studies have addressed the effects of food availability as a proximate factor affecting local adult survival in long-lived organisms and their consequences at local population dynamics. We used capture-recapture analysis of resightings of 10 birth cohorts of ringed Audouin's gulls, Larus audouinii, to estimate adult survival and dispersal (both emigration and immigration). For the first time, permanent emigration (the transient effect in capture-recapture analysis) was modelled for the whole population and not only for the newly marked birds. Gulls exploit to a large extent fishes discarded from trawlers, and a trawling moratorium established since 1991 has decreased food supply for the colony. This was used as a natural experiment of food availability to assess its effects on adult survival and emigration. These and other demographic parameters were used in a projection modelling to assess the probabilities of extinction of the colony under two scenarios of lower and higher food availability. Food availability (together with the age of individuals) influenced emigration probabilities, but not adult survival, which was estimated at 0.91 (s.e. = 0.02). When food was in shorter supply during the chick-rearing period, emigration was very high (ca. 65%) for younger breeders, although this rate decreased sharply with age. Probabilities of extinction were very high when food availability was low, and when environmental stochasticity was introduced, and only stochastic immigration from the outside seemed to prevent extinction. The results highlight the importance of dispersal processes in the population dynamics of long-lived organisms.

Animal Nutritional Physiological Phenomena↗

PubMed2003

Increased longevities of post-Paleozoic marine genera after mass extinctions.

Cohorts of marine taxa that originated during recoveries from mass extinctions were commonly more widespread spatially than those originating at other times. Coupled with the recognition of a correlation between the geographic ranges and temporal longevities of marine taxa, this observation predicts that recovery taxa were unusually long-lived geologically. We analyzed this possibility by assessing the longevities of marine genus cohorts that originated in successive substages throughout the Phanerozoic. Results confirm that several mass extinction recovery cohorts were significantly longer lived than other cohorts, but this effect was limited to the post-Paleozoic, suggesting differences in the dynamics of Paleozoic versus post-Paleozoic diversification.

Animals↗

PubMed1997

Evolution of gnathostome lateral line ontogenies.

An outgroup analysis of multiple ontogenies provides the most robust approach to understanding phylogeny. Such an analysis of the lateral line system among extinct and extant gnathostomes reveals that lateral line placodes constitute the basic ontogenetic unit responsible for the development of this system. Six pairs of lateral line placodes appear to have existed in the earliest gnathostomes, and eight stages (stages A-H) can be recognized in their differentiation. Terminal truncation (heterochronic changes) in the primitive sequence of placodal development has occurred in one or more placodes in each gnathostome radiation, with the most extensive truncations occurring in arthrodire placoderms, lepidosirenid lungfishes and extant amphibians. The most extensive nonterminal changes in the primitive sequence of placodal development involve the failure of electroreceptors to form within the lateral zones of the elongatiang sensory ridges of the placodes. This nonterminal change appears to have occurred independently in ancestral neopterygian bony fishes, in many amphibians and, possibly, in the extinct acanthodians. At least two teleost radiations, osteoglossomorphs and ostariophysines, have re-evolved electroreceptors which may represent additional nonterminal changes in placodal patterning or, possibly, a change in the embryonic source of these receptors.

Animals↗

PubMed2006

Full genome sequence and some biological properties of reticuloendotheliosis virus strain APC-566 isolated from endangered Attwater's prairie chickens.

Reticuloendotheliosis virus (REV) causes runting, high mortality, immunosuppression, and chronic neoplasia associated with T and/or B cell lymphomas in a variety of domestic and wild birds, including Attwater's prairie chickens (APC) (Tympanuchus cupido attwateri). The complete proviral sequence of a recent REV isolate from APC (REV APC-566) was determined. This virus was isolated from an APC maintained in captivity in a reproduction program intended to avoid its extinction. REV APC-566 was determined to be oncogenic in Japanese quail (Coturnix coturnix japonica), chickens (Gallus gallus) and turkeys (Meleagris gallopavo). Immune responses against bacteria and viruses were significantly reduced in turkeys infected with REV APC-566. The proviral genome is 8286 nucleotides in length and exhibits a genetic organization characteristic of replication-competent gammaretroviruses. The REV APC-566 provirus contains two identical long terminal repeats (LTR) and a complete set of genes including gag, gag-pol and env. As previously reported, alignments with other REV sequences showed high similarity with sequences found in the gag and pol genes from other REVs. The REV APC-566 env gene showed high nucleotide sequence homology with REV sequences inserted in fowl poxvirus (99.8%), and with spleen necrosis virus (SNV) (95.1%). Sequences coding for a previously reported immunosuppressive peptide contained in the transmembrane region of the env gene are well conserved among all REV sequences analyzed. The LTR was the most divergent region, exhibiting various deletions and insertions. REV APC-566 has a unique insertion of 23 bp in U3 and shares deletions of 19 and 5 bp with chicken syncytial virus and REV inserts in fowlpox virus.

