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PubMed2006

Chloroplast microsatellites reveal colonization and metapopulation dynamics in the Canary Island pine.

Chloroplast microsatellites are becoming increasingly popular markers for population genetic studies in plants, but there has been little focus on their potential for demographic inference. In this work the utility of chloroplast microsatellites for the study of population expansions was explored. First, we investigated the power of mismatch distribution analysis and the F(S) test with coalescent simulations of different demographic scenarios. We then applied these methods to empirical data obtained for the Canary Island pine (Pinus canariensis). The results of the simulations showed that chloroplast microsatellites are sensitive to sudden population growth. The power of the F(S) test and accuracy of demographic parameter estimates, such as the time of expansion, were reduced proportionally to the level of homoplasy within the data. The analysis of Canary Island pine chloroplast microsatellite data indicated population expansions for almost all sample localities. Demographic expansions at the island level can be explained by the colonization of the archipelago by the pine, while population expansions of different ages in different localities within an island could be the result of local extinctions and recolonization dynamics. Comparable mitochondrial DNA sequence data from a parasite of P. canariensis, the weevil Brachyderes rugatus, supports this scenario, suggesting a key role for volcanism in the evolution of pine forest communities in the Canary Islands.

DNA, Chloroplast↗

PubMed1993

Biogeography of Tongan birds before and after human impact.

Bones deposited in caves show that, before the arrival of humans, at least 27 species of land birds lived on the Tongan island of 'Eua, where 13 indigenous species live today. Six of these 13 species were recorded from pre-human strata; three others probably occurred on 'Eua in pre-human times but were not in the fossil sample; and four others probably colonized 'Eua since the arrival of humans approximately 3000 years ago. Of the 23 species of extinct or extirpated land birds recorded from 'Eua, the nearest geographic occurrences of conspecifics or most closely related congeners are from the Solomon Islands (1 species), New Caledonia (2 species), Fiji and/or Samoa (9 species), elsewhere in Tonga (8 species), or unknown (3 species). The avifauna of West Polynesia (Fiji-Tonga-Samoa) is more closely related to that of Melanesia than that of East Polynesia. There was little pre-human turnover in Tongan land birds. The arrival of humans has influenced the Tongan avifauna more than any climatic, tectonic, or biological event of the past approximately 100,000 years.

Journal Article↗

PubMed1995

Macroevolutionary inferences from primate phylogeny.

We apply new statistical methods to a recent estimate of the phylogeny of all living primate species to test a range of models of cladogenesis. Null models in which probabilities of speciation and extinction do not differ among contemporaneous lineages are not consistent with the phylogeny. We present evidence that the net rate of cladogenesis (speciation rate minus extinction rate) increased in the lineage leading to the Cercopithecidae (Old World monkeys), and that there have been further increases in some lineages within that family. Such increases suggest the occurrence of clade selection, although we have not identified the selected trait or traits. There is no evidence that the net rate of cladogenesis is a function either of how many primate lineages are already present or of time. Intriguingly, three other clades--Strepsirhini, Platyrrhini and Hominoidea--appear to have had very similar rates of clade growth, in spite of their great biological differences.

Animals↗

PubMed2001

Extinction of the weakest.

PURPOSE: To examine whether changes in the effective doubling time of tumor cells during irradiation of head-and-neck cancer are linked to accumulating dose. METHODS AND MATERIALS: Optimal fitting of the results of four apparently iso-effective regimens in three recently reported randomized controlled trials (continuous hyperfractionated accelerated radiation therapy [CHART], Radiation Therapy Oncology Group [RTOG] 90-03, and Trans-Tasman Radiation Oncology Group [TROG] 91.01) was attempted using two different types of model of the change in effective doubling time that may occur during treatment. The first involved the traditional approach where doubling time changes at specific times after the start of treatment regardless of fractionation used (''fixed response time'' models). The second is where changes in doubling time are linked to accumulating biologic dose (''cellular depletion'' models). RESULTS: Changes in effective doubling time occur during radiotherapy for head-and-neck cancer. Data from the three trials can be fitted successfully by functions that imply a continuous reduction in effective doubling time. Models linking the reductions in effective doubling time to the cellular depletion that occurs in the tumor during radiotherapy fit the data satisfactorily. Effective doubling time ultimately reduces to 2 days, or slightly less, during high-dose radiotherapy regimens designed to cure squamous head-and-neck cancer. CONCLUSIONS: If the assumption of iso-effectivity is justified then this study indicates that the ''repopulation phenomenon'' may be best described by a function that depicts a reduction in effective tumor cell doubling time that decreases continuously during treatment down to a certain minimum value. Furthermore, this reduction may be linked to cellular depletion.

Cell Division↗

PubMed1998

Morphology, paleoanthropology, and Neanderthals.

Morphology carries the primary signal of events in the evolutionary history of any group of organisms but has been relatively neglected by paleoanthropologists, those who study the history of the human species. Partly this is the result of historical influences, but it is also due to a rather fundamentalist adherence among paleoanthropologists to the tenets of the Neodarwinian Evolutionary Synthesis. The result has been a general paleoanthropological desire to project the species Homo sapiens back into the past as far and in as linear a manner as possible. However, it is clear that the human fossil record, like that of most other taxa, reveals a consistent pattern of systematic diversity--a diversity totally unreflected in the conventional minimalist interpretation of that record. Thus, the Neanderthals, both morphologically and behaviorally as distinctive a group of hominids as ever existed, are conventionally classified simply as a subspecies of our own species Homo sapiens--a classification that robs these extinct relatives of their evolutionary individuality. Only when we recognize the Neanderthals as a historically distinctive evolutionary entity, demanding understanding in its own terms, will we be able to do them proper justice. And we will only be able to do this by restoring morphology to its proper place of primacy in human evolutionary studies.

Animals↗

PubMed2001

Sexual dimorphism in primate evolution.

Sexual dimorphism is a pervasive phenomenon among anthropoid primates. Comparative analyses over the past 30 years have greatly expanded our understanding of both variation in the expression of dimorphism among primates, and the underlying causes of sexual dimorphism. Dimorphism in body mass and canine tooth size is familiar, as is pelage and "sex skin" dimorphism. More recent analyses are documenting subtle differences in the pattern of skeletal dimorphism among primates. Comparative analyses have corroborated the sexual selection hypotheses, and have provided a more detailed understanding of the relationship between sexual selection, natural selection, and mating systems in primates. A clearer picture is emerging of the relative contribution of various selective and nonselective mechanisms in the evolution and expression of dimorphism. Most importantly, recent studies have shown that dimorphism is the product of changes in both male and female traits. Developmental studies demonstrate the variety of ontogenetic pathways that can lead to dimorphism, and provide additional insight into the selective mechanisms that influence dimorphism throughout the lifetime of an animal. Evidence from the fossil record suggests that dimorphism probably evolved in parallel twice, and the dimorphism in some extinct hominoids probably exceeded that of any living primate. Our advances in understanding the behavioral/ecological correlates of dimorphism in living primates have not improved our ability to reconstruct social systems in extinct species on the basis of dimorphism alone, beyond the inference of polygyny or intense male-male competition. However, our understanding of the behavioral/ecological correlates of growth and development, and of the expression of dimorphism as a function of separate changes in male and female traits, offers great potential for inferring evolutionary changes in behavior over time.

Animals↗

PubMed1986

Subfossil platyrrhine tibia (primates: Callitrichidae) from Hispaniola: a possible further example of island gigantism.

A distal right tibia described by G.S. Miller in 1929 (Smithsonian Misc. Coll. 82[5]:1-16) on the island of Hispaniola is shown to be that of a heretofore unknown extinct platyrrhine and is informally referred to as Ceboid M. Its affinities appear to be with the dwarfed callitrichids, especially Saguinus. It is suggested that Ceboid M represents yet another case of gigantism in the Antilles, in response to a lack of both competitors and predators. A reconsideration of the affinities of Xenothrix mcgregori from Jamaica is suggested.

Animals↗

PubMed2005

Ageing and the extinction of large animals.

In the modulation of longevity by natural selection there is a trade-off between the investment of resources in the maintenance of the body, or soma, and the investment in reproduction. There is accumulating evidence that long-lived mammalian species have much more efficient maintenance than short-lived ones. It is also clear that short-lived ground-living mammalian species reproduce very much more quickly than larger long-lived species, and in all mammals there is an inverse relationship between maximum reproductive potential and maximum longevity. These features of life-history strategies very strongly support the disposable soma theory of the evolution of ageing. Slow development and large size are associated with delayed ageing. If the environment changes, for whatever reason, small rapidly breeding species are able to adapt and survive much more easily that large slow breeding species. This can explain the very well documented extinction of many large mammalian species during the Pleistocene. In an environment which remains constant for a long period of time, selection favours the evolution of larger species, but these are put at risk if the environment becomes less favorable. Fluctuating environments are more likely to promote the evolution of small short-lived species with high fecundity.

Aging↗

PubMed1995

Extraordinary diphyodonty-related change in dental function for a tooth of the extinct marsupial Ekaltadeta ima (Propleopinae, Hypsiprymnodontidae).

A time-dependent, fundamental change in function for a sectorial tooth in a group of extinct, propleopine kangaroos is reported. In juvenile Ekaltadeta ima (Marsupialia, Hypsiprymnodontidae, Propleopinae) the second premolar (P2) functions as a serrated blade at the anterior end of the cheek tooth row. In adults, this tooth drops far below the occlusal plane of the cheek tooth row where it assumes a completely different function, that of a buttress, anterolingual to the base of the crown of the much larger, newly erupted third premolar (P3). This pattern of diphyodonty-related change in dental function is unique within Mammalia. It also represents an extraordinary example of biological recycling of a normally discarded tooth.