Amino Acid Sequence↗

PubMed2003

Fidelity and spatio-temporal control in MAP kinase (ERKs) signalling.

The mitogen activated protein (MAP) kinase module: (Raf -->MEK-->ERKs) is central to the control of cell growth, cell differentiation and cell survival. The fidelity of signalling and the spatio-temporal activation are key determinants in generating precise biological responses. The fidelity is ensured by scaffold proteins - protein kinase 'insulators' - and by specific docking sites. The duration and the intensity of the response are in part controlled by the compartmentalization of the signalling molecules. Growth factors promote rapid nuclear translocation and persistent activation of p42/p44 MAP kinases, respectively and ERK2/ERK1, during the entire G1 period with an extinction during the S-phase. These features are exquisitely controlled by the temporal induction of the MAP kinase phosphatases, MKP1-3. MKP1 and 2 induction is strictly controlled by the activation of the MAP kinase module providing evidence for an auto-regulatory mechanism. This negative regulatory loop is further enhanced by the capacity of p42/p44 MAPK to phosphorylate MKP1 and 2. This action reduces the degradation rate of MKPs through the ubiquitin-proteasomal system. Whereas the two upstream kinases of the module (Raf and MEK) remain cytoplasmic, ERKs (anchored to MEK in the cytoplasm of resting cells) rapidly translocate to the nucleus upon mitogenic stimulation. This latter process is rapid, reversible and controlled by the strict activation of the MAPK cascade. Following long-term MAPK stimulation, p42/p44 MAPKs progressively accumulate in the nucleus in an inactive form. Therefore we propose that the nucleus represents a site for ERK action, sequestration and signal termination. With the generation of knockdown mice for each of the ERK isoforms, we will illustrate that besides controlling cell proliferation the ERK cascade also controls cell differentiation and cell behaviour.

Animals↗

PubMed2005

New fields of research in posttraumatic stress disorder: brain imaging.

PURPOSE OF REVIEW: This paper reviews the most recent literature on brain imaging research in posttraumatic stress disorder. Neuroimagery identifies several cerebral modifications occurring after a significant psychological trauma, and it contributes to a better understanding of the pathophysiology of posttraumatic stress disorder. A systematic search of the literature in English, French, German and Dutch from January 2003 to August 2004 was performed on MEDLINE. References cited in all trials were searched iteratively to identify missing studies. RECENT FINDINGS: There appears to be a consensus in brain imaging findings concerning posttraumatic stress disorder: a diminished volume of the hippocampus uni- or bilateral (on the structural level) and a hyper-reactivity in the amygdala, with a lowered activation in the anterior cingular cortex (at the functional level). These findings are in agreement with several neurological and psychological studies suggesting that hyper-reactivity in the amygdala corresponds to a constellation of symptoms of anxiety in posttraumatic stress disorder, while the lowered activation of the prefrontal and the anterior cingular cortex could reflect slower extinction of a conditioned emotional response. SUMMARY: These neuroimaging findings could contribute to a better understanding of posttraumatic stress disorder. The integration of neurobiological, social and psychological findings may lead to an improved approach to the pathophysiology of posttraumatic stress disorder and perhaps to the development of new pharmacological treatment. Future studies could integrate the disparate findings among numerous biological systems and propose an integrative structural, functional and endocrinological model.

Journal Article↗

PubMed1981

Convergence to equilibrium states for a reaction-diffusion system modelling the spatial spread of a class of bacterial and viral diseases.

A reaction-diffusion system which describes the spatial spread of bacterial diseases is studied. It consists of two nonlinear parabolic equations which concern the evolution of the bacteria population and of the human infective population in an urban community, respectively. Different boundary conditions of the third type are considered, for the two variables. This model is suitable to study oro-faecal transmitted diseases in the European Mediterranean regions. A threshold parameter is introduced such that for suitable values of it the epidemic eventually tends to extinction, otherwise a globally asymptotically stable spatially inhomogeneous stationary endemic state appears. The case in which the bacteria diffuse but the human population does not, has also been considered.

Bacterial Infections↗