Adaptation, Physiological↗

PubMed2002

Habitat edges and predator-prey interactions: effects on critical patch size.

We use partial differential equation models to examine the effects of cross-edge incursions by a predator on the persistence or extinction of a patch-resident prey species. For each of two predator-incursion profiles (namely, a constant incursion distance and a constant loss rate for predators during incursions), we examine the conditions under which the predator can (and cannot) influence the critical patch size of a prey species.

Animals↗

PubMed2003

Neutral theory and relative species abundance in ecology.

The theory of island biogeography asserts that an island or a local community approaches an equilibrium species richness as a result of the interplay between the immigration of species from the much larger metacommunity source area and local extinction of species on the island (local community). Hubbell generalized this neutral theory to explore the expected steady-state distribution of relative species abundance (RSA) in the local community under restricted immigration. Here we present a theoretical framework for the unified neutral theory of biodiversity and an analytical solution for the distribution of the RSA both in the metacommunity (Fisher's log series) and in the local community, where there are fewer rare species. Rare species are more extinction-prone, and once they go locally extinct, they take longer to re-immigrate than do common species. Contrary to recent assertions, we show that the analytical solution provides a better fit, with fewer free parameters, to the RSA distribution of tree species on Barro Colorado Island, Panama, than the lognormal distribution.

Animals↗

PubMed2002

Increased competition may promote species coexistence.

It is a mainstay of community ecology that local exclusion of species will result if competitive pressures become too large. The pattern of exclusion may be complicated, but the qualitative orthodoxy has changed little since the pioneering work of Lotka, Volterra, and Gause--no two species can occupy the same niche. Stated in a more precise form, the higher the intensity of interspecific competition in an assemblage of species, the fewer the number of species that can coexist in perpetuity. We suggest that this orthodoxy results from "linear" thinking, and that if the classical equations are formulated more realistically with attendant nonlinearities, the orthodoxy breaks down and higher levels of competition may actually increase the likelihood that species will avoid competitive exclusion. Furthermore, this increased probability of coexistence at higher levels of competition is accompanied by characteristic dynamic patterns: (i) at lower levels of competition, after all extinction events have occurred, remaining species follow irregular chaotic patterns; (ii) at higher levels of competition, when most species coexist, all species are entrained in a single large limit cycle; (iii) the transient behavior appears to correspond to a special case of chaos, uniform phase chaotic amplitude.

Ecology↗

PubMed1995

Identification of presumed ancestral DNA sequences of phaseolin in Phaseolus vulgaris.

Common bean (Phaseolus vulgaris) consists of two major geographic gene pools, one distributed in Mexico, Central America, and Colombia and the other in the southern Andes (southern Peru, Bolivia, and Argentina). Amplification and sequencing of members of the multigene family coding for phaseolin, the major seed storage protein of the common bean, provide evidence for accumulation of tandem direct repeats in both introns and exons during evolution of the multigene family in this species. The presumed ancestral phaseolin sequences, without tandem repeats, were found in recently discovered but nearly extinct wild common bean populations of Ecuador and northern Peru that are intermediate between the two major gene pools of the species based on geographical and molecular arguments. Our results illustrate the usefulness of tandem direct repeats in establishing the polarity of DNA sequence divergence and therefore in proposing phylogenies.

Base Sequence↗

PubMed2000

Evolutionary dynamics of self-incompatibility alleles in Brassica.

Self-incompatibility in Brassica entails the rejection of pollen grains that express specificities held in common with the seed parent. In Brassica, pollen specificity is encoded at the multipartite S-locus, a complex region comprising many expressed genes. A number of species within the Brassicaceae express sporophytic self-incompatibility, under which individual pollen grains bear specificities determined by one or both S-haplotypes of the pollen parent. Classical genetic and nucleotide-level analyses of the S-locus have revealed a dichotomy in sequence and function among S-haplotypes; in particular, all class I haplotypes show dominance over all class II haplotypes in determination of pollen specificity. Analysis of an evolutionary model that explicitly incorporates features of the Brassica system, including the class dichotomy, indicates that class II haplotypes may invade populations at lower rates and decline to extinction at higher rates than class I haplotypes. This analysis suggests convergence to an evolutionarily persistent state characterized by the maintenance in high frequency of a single class II haplotype together with many class I haplotypes, each in low frequency. This expectation appears to be consistent with empirical observations of high frequencies of relatively few distinct recessive haplotypes.

Alleles↗

PubMed2003

Antibodies reactive to heat shock protein 90 induce oligodendrocyte precursor cell death in culture. Implications for demyelination in multiple sclerosis.

Oligodendrocyte precursor cells (OPCs) are extremely efficient at remyelination. These cells persist in the adult human central nervous system and can proliferate. However, the failure to remyelinate is a pathological characteristic of the human demyelinating disease multiple sclerosis (MS), which suggests that these cells are ineffective in this disorder. This paper reports that IgG antibodies in the cerebrospinal fluid (CSF) of MS patients specifically recognize an antigen on OPCs in culture. Control patients were found not to possess these antibodies. The antigen was immunoprecipitated in cell extracts from cultures with purified IgG from MS CSF. Peptide mass fingerprinting identified it as the beta type of heat shock protein 90 (Hsp90). Two-dimensional electrophoresis and immunoblot showed that this antigen in fact corresponds to two specific isoforms of Hsp90beta. Several control assays using monoclonal and polyclonal anti-Hsp90 antibodies confirmed the specific expression of Hsp90 on OPCs. Labeling OPCs in vivo with MS CSF and anti-Hsp90 antibodies and subsequent immunofluorescence confocal microscopy located the antigen on the cell surface. The binding of CSF antibodies from MS patients to the OPC surface led to complement activation and significant extinction of the OPC population. These results suggest that OPCs may be a target of anti-Hsp90 antibodies in MS patients and that this could prevent remyelination.

Antibodies↗

PubMed2004

Rapid population decline in red knots: fitness consequences of decreased refuelling rates and late arrival in Delaware Bay.

Most populations of migrant shorebirds around the world are in serious decline, suggesting that vital condition-dependent rates such as fecundity and annual survival are being affected globally. A striking example is the red knot (Calidris canutus rufa) population wintering in Tierra del Fuego, which undertakes marathon 30,000 km hemispheric migrations annually. In spring, migrant birds forage voraciously on horseshoe crab eggs in Delaware Bay in the eastern USA before departing to breed in Arctic polar deserts. From 1997 to 2002 an increasing proportion of knots failed to reach threshold departure masses of 180-200 g, possibly because of later arrival in the Bay and food shortage from concurrent over-harvesting of crabs. Reduced nutrient storage, especially in late-arriving birds, possibly combined with reduced sizes of intestine and liver during refuelling, had severe fitness consequences for adult survival and recruitment of young in 2000-2002. From 1997 to 2002 known survivors in Delaware Bay were heavier at initial capture than birds never seen again, annual survival of adults decreased by 37% between May 2000 and May 2001, and the number of second-year birds in wintering flocks declined by 47%. Population size in Tierra del Fuego declined alarmingly from 51,000 to 27,000 in 2000-2002, seriously threatening the viability of this subspecies. Demographic modelling predicts imminent endangerment and an increased risk of extinction of the subspecies without urgent risk-averse management.

Age Factors↗

PubMed2006

Integrating life history and cross-immunity into the evolutionary dynamics of pathogens.

Models for the diversity and evolution of pathogens have branched into two main directions: the adaptive dynamics of quantitative life-history traits (notably virulence) and the maintenance and invasion of multiple, antigenically diverse strains that interact with the host's immune memory. In a first attempt to reconcile these two approaches, we developed a simple modelling framework where two strains of pathogens, defined by a pair of life-history traits (infectious period and infectivity), interfere through a given level of cross-immunity. We used whooping cough as a potential example, but the framework proposed here could be applied to other acute infectious diseases. Specifically, we analysed the effects of these parameters on the invasion dynamics of one strain into a population, where the second strain is endemic. Whereas the deterministic version of the model converges towards stable coexistence of the two strains in most cases, stochastic simulations showed that transient epidemic dynamics can cause the extinction of either strain. Thus ecological dynamics, modulated by the immune parameters, eventually determine the adaptive value of different pathogen genotypes. We advocate an integrative view of pathogen dynamics at the crossroads of immunology, epidemiology and evolution, as a way towards efficient control of infectious diseases.

Antigenic Variation↗

PubMed1998

Rates of speciation in the fossil record.

Data from palaeontology and biodiversity suggest that the global biota should produce an average of three new species per year. However, the fossil record shows large variation around this mean. Rates of origination have declined through the Phanerozoic. This appears to have been largely a function of sorting among higher taxa (especially classes), which exhibit characteristic rates of speciation (and extinction) that differ among them by nearly an order of magnitude. Secular decline of origination rates is hardly constant, however; many positive deviations reflect accelerated speciation during rebounds from mass extinctions. There has also been general decline in rates of speciation within major taxa through their histories, although rates have tended to remain higher among members in tropical regions. Finally, pulses of speciation appear sometimes to be associated with climate change, although moderate oscillations of climate do not necessarily promote speciation despite forcing changes in species' geographical ranges.

Animals↗